diff --git a/.github/workflows/memote-history.yml b/.github/workflows/memote-history.yml index 59baf6bb..042fe6a4 100644 --- a/.github/workflows/memote-history.yml +++ b/.github/workflows/memote-history.yml @@ -6,56 +6,55 @@ jobs: memote-history: runs-on: ubuntu-latest steps: - - - name: Checkout - uses: actions/checkout@v2 - with: - fetch-depth: 0 - - - name: Set up Python 3 - uses: actions/setup-python@v2 - with: - python-version: '3.9.7' - - - name: Install memote - run: pip install -r code/requirements/ci-requirements.txt - - - name: Setup variables - id: setup - run: | - echo "::set-output name=history::history_report.html" - echo "::set-output name=deployment::$(awk -F '=' '{if (! ($0 ~ /^;/) && $0 ~ /deployment/) print $2}' memote.ini | tr -d ' ')" - echo "::set-output name=other-repo::gh-pages-repo" - - - name: Checkout repo for gh-pages branch - uses: actions/checkout@v2 - with: - repository: ${{ github.repository }} - ref: ${{ steps.setup.outputs.deployment }} - path: ${{ steps.setup.outputs.other-repo }} - - # - name: Convert model - # run: | - # touch .env - # python -c 'import code.io as io; model = io.read_yeast_model(make_bigg_compliant=True); io.write_yeast_model(model)' - - - name: Memote short run - run: | - git config --global user.name "memote-bot" - memote run --skip-unchanged --solver-timeout 30 - - - name: Compute Memote history on push - run: | - # Generate the history report on the deployment branch - memote report history --filename="${{ steps.setup.outputs.other-repo }}/${{ steps.setup.outputs.history }}" - - - name: Auto-commit results - uses: stefanzweifel/git-auto-commit-action@v4.4.0 - with: - commit_user_name: memote-bot - commit_message: "chore: update memote history report" - file_pattern: ${{ steps.setup.outputs.history }} - branch: ${{ steps.setup.outputs.deployment }} - repository: ${{ steps.setup.outputs.other-repo }} - env: - GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} + - name: Checkout + uses: actions/checkout@v3 + with: + fetch-depth: 0 + + - name: Set up Python 3 + uses: actions/setup-python@v4 + with: + python-version: "3.9" + + - name: Install memote + run: pip install -r code/requirements/ci-requirements.txt + + - name: Setup variables + id: setup + run: | + echo "::set-output name=history::history_report.html" + echo "::set-output name=deployment::$(awk -F '=' '{if (! ($0 ~ /^;/) && $0 ~ /deployment/) print $2}' memote.ini | tr -d ' ')" + echo "::set-output name=other-repo::gh-pages-repo" + + - name: Checkout repo for gh-pages branch + uses: actions/checkout@v2 + with: + repository: ${{ github.repository }} + ref: ${{ steps.setup.outputs.deployment }} + path: ${{ steps.setup.outputs.other-repo }} + + # - name: Convert model + # run: | + # touch .env + # python -c 'import code.io as io; model = io.read_yeast_model(make_bigg_compliant=True); io.write_yeast_model(model)' + + - name: Memote short run + run: | + git config --global user.name "memote-bot" + memote run --skip-unchanged --solver-timeout 30 + + - name: Compute Memote history on push + run: | + # Generate the history report on the deployment branch + memote report history --filename="${{ steps.setup.outputs.other-repo }}/${{ steps.setup.outputs.history }}" + + - name: Auto-commit results + uses: stefanzweifel/git-auto-commit-action@v4 + with: + commit_user_name: memote-bot + commit_message: "chore: update memote history report" + file_pattern: ${{ steps.setup.outputs.history }} + branch: ${{ steps.setup.outputs.deployment }} + repository: ${{ steps.setup.outputs.other-repo }} + env: + GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} diff --git a/.github/workflows/memote-release.yml b/.github/workflows/memote-release.yml new file mode 100644 index 00000000..b5642895 --- /dev/null +++ b/.github/workflows/memote-release.yml @@ -0,0 +1,43 @@ +name: memote release + +on: + release: + type: [published] + +jobs: + memote: + runs-on: ubuntu-latest + steps: + - name: Checkout main branch + uses: actions/checkout@v3 + with: + ref: main + + - name: Checkout gh-pages branch + uses: actions/checkout@v3 + with: + ref: gh-pages + path: gh-pages-repo + + - name: Set up Python 3 + uses: actions/setup-python@v4 + with: + python-version: "3.9" + + - name: Install memote + run: pip install -r code/requirements/requirements.txt + + - name: Memote run + run: | + memote report snapshot --solver-timeout 30 --filename="gh-pages-repo/release_report.html" + + - name: Auto-commit results + uses: stefanzweifel/git-auto-commit-action@v4 + with: + commit_user_name: memote-bot + commit_message: "chore: update memote release report" + file_pattern: release_report.html + branch: gh-pages + repository: gh-pages-repo + env: + GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} diff --git a/.github/workflows/memote-run.yml b/.github/workflows/memote-run.yml index f75354e9..d09f3a47 100644 --- a/.github/workflows/memote-run.yml +++ b/.github/workflows/memote-run.yml @@ -6,24 +6,20 @@ jobs: memote-run: runs-on: ubuntu-latest steps: + - name: Checkout + uses: actions/checkout@v3 - - name: Checkout - uses: actions/checkout@v2 + - name: Create .env + run: touch .env - - name: Set up Python 3 - uses: actions/setup-python@v2 - with: - python-version: '3.9.7' - - - name: Install memote - run: pip install -r code/requirements/ci-requirements.txt - - - name: Convert model - run: | - touch .env - python -c 'import code.io as io; model = io.read_yeast_model(make_bigg_compliant=True); io.write_yeast_model(model)' - - - name: Memote on PR - run: | - # Untracked build, skip saving to gh-pages - memote run --ignore-git --solver-timeout 30 + - name: Memote on PR + uses: addnab/docker-run-action@v3 + with: + image: ghcr.io/metabolicatlas/memote-docker:0.13 + options: -v ${{ github.workspace }}:/opt + shell: bash + run: | + cd /opt + pip install -r code/requirements/ci-requirements.txt + python -c 'import code.io as io; model = io.read_yeast_model(make_bigg_compliant=True); io.write_yeast_model(model)' + memote run --ignore-git --solver-timeout 30 diff --git a/.github/workflows/memote_release.yml b/.github/workflows/memote_release.yml deleted file mode 100644 index 2af1eae9..00000000 --- a/.github/workflows/memote_release.yml +++ /dev/null @@ -1,44 +0,0 @@ -name: memote release - -on: - release: - type: [published] - -jobs: - memote: - runs-on: ubuntu-latest - steps: - - - name: Checkout main branch - uses: actions/checkout@v2 - with: - ref: main - - - name: Checkout gh-pages branch - uses: actions/checkout@v2 - with: - ref: gh-pages - path: gh-pages-repo - - - name: Set up Python 3 - uses: actions/setup-python@v2 - with: - python-version: '3.9.7' - - - name: Install memote - run: pip install -r code/requirements/requirements.txt - - - name: Memote run - run: | - memote report snapshot --solver-timeout 30 --filename="gh-pages-repo/release_report.html" - - - name: Auto-commit results - uses: stefanzweifel/git-auto-commit-action@v4.4.0 - with: - commit_user_name: memote-bot - commit_message: "chore: update memote release report" - file_pattern: release_report.html - branch: gh-pages - repository: gh-pages-repo - env: - GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} diff --git a/.github/workflows/yaml-validation.yml b/.github/workflows/yaml-validation.yml index 8e74367d..3ebc4570 100644 --- a/.github/workflows/yaml-validation.yml +++ b/.github/workflows/yaml-validation.yml @@ -2,38 +2,35 @@ name: YAML validation on: push: - branches: [ develop ] + branches: [develop] pull_request: - branches: [ main, develop ] + branches: [main, develop] jobs: yaml-validation: runs-on: ubuntu-latest steps: + - name: Checkout + uses: actions/checkout@v3 - - name: Checkout - uses: actions/checkout@v2 - with: - fetch-depth: 1 + - name: YAML Lint + uses: ibiqlik/action-yamllint@v1 + with: + ## File(s) or Directory, separate by space if multiple files or folder are specified + file_or_dir: model/ + ## Custom configuration (as YAML source) + config_data: "{extends: default, rules: {line-length: disable}}" + ## Format for parsing output [parsable,standard,colored,auto] + # format: # optional, default is colored + ## Return non-zero exit code on warnings as well as errors + # strict: # optional, default is false - - name: YAML Lint - uses: ibiqlik/action-yamllint@v1.0.0 - with: - ## File(s) or Directory, separate by space if multiple files or folder are specified - file_or_dir: model/ - ## Custom configuration (as YAML source) - config_data: "{extends: default, rules: {line-length: disable}}" - ## Format for parsing output [parsable,standard,colored,auto] - # format: # optional, default is colored - ## Return non-zero exit code on warnings as well as errors - # strict: # optional, default is false - - - name: Set up Python 3 - uses: actions/setup-python@v2 - with: - python-version: '3.9.7' - - - name: Import with cobrapy - run: | - pip install -r code/requirements/ci-requirements.txt - python -c "import cobra ; cobra.io.load_yaml_model('model/yeast-GEM.yml')" + - name: Import with cobrapy + uses: addnab/docker-run-action@v3 + with: + image: ghcr.io/metabolicatlas/memote-docker:0.13 + options: -v ${{ github.workspace }}:/opt + shell: bash + run: | + cd /opt + python -c "import cobra ; cobra.io.load_yaml_model('model/yeast-GEM.yml')" diff --git a/README.md b/README.md index 79fb798f..a3bca20e 100644 --- a/README.md +++ b/README.md @@ -33,21 +33,7 @@ This repository contains the current consensus genome-scale metabolic model of _ | Taxonomy | Latest update | Version | Reactions | Metabolites | Genes | |:-------|:--------------|:------|:------|:----------|:-----| -| _Saccharomyces cerevisiae_ | 05-Sep-2022 | 8.6.2 | 4063 | 2744 | 1160 | - -### Gene essentiality prediction - -- Accuracy: 0.881 -- True non-essential genes: 926 -- True essential genes: 63 -- False non-essential genes: 96 -- False essential genes: 38 - -### Growth prediction - -- Correlation coefficient R2: 0.865 - -![Growth curve](growth.png) +| _Saccharomyces cerevisiae_ | 07-Jun-2023 | develop | 4099 | 2768 | 1161 | # Installation & usage @@ -117,4 +103,4 @@ Contributions are always welcome! Please read the [contributions guideline](http ## Contributors -Code contributors are reported automatically by GitHub under [Contributors](https://github.com/SysBioChalmers/yeast-GEM/graphs/contributors), while other contributions come in as [Issues](https://github.com/SysBioChalmers/yeast-GEM/issues). \ No newline at end of file +Code contributors are reported automatically by GitHub under [Contributors](https://github.com/SysBioChalmers/yeast-GEM/graphs/contributors), while other contributions come in as [Issues](https://github.com/SysBioChalmers/yeast-GEM/issues). diff --git a/code/modelCuration/v8_6_2.m b/code/modelCuration/v8_6_2.m new file mode 100644 index 00000000..ded8d5b4 --- /dev/null +++ b/code/modelCuration/v8_6_2.m @@ -0,0 +1,49 @@ +% This scripts applies curations to be applied on yeast-GEM release 8.6.2. +% Indicate which Issue/PR are addressed. If multiple curations are performed +% before a new release is made, just add the required code to this script. If +% more extensive coding is required, you can write a separate (generic) function +% that can be kept in the /code/modelCuration folder. Otherwise, try to use +% existing functions whenever possible. In particular /code/curateMetsRxnsGenes +% can do many types of curation. + +%% Load yeast-GEM 8.6.2 (requires local yeast-GEM git repository) +cd .. +model = getEarlierModelVersion('8.6.2'); +model.id='yeastGEM_develop'; +dataDir=fullfile(pwd(),'..','data','modelCuration','v8_6_2'); +cd modelCuration + +%% Volatile Esters & Polyphosphate Reactions (PR #336) +% See https://github.com/SysBioChalmers/yeast-GEM/pull/336 for more detailed +% explanation of what changes were made by including 8 new distinct ester +% reactions and polyphosphate synthesis and transport reactions. + +%% Curate gene association for transport rxns (PR #306) +% Add new reactions and genes +metsInfo = fullfile(dataDir,'VolPolyPMets.tsv'); +genesInfo = fullfile(dataDir,'VolPolyPGenes.tsv'); +rxnsCoeffs = fullfile(dataDir,'VolPolyPRxnsCoeffs.tsv'); +rxnsInfo = fullfile(dataDir,'VolPolyPRxns.tsv'); + +model = curateMetsRxnsGenes(model, metsInfo, genesInfo, rxnsCoeffs, rxnsInfo); + + +%% DO NOT CHANGE OR REMOVE THE CODE BELOW THIS LINE. +% Show some metrics: +cd ../modelTests +disp('Run gene essentiality analysis') +[new.accuracy,new.tp,new.tn,new.fn,new.fp] = essentialGenes(model); +fprintf('Genes in model: %d\n',numel(model.genes)); +fprintf('Gene essentiality accuracy: %.4f\n', new.accuracy); +fprintf('True non-essential genes: %d\n', numel(new.tp)); +fprintf('True essential genes: %d\n', numel(new.tn)); +fprintf('False non-essential genes: %d\n', numel(new.fp)); +fprintf('False essential genes: %d\n', numel(new.fn)); +fprintf('\nRun growth analysis\n') +R2=growth(model); +fprintf('R2 of growth prediction: %.4f\n', R2); + +% Save model: +cd .. +saveYeastModel(model) +cd modelCuration diff --git a/data/modelCuration/v8_6_2/VolPolyPGenes.tsv b/data/modelCuration/v8_6_2/VolPolyPGenes.tsv new file mode 100644 index 00000000..dec1cd65 --- /dev/null +++ b/data/modelCuration/v8_6_2/VolPolyPGenes.tsv @@ -0,0 +1,2 @@ +genes geneShortName ncbigene refseq uniprot kegg.genes ecogene hprd asap ccds ncbiprotein +YJL012C VTC4 853441 NM_001181446 P47075 sce:YJL012C NP_012522 diff --git a/data/modelCuration/v8_6_2/VolPolyPMets.tsv b/data/modelCuration/v8_6_2/VolPolyPMets.tsv new file mode 100644 index 00000000..da5802ad --- /dev/null +++ b/data/modelCuration/v8_6_2/VolPolyPMets.tsv @@ -0,0 +1,25 @@ +metNames comps formula charge inchi metNotes kegg.compound chebi pubchem.compound metanetx.chemical seed.compound bigg.metabolite biocyc envipath lipidmaps reactome sabiork.compound slm +ethyl (2S)-lactate e C5H10O3 0 CHEBI:78322 MNXM155838 +ethyl (2S)-lactate c C5H10O3 0 CHEBI:78322 MNXM155838 +ethyl (2R)-lactate e C5H10O3 0 CHEBI:78323 MNXM155836 +ethyl (2R)-lactate c C5H10O3 0 CHEBI:78323 MNXM155836 +diethyl succinate c C8H14O4 0 CHEBI:169507 MNXM124844 +diethyl succinate e C8H14O4 0 CHEBI:169507 MNXM124844 +monoethyl succinate c C6H9O4 -1 CHEBI:88827 MNXM151146 +monoethyl succinate e C6H9O4 -1 CHEBI:88827 MNXM151146 +ethyl benzoate c C9H10O2 0 CHEBI:156074 MNXM125514 +ethyl benzoate e C9H10O2 0 CHEBI:156074 MNXM125514 +ethyl pyruvate c C5H8O3 0 CHEBI:173421 MNXM52836 +ethyl pyruvate e C5H8O3 0 CHEBI:173421 MNXM52836 +2-methylbutyrate c C5H9O2 -1 C18319 CHEBI:37070 MNXM9859 +ethyl 2-methylbutyrate c C7H14O2 0 CHEBI:88452 MNXM99666 +ethyl 2-methylbutyrate e C7H14O2 0 CHEBI:88452 MNXM99666 +isobutyrate c C4H7O2 -1 CHEBI:48944 MNXM1137661 ibt +ethyl isobutyrate c C6H12O2 0 CHEBI:87303 MNXM99814 +ethyl isobutyrate e C6H12O2 0 CHEBI:87303 MNXM99814 +benzyl acetate c C9H10O2 0 C15513 CHEBI:52051 MNXM3217 +benzyl acetate e C9H10O2 0 C15513 CHEBI:52051 MNXM3217 +polyphosphate v HO7P2 -3 C00404 CHEBI:16838 MNXM77738 +polyphosphate m HO7P2 -3 C00404 CHEBI:16838 MNXM77738 +polyphosphate n HO7P2 -3 C00404 CHEBI:16838 MNXM77738 +phosphate n HO4P -2 C00009 CHEBI:43474 MNXM9 pi diff --git a/data/modelCuration/v8_6_2/VolPolyPRxns.tsv b/data/modelCuration/v8_6_2/VolPolyPRxns.tsv new file mode 100644 index 00000000..f8cc7f00 --- /dev/null +++ b/data/modelCuration/v8_6_2/VolPolyPRxns.tsv @@ -0,0 +1,37 @@ +rxnNames grRules lb ub rev subSystems eccodes rxnNotes rxnReferences rxnConfidenceScores kegg.reaction kegg.pathway bigg.reaction metanetx.reaction brenda biocyc reactome sabiork.reaction seed.reactions rhea +ethyl-(2S)-lactate esterase, c YOR126C -1000 1000 1 Fatty acid ester pathway 3.1.-.- Volatile esters and polyphosphate curation (PR #337) 10.1006/fmic.1999.0272; 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z 2 +ethyl-(2R)-lactate esterase, c YOR126C -1000 1000 1 Fatty acid ester pathway 3.1.-.- Volatile esters and polyphosphate curation (PR #337) 10.1006/fmic.1999.0272; 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z 2 +diethyl-succinate esterase, c YOR126C -1000 1000 1 Fatty acid ester pathway 3.1.-.- Volatile esters and polyphosphate curation (PR #337) 10.1016/S0889-1575(03)00021-8; 10.1006/fmic.1999.0272; 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z 2 +monoethyl-succinate esterase, c YOR126C -1000 1000 1 Fatty acid ester pathway 3.1.-.- Volatile esters and polyphosphate curation (PR #337) 10.1016/S0889-1575(03)00021-8; 10.1038/s41598-022-16554-z 2 +ethyl-benzoate esterase, c YOR126C -1000 1000 1 Fatty acid ester pathway 3.1.-.- Volatile esters and polyphosphate curation (PR #337) 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z 2 +ethyl-pyruvate esterase, c YOR126C -1000 1000 1 Fatty acid ester pathway 3.1.-.- Volatile esters and polyphosphate curation (PR #337) 10.1006/fmic.1999.0272; 10.1038/s41598-022-16554-z 2 +benzyl-acetate esterase, c YOR126C -1000 1000 1 Fatty acid ester pathway 3.1.-.- Volatile esters and polyphosphate curation (PR #337) 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z 2 +isobutyraldehyde dehydrogenase, c YOR374W or YPL061W -1000 1000 1 Fatty acid ester pathway 1.2.1.3 Volatile esters and polyphosphate curation (PR #337) 10.1042/BSR20160529 2 R00538 +2-methylbutanal dehydrogenase, c YOR374W or YPL061W -1000 1000 1 Fatty acid ester pathway 1.2.1.3 Volatile esters and polyphosphate curation (PR #337) 10.1042/BSR20160529 1 R00538 +ethyl-isobutyrate esterase, c YOR126C -1000 1000 1 Fatty acid ester pathway 3.1.-.- Volatile esters and polyphosphate curation (PR #337) 10.1038/s41598-022-16554-z 2 +ethyl-2-methylbutyrate esterase, c YOR126C -1000 1000 1 Fatty acid ester pathway 3.1.-.- Volatile esters and polyphosphate curation (PR #337) 10.1038/s41598-022-16554-z 2 +polyphosphate polymerase, c YJL012C 0 1000 0 Oxidative phosphorylation 2.7.4.1 Volatile esters and polyphosphate curation (PR #337) 10.1126/science.1168120; 10.3390/biology10060487 3 R02184 +polyphosphate phosphohydrolase, v YHR201C or YDR452W -1000 1000 1 Oxidative phosphorylation 3.6.1.10; 3.6.1.11 Volatile esters and polyphosphate curation (PR #337) 10.1007/s10540-006-9003-2 2 R03042 MNXR107906 +polyphosphate phosphohydrolase, m YHR201C or YDR452W -1000 1000 1 Oxidative phosphorylation 3.6.1.10; 3.6.1.11 Volatile esters and polyphosphate curation (PR #337) 10.1016/0014-5793(89)80882-8; 10.1023/a:1023648509241 2 R03042 +polyphosphate phosphohydrolase, n YHR201C or YDR452W -1000 1000 1 Oxidative phosphorylation 3.6.1.10; 3.6.1.11 Volatile esters and polyphosphate curation (PR #337) 10.1002/yea.1391; 10.1007/s10540-006-9003-2 2 R03042 +ethyl-(2S)-lactate transport -1000 1000 1 Transport [c, e] Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-(2S)-lactate exchange 0 1000 0 Exchange reaction Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-(2R)-lactate transport -1000 1000 1 Transport [c, e] Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-(2R)-lactate exchange 0 1000 0 Exchange reaction Volatile esters and polyphosphate curation (PR #337) 2 +diethyl-succinate transport -1000 1000 1 Transport [c, e] Volatile esters and polyphosphate curation (PR #337) 2 +diethyl-succinate exchange 0 1000 0 Exchange reaction Volatile esters and polyphosphate curation (PR #337) 2 +monoethyl-succinate transport -1000 1000 1 Transport [c, e] Volatile esters and polyphosphate curation (PR #337) 2 +monoethyl-succinate exchange 0 1000 0 Exchange reaction Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-benzoate transport -1000 1000 1 Transport [c, e] Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-benzoate exchange 0 1000 0 Exchange reaction Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-pyruvate transport -1000 1000 1 Transport [c, e] Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-pyruvate exchange 0 1000 0 Exchange reaction Volatile esters and polyphosphate curation (PR #337) 2 +benzyl-acetate transport -1000 1000 1 Transport [c, e] Volatile esters and polyphosphate curation (PR #337) 2 +benzyl-acetate exchange 0 1000 0 Exchange reaction Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-isobutyrate transport -1000 1000 1 Transport [c, e] Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-isobutyrate exchange 0 1000 0 Exchange reaction Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-2-methylbutyrate transport -1000 1000 1 Transport [c, e] Volatile esters and polyphosphate curation (PR #337) 2 +ethyl-2-methylbutyrate exchange 0 1000 0 Exchange reaction Volatile esters and polyphosphate curation (PR #337) 2 +polyphosphate transport, v-c -1000 1000 1 Transport [c, v] Volatile esters and polyphosphate curation (PR #337) 1 +polyphosphate transport, c-m -1000 1000 1 Transport [c, m] Volatile esters and polyphosphate curation (PR #337) 1 +polyphosphate transport, c-n -1000 1000 1 Transport [c, n] Volatile esters and polyphosphate curation (PR #337) 1 diff --git a/data/modelCuration/v8_6_2/VolPolyPRxnsCoeffs.tsv b/data/modelCuration/v8_6_2/VolPolyPRxnsCoeffs.tsv new file mode 100644 index 00000000..41348b82 --- /dev/null +++ b/data/modelCuration/v8_6_2/VolPolyPRxnsCoeffs.tsv @@ -0,0 +1,113 @@ +rxnNames metNames comps coefficient +ethyl-(2S)-lactate esterase, c H+ c -1 +ethyl-(2S)-lactate esterase, c ethanol c -1 +ethyl-(2S)-lactate esterase, c (S)-lactate c -1 +ethyl-(2S)-lactate esterase, c ethyl (2S)-lactate c 1 +ethyl-(2S)-lactate esterase, c H2O c 1 +ethyl-(2R)-lactate esterase, c H+ c -1 +ethyl-(2R)-lactate esterase, c ethanol c -1 +ethyl-(2R)-lactate esterase, c (R)-lactate c -1 +ethyl-(2R)-lactate esterase, c ethyl (2R)-lactate c 1 +ethyl-(2R)-lactate esterase, c H2O c 1 +diethyl-succinate esterase, c H+ c -2 +diethyl-succinate esterase, c ethanol c -2 +diethyl-succinate esterase, c succinate c -1 +diethyl-succinate esterase, c diethyl succinate c 1 +diethyl-succinate esterase, c H2O c 2 +monoethyl-succinate esterase, c H+ c -1 +monoethyl-succinate esterase, c ethanol c -1 +monoethyl-succinate esterase, c succinate c -1 +monoethyl-succinate esterase, c monoethyl succinate c 1 +monoethyl-succinate esterase, c H2O c 1 +ethyl-benzoate esterase, c H+ c -1 +ethyl-benzoate esterase, c ethanol c -1 +ethyl-benzoate esterase, c Benzoate c -1 +ethyl-benzoate esterase, c ethyl benzoate c 1 +ethyl-benzoate esterase, c H2O c 1 +ethyl-pyruvate esterase, c H+ c -1 +ethyl-pyruvate esterase, c ethanol c -1 +ethyl-pyruvate esterase, c pyruvate c -1 +ethyl-pyruvate esterase, c ethyl pyruvate c 1 +ethyl-pyruvate esterase, c H2O c 1 +benzyl-acetate esterase, c H+ c -1 +benzyl-acetate esterase, c acetate c -1 +benzyl-acetate esterase, c benzyl alcohol c -1 +benzyl-acetate esterase, c benzyl acetate c 1 +benzyl-acetate esterase, c H2O c 1 +isobutyraldehyde dehydrogenase, c isobutyraldehyde c -1 +isobutyraldehyde dehydrogenase, c NAD c -1 +isobutyraldehyde dehydrogenase, c H2O c -1 +isobutyraldehyde dehydrogenase, c isobutyrate c 1 +isobutyraldehyde dehydrogenase, c NADH c 1 +isobutyraldehyde dehydrogenase, c H+ c 2 +2-methylbutanal dehydrogenase, c NAD c -1 +2-methylbutanal dehydrogenase, c H2O c -1 +2-methylbutanal dehydrogenase, c 2-methylbutanal c -1 +2-methylbutanal dehydrogenase, c 2-methylbutyrate c 1 +2-methylbutanal dehydrogenase, c NADH c 1 +2-methylbutanal dehydrogenase, c H+ c 2 +ethyl-isobutyrate esterase, c H+ c -1 +ethyl-isobutyrate esterase, c ethanol c -1 +ethyl-isobutyrate esterase, c isobutyrate c -1 +ethyl-isobutyrate esterase, c ethyl isobutyrate c 1 +ethyl-isobutyrate esterase, c H2O c 1 +ethyl-2-methylbutyrate esterase, c H+ c -1 +ethyl-2-methylbutyrate esterase, c ethanol c -1 +ethyl-2-methylbutyrate esterase, c 2-methylbutyrate c -1 +ethyl-2-methylbutyrate esterase, c ethyl 2-methylbutyrate c 1 +ethyl-2-methylbutyrate esterase, c H2O c 1 +polyphosphate polymerase, c ATP c -2 +polyphosphate polymerase, c H2O c -1 +polyphosphate polymerase, c H+ c 1 +polyphosphate polymerase, c polyphosphate v 1 +polyphosphate phosphohydrolase, v H2O v -1 +polyphosphate phosphohydrolase, v polyphosphate v -1 +polyphosphate phosphohydrolase, v H+ v 1 +polyphosphate phosphohydrolase, v phosphate v 2 +polyphosphate phosphohydrolase, m H2O m -1 +polyphosphate phosphohydrolase, m polyphosphate m -1 +polyphosphate phosphohydrolase, m H+ m 1 +polyphosphate phosphohydrolase, m phosphate m 2 +polyphosphate phosphohydrolase, n H2O n -1 +polyphosphate phosphohydrolase, n polyphosphate n -1 +polyphosphate phosphohydrolase, n H+ n 1 +polyphosphate phosphohydrolase, n phosphate n 2 +ethyl-(2S)-lactate transport ethyl (2S)-lactate c -1 +ethyl-(2S)-lactate transport ethyl (2S)-lactate e 1 +ethyl-(2S)-lactate exchange ethyl (2S)-lactate e -1 +ethyl-(2R)-lactate transport ethyl (2R)-lactate c -1 +ethyl-(2R)-lactate transport ethyl (2R)-lactate e 1 +ethyl-(2R)-lactate exchange ethyl (2R)-lactate e -1 +diethyl-succinate transport diethyl succinate c -1 +diethyl-succinate transport diethyl succinate e 1 +diethyl-succinate exchange diethyl succinate e -1 +monoethyl-succinate transport monoethyl succinate c -1 +monoethyl-succinate transport monoethyl succinate e 1 +monoethyl-succinate exchange monoethyl succinate e -1 +ethyl-benzoate transport ethyl benzoate c -1 +ethyl-benzoate transport ethyl benzoate e 1 +ethyl-benzoate exchange ethyl benzoate e -1 +ethyl-pyruvate transport ethyl pyruvate c -1 +ethyl-pyruvate transport ethyl pyruvate e 1 +ethyl-pyruvate exchange ethyl pyruvate e -1 +benzyl-acetate transport benzyl acetate c -1 +benzyl-acetate transport benzyl acetate e 1 +benzyl-acetate exchange benzyl acetate e -1 +ethyl-isobutyrate transport ethyl isobutyrate c -1 +ethyl-isobutyrate transport ethyl isobutyrate e 1 +ethyl-isobutyrate exchange ethyl isobutyrate e -1 +ethyl-2-methylbutyrate transport ethyl 2-methylbutyrate c -1 +ethyl-2-methylbutyrate transport ethyl 2-methylbutyrate e 1 +ethyl-2-methylbutyrate exchange ethyl 2-methylbutyrate e -1 +polyphosphate transport, v-c polyphosphate v -1 +polyphosphate transport, v-c H+ v -1 +polyphosphate transport, v-c polyphosphate c 1 +polyphosphate transport, v-c H+ c 1 +polyphosphate transport, c-m polyphosphate c -1 +polyphosphate transport, c-m H+ c -1 +polyphosphate transport, c-m polyphosphate m 1 +polyphosphate transport, c-m H+ m 1 +polyphosphate transport, c-n polyphosphate c -1 +polyphosphate transport, c-n H+ c -1 +polyphosphate transport, c-n polyphosphate n 1 +polyphosphate transport, c-n H+ n 1 diff --git a/growth.png b/growth.png deleted file mode 100644 index c1f927c8..00000000 Binary files a/growth.png and /dev/null differ diff --git a/history.md b/history.md deleted file mode 100644 index 82a228da..00000000 --- a/history.md +++ /dev/null @@ -1,263 +0,0 @@ -# History - -### yeast 8.6.2: -- Fixes: - - Correct ATP synthase mitochondrial complex gene associations. (PR #323) - -### yeast 8.6.1: -- Fixes: - - Manual curation of gene associations of transport reactions, based on various databases. (PR #306, closes #160) - - Correct annotation of gene associations of enzyme complex, based on Complex Portal, Uniprot and SGD. (PR #305) - - Curate 19 new GPR and consolidate curations between model releases. (PR #313) -- Features: - - Assignment of single `subSystem` per reactions. (PR #307, closes #11) -- Refactor: - - Reduce software dependencies of `modelTests`. (PR #305, closes #309) - -### yeast 8.6.0: -- Fixes: - - Closes #265: Make `r_0446` (formate-tetrahydrofolate ligase) irreversible, to prevent non-zero flux through TCA cycle. (PR #290) -- Features: - - Add pathways responsible for the formation of hydrogen sulfide as well as other volatile sulfur compounds during fermentation (PR #300) - - Closes #302: Simplify model curation with `curateRxnsGenesMets` function (PR #300) - - Remove COBRA Toolbox and MATLAB-git dependencies for the MATLAB-based curation pipeline (PR #303) - - Closes #308: Distribute `yeast-GEM.mat` in RAVEN's format, to include `grRules` and `metComps` fields (PR #301) -- Refactor: - - Change format of `yeast-GEM.txt` file to include metabolite names and compartments, instead of metabolite identifiers, to simplify `diff`-ing (metabolite identifiers are already trackable in the `yml`-file) (PR #312) - -### yeast 8.5.0: -- Features: - - Set up memote as GitHub Action for pull requests (PR #162) - - Moved old subSystems to reaction annotations (in `rxnMiriams` or `rxnKEGGpathways`) (PR #253) -- Fixes: - - Combine glycolysis + gluconeogenesis as single KEGG pathway annotations (PR #251). - - Closes #252: Correct grRule of r_4590 (PR #255). - - Closes #254: Corrects name of s_1218 (PR #255). - - `saveYeastModel.m` now correctly handles Unicode characters (PR #255). - - Closes #238: Correct indentation of `yeastGEM.yml` (PR #236 and #255). -- Chore: - - Update dependencies in `*requirements.txt` (PR #256). - - Minor changes in model file formatting due to updates in COBRA+RAVEN toolboxes (PR #253). -- Refactor: - - Closes #232: Follow `standard-GEM` specifications (PR #257). - - Closes #258: Rename git branches `master` and `devel` to `main` and `develop` (PR #261). - -### yeast 8.4.2: -* Features: - * `saveYeastModel.m` now checks if the model can grow and, based on the `allowNoGrowth` flag, returns either warnings or errors if not (PR #244). - * Added several fatty acid ester producing reactions to the model, for improved simulation of alcoholic fermentation conditions (PRs #190 and #248). -* Fixes: - * Closes #242: Fixed a bug that prevented the model from growing (PR #243). - * Corrected directionality of 23 reactions and removed a generic reaction (PR #228). - -### yeast 8.4.1: -* Features: - * Switched to `pip-tools` for managing python dependencies, distinguishing between user requirements `/requirements/requirements.txt` and developer requirements `/requirements/dev-requirements.txt` (PR #235). -* Fixes: - * Closes #201: Changed generic protein name to avoid confusion (PR #237). - * Closes #205: Finished correcting reactions' stoichiometry based on KEGG data (PR #237). - * Closes #215: Corrected wrong gene rule in reaction (PR #237). - * Closes #225: Moved MNX rxn ids from notes to the proper annotation field (PR #226). -* Documentation: - * Closes #223: Clarified releasing steps, including authorship criteria for Zenodo releases, in contributing guidelines (PR #233). - * Closes #227: Removed authorships/dates from all scripts, as it is redundant information (PR #230). - * Added admin guidelines for managing python dependencies (PR #235). - * Included links for model visualization in README file (PR #240). - -### yeast 8.4.0: -* Features: - * New functions `mapKEGGID.m ` and `mapMNXMID.m` for adding ids in model. Used them to add missing KEGG and MetaNetX ids for both metabolites and reactions (PR #220). - * Solves #197: Added missing MetaNetX ids using KEGG ids and ChEBI ids (PR #220). - * Added BiGG ids for all matched metabolites/reactions using MetaNetX + manual curation, together with lists containing new BiGG ids for the unmatched ones (PR #188). - * New functions `read_yeast_model` and `write_yeast_model` for easier usage in python (PR #224). - * Solves #172: Model can now be loaded with BiGG ids as main ids, for better compliance with cobrapy (PR #224). -* Fixes: - * Solves #102: Every component of the model is now preserved when the model is opened with cobrapy, including gene names (PR #216). - * Manual curation of MetaNetX, KEGG and ChEBI ids for metabolites/reactions (PRs #188 and #220). - * Solves #187: Removed some duplicate reactions in the model (PR #188). - * Mass/charge balanced most unbalanced reactions in model using `checkSmatrixMNX.m`, bringing the number down to 17 reactions (PR #222). -* Others: - * Configured repo to ensure that files always use `LF` as EOL character (PR #221). - * Gene SBO terms are now recorded, after update in COBRA toolbox (PR #188). - -### yeast 8.3.5: -* Fixes: - * Closes #129: Removed non-S288C genes (PR #211). - * Closes #198: Fixes function for converting model to anaerobic (PR #199). -* Tests: - * Added growth tests for carbon & nitrogen limitation (#199). - * Added test for computing gene essentiality (PR #200). -* Documentation/Others: - * Clarified with README's the purpose of each script/data folder (#209). - * Closes #206: Updated citation guidelines (PR #210). - * Updated contribution guidelines + issue/PR templates (PR #210). - * Created folders with deprecated scripts (PR #209). - -### yeast 8.3.4: -* Features: - * Fixes #171: Added 101 GPR rules to transport rxns according to TCDB database (PR #178). - * Added 18 met formulas from manual search (PR #155). - * Performed gap-filling for connecting 29 dead-end mets, by adding 28 transport rxns (PR #185). Added documentation to the gap-filling functions in PR #195. -* Fixes: - * Corrected typo in gene ID (PR #186). - -### yeast 8.3.3: -* Features: - * Fixes #107: Two new pseudoreactions (`cofactor pseudoreaction` and `ion pseudoreaction`) added to the model as extra requirements to the biomass pseudoreaction (PRs #174 & #183). -* Fixes: - * `addSBOterms.m` adapted to identify new pseudoreactions (PR #180). - * Removed non-compliant symbol from a reaction name to avoid parsing errors (PR #179). -* Documentation: - * Model keywords modified to comply with the sysbio rulebook (PR #173). - * Added citation guidelines (PR #181). - -### yeast 8.3.2: -* Features: - * Fixes #154: MetaNetX IDs added from the yeast7.6 [MetaNetX](https://www.metanetx.org) model & from existing ChEBI and KEGG IDs in the model (PR #167). - * Introduced contributing guidelines + code of conduct (PR #175). -* Fixes: - * Fixes #161: Added as `rxnNotes` and `metNotes` the corresponding PR number (#112, #142, #149 or #156) in which each rxn and met was introduced (PR #170). - * Fixes #169: Compartment error for `r_4238` (PR #170). - * Corrected confidence score of rxns from PR #142 (PR #170). - -### yeast 8.3.1: -* Features: - * Added 21 reactions & 14 metabolites based on metabolomics data (PR #156). - * Added metadata to the excel version of the model (PR #163). - * Added `ComplementaryData/physiology` with biological data of yeast (PR #159). -* Fixes/Others: - * Fixed bug that underestimated the biomass content (PR #159). - * Fitted GAM to chemostat data (PR #159). - -### yeast 8.3.0: -* Features: - * Added 225 new reactions and 148 new metabolites, based on growth data from a Biolog substrate usage experiment on carbon, nitrogen, sulfur and phosphorus substrates (PR #149). -* Fixes/Others: - * Removed verbose details from `README.md` (PR #150). - * Updated RAVEN, which added extra annotation to the `.yml` file (PR #151). - * Minor changes to `saveYeastModel.m` (PR #152). - * Model is now stored simulating minimal media conditions (PR #157). - -### yeast 8.2.0: -* Features: - * Fixes #38: Added 183 new reactions, 277 new metabolites and 163 new genes based on the latest genome annotation in SGD, uniprot, KEGG, Biocyc & Reactome (PR #142). -* Fixes: - * `grRules` deleted from pseudoreactions, removing with this 49 genes (PR #145). -* Chores: - * Updated COBRA, which changed the number of decimals in some stoichiometric coefficients in `.txt` (PR #143) - -### yeast 8.1.3: -* Features: - * Added SBO terms for all metabolites and reactions, based on an automatic script now part of `saveYeastModel.m` (PR #132). - * `increaseVersion.m` now avoids conflicts between `devel` and `master` by erroring before releasing and guiding the admin to change first `devel` (PR #133). - * Website now available in `gh-pages` branch: http://sysbiochalmers.github.io/yeast-GEM/ -* Fixes: - * Standardize naming of pseudo-metabolites "lipid backbone" & "lipid chain" (PR #130). -* Chores: - * Updated COBRA, which swapped around the order of the `bqbiol:is` and `bqbiol:isDescribedBy` qualifiers in the `.xml` file (PR #131). - -### yeast 8.1.2: -* New features: - * `saveYeastModel.m` now checks if the model is a valid SBML structure; if it isn't it will error (PR #126). - * Date + model size in `README.md` updates automatically when saving the model (PR #123). - * Added `modelName` and `modelID`; the latter which will now store the version number (PR #127). -* Fixes: - * Fixes #60: New GPR relations for existing reactions were added according to new annotation from 5 different databases (PR #124). - * Various fixes in `README.md` (PR #123). - -### yeast 8.1.1: -* Fixes: - * Fixes #96: regardless if the model is saved with a windows or a MAC machine, the `.xml` file is now stored with the same scientific format. - * Fixes #108: No CHEBI or KEGG ids are now shared by different metabolites. Also, updated the metabolites that were skipped in the previous manual curation (PR #74). - * Remade function for defining confidence scores, which fixed 38 scores in `rxnConfidenceScores` (most of them from pseudoreactions). - * `loadYeastModel` and `saveYeastModel` were improved to allow their use also when outside of the actual folder. - -### yeast 8.1.0: -* New features: - * SLIME reactions added to the model using [SLIMEr](https://github.com/SysBioChalmers/SLIMEr), to properly account for constraints on lipid metabolism (fixes #21): - * SLIME rxns replace old ISA rxns for lumping lipids. They create 2 types of lipid pseudometabolites: backbones and acyl chains. - * There are now 3 lipid pseudoreactions: 1 constrains backbones, 1 constrains acyl chains, 1 merges both. -* Fixes: - * All metabolite formulas made compliant with SBML (fixes #19). Model is now a valid SBML object. - * Biomass composition was rescaled to experimental data from [Lahtvee et al. 2017](https://www.sciencedirect.com/science/article/pii/S2405471217300881), including protein and RNA content, trehalose and glycogen concentrations, lipid profile and FAME data. Biomass was fitted to add up to 1 g/gDW by rescaling total carbohydrate content (unmeasured). -* Refactoring: - * Organized all files in `ComplementaryData` - -### yeast 8.0.2: -* New features: - * Model can now be used with cobrapy by running `loadYeastModel.py` - * `loadYeastModel.m` now adds the `rxnGeneMat` field to the model -* Refactoring: - * Moved `pmids` of model from `rxnNotes` to `rxnReferences` (COBRA-compliant) - * `yeastGEM.yml` and `dependencies.txt` are now updated by RAVEN (a few dependencies added) - * Moved `boundaryMets.txt` and `dependencies.txt` to the `ModelFiles` folder -* Documentation: - * Added badges and adapted README ro reflect new features - -### yeast 8.0.1: -* `.yml` format included for easier visualization of model changes -* Empty notes removed from model -* Issue and PR templates included -* `README.md` updated to comply with new repo's name - -### yeast 8.0.0: -First version of the yeast8 model, to separate it from previous versions: - -* Manual curation project: - * All metabolite information manually curated (names, charges, kegg IDs, chebi IDs) - * Reaction gene rules updated with curation from [the iSce926 model](http://www.maranasgroup.com/submission_models/iSce926.htm). 13 genes added in this process -* Format changes: - * Folder `ComplementaryData` introduced - * All data is stored in `.tsv` format now (can be navigated in Github) - * Releases now come in `.xlsx` as well -* Other new features: - * Added `loadYeastModel.m` - * A much smarter `increaseVersion.m` - * Lots of refactoring - -### yeast 7.8.3: -* curated tRNA's formulas -* started tracking COBRA and RAVEN versions -* dropped SBML toolbox as requirement -* reorganized `complementaryScripts` -* switched to a CC-BY-4.0 license - -### yeast 7.8.2: -* fixed subSystems bug: now they are saved as individual groups -* solved inter-OS issues -* remade license to follow GitHub format -* added `history.md` and made it a requirement to update when increasing version - -### yeast 7.8.1: -* started following dependencies -* started keeping track of the version in the repo (`version.txt`) -* included `.gitignore` -* dropped `.mat` storage for `devel` + feature branches (but kept it in `master`) - -### yeast 7.8.0: -* Added information: - * `metFormulas` added for all lipids - * `rxnKEGGID` added from old version - * `rxnNotes` enriched with Pubmed ids (`pmid`) from old version - * `rxnConfidenceScores` added based on automatic script (available in [`ComplementaryScripts`](https://github.com/SysBioChalmers/yeast-GEM/blob/master/ComplementaryScripts)) -* Format changes: - * Biomass clustered by 5 main groups: protein, carbohydrate, lipid, RNA and DNA - -### yeast 7.7.0: -* Format changes: - * FBCv2 compliant - * Compatible with latest COBRA and RAVEN parsers - * Created main structure of repository -* Added information: - * `geneNames` added to genes based on [KEGG](http://www.genome.jp/kegg/) data - * `subSystems` and `rxnECnumbers` added to reactions based on [KEGG](http://www.genome.jp/kegg/) & [Swissprot](http://www.uniprot.org/uniprot/?query=*&fil=organism%3A%22Saccharomyces+cerevisiae+%28strain+ATCC+204508+%2F+S288c%29+%28Baker%27s+yeast%29+%5B559292%5D%22+AND+reviewed%3Ayes) data - * Boundary metabolites tracked (available in [`ComplementaryScripts`](https://github.com/SysBioChalmers/yeast-GEM/blob/master/ComplementaryScripts)) -* Simulation improvements: - * Glucan composition fixed in biomass pseudo-rxn - * Proton balance in membrane restored - * Ox.Pho. stoichiometry fixed - * NGAM rxn introduced - * GAM in biomass pseudo-rxn fixed and refitted to chemostat data - -### yeast 7.6.0: -First release of the yeast model in GitHub, identical to the last model available at https://sourceforge.net/projects/yeast/ \ No newline at end of file diff --git a/model/dependencies.txt b/model/dependencies.txt index 76a5ff7a..72c82feb 100644 --- a/model/dependencies.txt +++ b/model/dependencies.txt @@ -1,4 +1,4 @@ -MATLAB 9.12.0.1956245 (R2022a) Update 2 +MATLAB 9.12.0.2039608 (R2022a) Update 5 libSBML 5.19.0 -RAVEN_toolbox commit 20950d8 +RAVEN_toolbox commit 8793679 COBRA_toolbox unknown diff --git a/model/yeast-GEM.mat b/model/yeast-GEM.mat deleted file mode 100644 index 522b16f2..00000000 Binary files a/model/yeast-GEM.mat and /dev/null differ diff --git a/model/yeast-GEM.txt b/model/yeast-GEM.txt index ff5b5a95..bbfcc8f1 100755 --- a/model/yeast-GEM.txt +++ b/model/yeast-GEM.txt @@ -4062,3 +4062,39 @@ r_4707 H2O[c] + trithionate[c] <=> sulphate[c] + thiosulfate[c] -1000.00 1000. r_4708 hydrogen sulfide[e] => 0.00 1000.00 0.00 r_4709 alkanesulfonate[e] => 0.00 1000.00 0.00 r_4710 taurocholate[e] => 0.00 1000.00 0.00 +r_4711 (S)-lactate[c] + ethanol[c] + H+[c] <=> H2O[c] + ethyl (2S)-lactate[c] YOR126C -1000.00 1000.00 0.00 +r_4712 (R)-lactate[c] + ethanol[c] + H+[c] <=> H2O[c] + ethyl (2R)-lactate[c] YOR126C -1000.00 1000.00 0.00 +r_4713 2 ethanol[c] + 2 H+[c] + succinate[c] <=> 2 H2O[c] + diethyl succinate[c] YOR126C -1000.00 1000.00 0.00 +r_4714 ethanol[c] + H+[c] + succinate[c] <=> H2O[c] + monoethyl succinate[c] YOR126C -1000.00 1000.00 0.00 +r_4715 ethanol[c] + H+[c] + Benzoate[c] <=> H2O[c] + ethyl benzoate[c] YOR126C -1000.00 1000.00 0.00 +r_4716 ethanol[c] + H+[c] + pyruvate[c] <=> H2O[c] + ethyl pyruvate[c] YOR126C -1000.00 1000.00 0.00 +r_4717 acetate[c] + H+[c] + benzyl alcohol[c] <=> H2O[c] + benzyl acetate[c] YOR126C -1000.00 1000.00 0.00 +r_4718 H2O[c] + isobutyraldehyde[c] + NAD[c] <=> 2 H+[c] + NADH[c] + isobutyrate[c] YOR374W or YPL061W -1000.00 1000.00 0.00 +r_4719 2-methylbutanal[c] + H2O[c] + NAD[c] <=> 2 H+[c] + NADH[c] + 2-methylbutyrate[c] YOR374W or YPL061W -1000.00 1000.00 0.00 +r_4720 ethanol[c] + H+[c] + isobutyrate[c] <=> H2O[c] + ethyl isobutyrate[c] YOR126C -1000.00 1000.00 0.00 +r_4721 ethanol[c] + H+[c] + 2-methylbutyrate[c] <=> H2O[c] + ethyl 2-methylbutyrate[c] YOR126C -1000.00 1000.00 0.00 +r_4722 2 ATP[c] + H2O[c] => H+[c] + polyphosphate[v] YJL012C 0.00 1000.00 0.00 +r_4723 H2O[v] + polyphosphate[v] <=> H+[v] + 2 phosphate[v] YHR201C or YDR452W -1000.00 1000.00 0.00 +r_4724 H2O[m] + polyphosphate[m] <=> H+[m] + 2 phosphate[m] YHR201C or YDR452W -1000.00 1000.00 0.00 +r_4725 H2O[n] + polyphosphate[n] <=> H+[n] + 2 phosphate[n] YHR201C or YDR452W -1000.00 1000.00 0.00 +r_4726 ethyl (2S)-lactate[c] <=> ethyl (2S)-lactate[e] -1000.00 1000.00 0.00 +r_4727 ethyl (2S)-lactate[e] => 0.00 1000.00 0.00 +r_4728 ethyl (2R)-lactate[c] <=> ethyl (2R)-lactate[e] -1000.00 1000.00 0.00 +r_4729 ethyl (2R)-lactate[e] => 0.00 1000.00 0.00 +r_4730 diethyl succinate[c] <=> diethyl succinate[e] -1000.00 1000.00 0.00 +r_4731 diethyl succinate[e] => 0.00 1000.00 0.00 +r_4732 monoethyl succinate[c] <=> monoethyl succinate[e] -1000.00 1000.00 0.00 +r_4733 monoethyl succinate[e] => 0.00 1000.00 0.00 +r_4734 ethyl benzoate[c] <=> ethyl benzoate[e] -1000.00 1000.00 0.00 +r_4735 ethyl benzoate[e] => 0.00 1000.00 0.00 +r_4736 ethyl pyruvate[c] <=> ethyl pyruvate[e] -1000.00 1000.00 0.00 +r_4737 ethyl pyruvate[e] => 0.00 1000.00 0.00 +r_4738 benzyl acetate[c] <=> benzyl acetate[e] -1000.00 1000.00 0.00 +r_4739 benzyl acetate[e] => 0.00 1000.00 0.00 +r_4740 ethyl isobutyrate[c] <=> ethyl isobutyrate[e] -1000.00 1000.00 0.00 +r_4741 ethyl isobutyrate[e] => 0.00 1000.00 0.00 +r_4742 ethyl 2-methylbutyrate[c] <=> ethyl 2-methylbutyrate[e] -1000.00 1000.00 0.00 +r_4743 ethyl 2-methylbutyrate[e] => 0.00 1000.00 0.00 +r_4744 H+[v] + polyphosphate[v] <=> H+[c] + polyphosphate[c] -1000.00 1000.00 0.00 +r_4745 H+[c] + polyphosphate[c] <=> H+[m] + polyphosphate[m] -1000.00 1000.00 0.00 +r_4746 H+[c] + polyphosphate[c] <=> H+[n] + polyphosphate[n] -1000.00 1000.00 0.00 diff --git a/model/yeast-GEM.xml b/model/yeast-GEM.xml index 13466c84..03d606fb 100644 --- a/model/yeast-GEM.xml +++ b/model/yeast-GEM.xml @@ -1,6 +1,6 @@ - +

Saccharomyces cerevisiae - strain S288C

@@ -8,7 +8,7 @@ - + @@ -24,10 +24,10 @@ - 2022-09-05T19:49:51Z + 2023-06-07T16:57:17Z - 2022-09-05T19:49:51Z + 2023-06-07T16:57:17Z @@ -40627,6 +40627,351 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + @@ -165903,6 +166248,971 @@ + + + +

Confidence Level: 2

+

AUTHORS: 10.1006/fmic.1999.0272; 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1006/fmic.1999.0272; 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1016/S0889-1575(03)00021-8; 10.1006/fmic.1999.0272; 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1016/S0889-1575(03)00021-8; 10.1038/s41598-022-16554-z

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1006/fmic.1999.0272; 10.1038/s41598-022-16554-z

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1042/BSR20160529

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 1

+

AUTHORS: 10.1042/BSR20160529

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1038/s41598-022-16554-z

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1038/s41598-022-16554-z

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 3

+

AUTHORS: 10.1126/science.1168120; 10.3390/biology10060487

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1007/s10540-006-9003-2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1016/0014-5793(89)80882-8; 10.1023/a:1023648509241

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

AUTHORS: 10.1002/yea.1391; 10.1007/s10540-006-9003-2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 2

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + +

Confidence Level: 1

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 1

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + + + + +

Confidence Level: 1

+

NOTES: Volatile esters and polyphosphate curation (PR #337)

+ + + + + + + + + + + + + + + + + + + + @@ -166625,6 +167935,23 @@ + + + + + + + + + + + + + + + + + @@ -167936,6 +169263,15 @@ + + + + + + + + + @@ -168100,6 +169436,17 @@ + + + + + + + + + + + @@ -169515,6 +170862,10 @@ + + + + @@ -170771,6 +172122,15 @@ + + + + + + + + + @@ -171084,6 +172444,7 @@ + @@ -171155,6 +172516,7 @@ + @@ -171264,6 +172626,7 @@ + diff --git a/model/yeast-GEM.yml b/model/yeast-GEM.yml index b038f730..25d73cef 100755 --- a/model/yeast-GEM.yml +++ b/model/yeast-GEM.yml @@ -1,9 +1,9 @@ --- !!omap - metaData: - id: "yeastGEM_v8.6.2" + id: "yeastGEM_develop" name: "The Consensus Genome-Scale Metabolic Model of Yeast" - date: "2022-09-05" + date: "2023-06-07" givenName: "Eduard" familyName: "Kerkhoven" email: "eduardk@chalmers.se" @@ -29847,6 +29847,255 @@ - kegg.compound: "C01861" - metanetx.chemical: "MNXM1871" - sbo: "SBO:0000247" + - !!omap + - id: "s_4270" + - name: "ethyl (2S)-lactate" + - compartment: "e" + - formula: "C5H10O3" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:78322" + - metanetx.chemical: "MNXM155838" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4271" + - name: "ethyl (2S)-lactate" + - compartment: "c" + - formula: "C5H10O3" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:78322" + - metanetx.chemical: "MNXM155838" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4272" + - name: "ethyl (2R)-lactate" + - compartment: "e" + - formula: "C5H10O3" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:78323" + - metanetx.chemical: "MNXM155836" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4273" + - name: "ethyl (2R)-lactate" + - compartment: "c" + - formula: "C5H10O3" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:78323" + - metanetx.chemical: "MNXM155836" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4274" + - name: "diethyl succinate" + - compartment: "c" + - formula: "C8H14O4" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:169507" + - metanetx.chemical: "MNXM124844" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4275" + - name: "diethyl succinate" + - compartment: "e" + - formula: "C8H14O4" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:169507" + - metanetx.chemical: "MNXM124844" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4276" + - name: "monoethyl succinate" + - compartment: "c" + - formula: "C6H9O4" + - charge: -1 + - annotation: !!omap + - chebi: "CHEBI:88827" + - metanetx.chemical: "MNXM151146" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4277" + - name: "monoethyl succinate" + - compartment: "e" + - formula: "C6H9O4" + - charge: -1 + - annotation: !!omap + - chebi: "CHEBI:88827" + - metanetx.chemical: "MNXM151146" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4278" + - name: "ethyl benzoate" + - compartment: "c" + - formula: "C9H10O2" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:156074" + - metanetx.chemical: "MNXM125514" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4279" + - name: "ethyl benzoate" + - compartment: "e" + - formula: "C9H10O2" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:156074" + - metanetx.chemical: "MNXM125514" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4280" + - name: "ethyl pyruvate" + - compartment: "c" + - formula: "C5H8O3" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:173421" + - metanetx.chemical: "MNXM52836" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4281" + - name: "ethyl pyruvate" + - compartment: "e" + - formula: "C5H8O3" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:173421" + - metanetx.chemical: "MNXM52836" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4282" + - name: "2-methylbutyrate" + - compartment: "c" + - formula: "C5H9O2" + - charge: -1 + - annotation: !!omap + - chebi: "CHEBI:37070" + - kegg.compound: "C18319" + - metanetx.chemical: "MNXM9859" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4283" + - name: "ethyl 2-methylbutyrate" + - compartment: "c" + - formula: "C7H14O2" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:88452" + - metanetx.chemical: "MNXM99666" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4284" + - name: "ethyl 2-methylbutyrate" + - compartment: "e" + - formula: "C7H14O2" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:88452" + - metanetx.chemical: "MNXM99666" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4285" + - name: "isobutyrate" + - compartment: "c" + - formula: "C4H7O2" + - charge: -1 + - annotation: !!omap + - bigg.metabolite: "ibt" + - chebi: "CHEBI:48944" + - metanetx.chemical: "MNXM1137661" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4286" + - name: "ethyl isobutyrate" + - compartment: "c" + - formula: "C6H12O2" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:87303" + - metanetx.chemical: "MNXM99814" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4287" + - name: "ethyl isobutyrate" + - compartment: "e" + - formula: "C6H12O2" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:87303" + - metanetx.chemical: "MNXM99814" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4288" + - name: "benzyl acetate" + - compartment: "c" + - formula: "C9H10O2" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:52051" + - kegg.compound: "C15513" + - metanetx.chemical: "MNXM3217" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4289" + - name: "benzyl acetate" + - compartment: "e" + - formula: "C9H10O2" + - charge: 0 + - annotation: !!omap + - chebi: "CHEBI:52051" + - kegg.compound: "C15513" + - metanetx.chemical: "MNXM3217" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4290" + - name: "polyphosphate" + - compartment: "v" + - formula: "HO7P2" + - charge: -3 + - annotation: !!omap + - chebi: "CHEBI:16838" + - kegg.compound: "C00404" + - metanetx.chemical: "MNXM77738" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4291" + - name: "polyphosphate" + - compartment: "m" + - formula: "HO7P2" + - charge: -3 + - annotation: !!omap + - chebi: "CHEBI:16838" + - kegg.compound: "C00404" + - metanetx.chemical: "MNXM77738" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4292" + - name: "polyphosphate" + - compartment: "n" + - formula: "HO7P2" + - charge: -3 + - annotation: !!omap + - chebi: "CHEBI:16838" + - kegg.compound: "C00404" + - metanetx.chemical: "MNXM77738" + - sbo: "SBO:0000247" + - !!omap + - id: "s_4293" + - name: "phosphate" + - compartment: "n" + - formula: "HO4P" + - charge: -2 + - annotation: !!omap + - bigg.metabolite: "pi" + - chebi: "CHEBI:43474" + - kegg.compound: "C00009" + - metanetx.chemical: "MNXM9" + - sbo: "SBO:0000247" - reactions: - !!omap - id: "r_0001" @@ -29873,6 +30122,7 @@ - metanetx.reaction: "MNXR138960" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0002" - name: "(R)-lactate:ferricytochrome-c 2-oxidoreductase" @@ -29898,6 +30148,7 @@ - metanetx.reaction: "MNXR138960" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0003" - name: "(R,R)-butanediol dehydrogenase" @@ -29943,6 +30194,7 @@ - metanetx.reaction: "MNXR138959" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0005" - name: "1,3-beta-glucan synthase" @@ -29966,6 +30218,7 @@ - pubmed: "7649185" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0006" - name: "1,6-beta-glucan synthase" @@ -30031,6 +30284,7 @@ - pubmed: "387737" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "rxnDirection curated (PR #227)" - !!omap - id: "r_0013" - name: "2,3-diketo-5-methylthio-1-phosphopentane degradation reaction" @@ -30079,6 +30333,7 @@ - pubmed: "9068650" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "KEGG ID curated (PR #220)" - !!omap - id: "r_0015" - name: "2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate reductase (NADPH)" @@ -30429,6 +30684,7 @@ - pubmed: "5908136" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0028" - name: "2-methylcitrate synthase" @@ -30753,6 +31009,7 @@ - "9804843" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,36) curated (PR #222)" - !!omap - id: "r_0042" - name: "3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase" @@ -30840,6 +31097,7 @@ - metanetx.reaction: "MNXR100656" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,40) curated (PR #222)" - !!omap - id: "r_0057" - name: "3-hydroxyacyl-CoA dehydrogenase (3-oxotetradecanoyl-CoA)" @@ -30884,6 +31142,7 @@ - pubmed: "9539135" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "KEGG ID curated (PR #220) | model.S(601,42) curated (PR #222)" - !!omap - id: "r_0059" - name: "3-isopropylmalate 3-methyltransferase" @@ -31205,6 +31464,7 @@ - pubmed: "12902239" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0073" - name: "4PP-IP5 depyrophosphorylation to IP6" @@ -31230,6 +31490,7 @@ - pubmed: "17412958" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,56) curated (PR #222) | rxnDirection curated (PR #227)" - !!omap - id: "r_0074" - name: "4PP-IP5 pyrophosphorylation to 4,5-PP2-IP4" @@ -31252,6 +31513,7 @@ - pubmed: "17412958" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,57) curated (PR #222) | model.S(610,57) curated (PR #222)" - !!omap - id: "r_0075" - name: "5'-methylthioadenosine phosphorylase" @@ -31400,6 +31662,7 @@ - pubmed: "21623372" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,63) curated (PR #222)" - !!omap - id: "r_0081" - name: "5-aminolevulinate synthase" @@ -31449,6 +31712,7 @@ - pubmed: "10419486" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,65) curated (PR #222)" - !!omap - id: "r_0083" - name: "5-diphosphoinositol-1,2,3,4,6-pentakisphosphate synthase" @@ -31472,6 +31736,7 @@ - pubmed: "11956213" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,66) curated (PR #222)" - !!omap - id: "r_0084" - name: "5-formethyltetrahydrofolate cyclo-ligase" @@ -31539,6 +31804,7 @@ - pubmed: "14506228" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0087" - name: "5-methylthioribose-1-phosphate isomerase" @@ -31671,6 +31937,7 @@ - pubmed: "17412958" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,75) curated (PR #222) | rxnDirection curated (PR #227)" - !!omap - id: "r_0093" - name: "6PP-IP5 pyrophosphorylation to 5,6-PP2-IP4" @@ -31693,6 +31960,7 @@ - pubmed: "17412958" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "alternative MetaNetX ID MNXR112453 (PR #220) | alternative KEGG ID R08964 (PR #220) | model.S(601,76) curated (PR #222) | model.S(610,76) curated (PR #222)" - !!omap - id: "r_0094" - name: "8-amino-7-oxononanoate synthase" @@ -31713,6 +31981,7 @@ - pubmed: "16269718" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,77) curated (PR #222)" - !!omap - id: "r_0095" - name: "acetaldehyde condensation" @@ -32527,6 +32796,7 @@ - pubmed: "10672016" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "rxnDirection curated (PR #227)" - !!omap - id: "r_0128" - name: "acyl-CoA:sterol acyltransferase (oleoyl-CoA:fecosterol), ER membrane" @@ -32566,6 +32836,7 @@ - pubmed: "10672016" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "rxnDirection curated (PR #227)" - !!omap - id: "r_0130" - name: "acyl-CoA:sterol acyltransferase (oleoyl-CoA:zymosterol), ER membrane" @@ -33093,6 +33364,7 @@ - pubmed: "10734185" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,134) curated (PR #222)" - !!omap - id: "r_0156" - name: "alanine glyoxylate aminotransferase" @@ -33777,6 +34049,7 @@ - pubmed: "12702265" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0180" - name: "aldehyde dehydrogenase (isoamyl alcohol, NAD)" @@ -33805,6 +34078,7 @@ - pubmed: "12499363" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0181" - name: "aldehyde dehydrogenase (isoamyl alcohol, NADP)" @@ -33835,6 +34109,7 @@ - "12423374" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0182" - name: "aldehyde dehydrogenase (isobutyl alcohol, NAD)" @@ -34039,6 +34314,7 @@ - metanetx.reaction: "MNXR139295" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0189" - name: "allantoate amidinohydrolase" @@ -34061,6 +34337,7 @@ - pubmed: "4604238" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "KEGG ID curated (PR #220)" - !!omap - id: "r_0190" - name: "allantoinase, reaction" @@ -34137,6 +34414,7 @@ - "9020857" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,171) curated (PR #222)" - !!omap - id: "r_0193" - name: "alpha,alpha-trehalase" @@ -34203,6 +34481,7 @@ - pubmed: "21623372" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0198" - name: "alpha-glucosidase" @@ -34227,6 +34506,7 @@ - metanetx.reaction: "MNXR101350" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220) | KEGG ID curated (PR #220) | alternative KEGG ID R06084 (PR #220)" - !!omap - id: "r_0199" - name: "amidase" @@ -34453,6 +34733,7 @@ - metanetx.reaction: "MNXR138059" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0208" - name: "argininosuccinate synthase" @@ -34483,6 +34764,7 @@ - pubmed: "35347" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0209" - name: "arginyl-tRNA synthetase" @@ -35019,6 +35301,7 @@ - pubmed: "6368538" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,205) curated (PR #222)" - !!omap - id: "r_0229" - name: "biotin synthase" @@ -35138,6 +35421,7 @@ - pubmed: "22194828" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,210) curated (PR #222)" - !!omap - id: "r_0235" - name: "C-3 sterol dehydrogenase (4-methylzymosterol)" @@ -35160,6 +35444,7 @@ - metanetx.reaction: "MNXR128630" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,211) curated (PR #222)" - !!omap - id: "r_0236" - name: "C-3 sterol keto reductase (4-methylzymosterol)" @@ -35278,6 +35563,7 @@ - pubmed: "22194828" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,216) curated (PR #222)" - !!omap - id: "r_0241" - name: "C-4 sterol methyl oxidase (4,4-dimethylzymosterol)" @@ -35303,6 +35589,7 @@ - metanetx.reaction: "MNXR111130" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,217) curated (PR #222)" - !!omap - id: "r_0242" - name: "C-5 sterol desaturase" @@ -35397,6 +35684,7 @@ - pubmed: "1763050" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,221) curated (PR #222) | rxnDirection curated (PR #227)" - !!omap - id: "r_0250" - name: "carbamoyl-phosphate synthase (glutamine-hydrolysing)" @@ -35520,6 +35808,7 @@ - pubmed: "3536508" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "KEGG ID curated (PR #220)" - !!omap - id: "r_0256" - name: "catalase" @@ -35698,6 +35987,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | alternative MetaNetX ID MNXR110315 (PR #220)" - !!omap - id: "r_0265" - name: "ceramide-2 synthase (24C)" @@ -35749,6 +36039,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | alternative MetaNetX ID MNXR110323 (PR #220)" - !!omap - id: "r_0267" - name: "ceramide-3 synthase (24C)" @@ -35866,6 +36157,7 @@ - metanetx.reaction: "MNXR107444" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR96718 (PR #220)" - !!omap - id: "r_0272" - name: "chitin synthase" @@ -36760,6 +37052,7 @@ - "7765825" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,277) curated (PR #222)" - !!omap - id: "r_0313" - name: "cysteinyl-tRNA synthetase" @@ -36904,6 +37197,7 @@ - pubmed: "10508108" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,283) curated (PR #222) | rxnDirection curated (PR #227)" - !!omap - id: "r_0320" - name: "D-arabinose 1-dehydrogenase (NAD)" @@ -37217,6 +37511,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(611,297) curated (PR #222)" - !!omap - id: "r_0341" - name: "dihydroceramidase" @@ -37238,6 +37533,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(611,298) curated (PR #222)" - !!omap - id: "r_0342" - name: "dihydroceramidase" @@ -37260,6 +37556,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(611,299) curated (PR #222)" - !!omap - id: "r_0343" - name: "dihydroceramidase" @@ -37282,6 +37579,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(611,300) curated (PR #222)" - !!omap - id: "r_0344" - name: "dihydrofolate reductase" @@ -37355,6 +37653,7 @@ - pubmed: "11731153" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0347" - name: "dihydroneopterin aldolase" @@ -37397,6 +37696,7 @@ - metanetx.reaction: "MNXR126238" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0349" - name: "dihydroorotase" @@ -37442,6 +37742,7 @@ - metanetx.reaction: "MNXR140386" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0351" - name: "dihydropteroate synthase" @@ -37466,6 +37767,7 @@ - metanetx.reaction: "MNXR140085" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0352" - name: "dihydroxy-acid dehydratase (2,3-dihydroxy-3-methylbutanoate)" @@ -37621,6 +37923,7 @@ - pubmed: "10419486" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,314) curated (PR #222)" - !!omap - id: "r_0358" - name: "diphosphoinositol-1,3,4,6-tetrakisphosphate synthase" @@ -37645,6 +37948,7 @@ - pubmed: "11956213" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,315) curated (PR #222)" - !!omap - id: "r_0359" - name: "diphthine synthase" @@ -37689,6 +37993,7 @@ - metanetx.reaction: "MNXR106791" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,317) curated (PR #222)" - !!omap - id: "r_0361" - name: "dolichyl-phosphate D-mannosyltransferase" @@ -37711,6 +38016,7 @@ - metanetx.reaction: "MNXR106788" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,318) curated (PR #222)" - !!omap - id: "r_0362" - name: "dolichyl-phosphate-mannose--protein mannosyltransferase" @@ -37732,6 +38038,7 @@ - metanetx.reaction: "MNXR136057" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(602,319) curated (PR #222)" - !!omap - id: "r_0363" - name: "dTMP kinase" @@ -38092,6 +38399,7 @@ - metanetx.reaction: "MNXR138164" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0438" - name: "ferrocytochrome-c:oxygen oxidoreductase" @@ -38117,6 +38425,7 @@ - pubmed: "21964735" - sbo: "SBO:0000655" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0439" - name: "ubiquinol:ferricytochrome c reductase" @@ -38185,6 +38494,7 @@ - pubmed: "15184374" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,338) curated (PR #222)" - !!omap - id: "r_0442" - name: "FMN reductase" @@ -38207,6 +38517,7 @@ - pubmed: "15184374" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,339) curated (PR #222)" - !!omap - id: "r_0443" - name: "formaldehyde dehydrogenase" @@ -38369,6 +38680,7 @@ - metanetx.reaction: "MNXR106670" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR144209 (PR #220)" - !!omap - id: "r_0450" - name: "fructose-bisphosphate aldolase" @@ -38497,6 +38809,7 @@ - "9587404" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,350) curated (PR #222)" - !!omap - id: "r_0455" - name: "soluble fumarate reductase" @@ -38519,6 +38832,7 @@ - pubmed: "22672422" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,351) curated (PR #222)" - !!omap - id: "r_0457" - name: "g-glutamyltransferase" @@ -38779,6 +39093,7 @@ - pubmed: "8435847" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "alternative MetaNetX ID MNXR130328 (PR #220)" - !!omap - id: "r_0468" - name: "glutamate 5-kinase" @@ -39019,6 +39334,7 @@ - pubmed: "2656689" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "alternative MetaNetX ID MNXR124393 (PR #220)" - !!omap - id: "r_0478" - name: "glutaminyl-tRNA synthetase" @@ -39164,6 +39480,7 @@ - metanetx.reaction: "MNXR100446" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "rxnDirection curated (PR #227)" - !!omap - id: "r_0484" - name: "glutathione peroxidase, mitochondria" @@ -39184,6 +39501,7 @@ - pubmed: "12138088" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "rxnDirection curated (PR #227)" - !!omap - id: "r_0485" - name: "glutathione synthetase" @@ -39329,6 +39647,7 @@ - metanetx.reaction: "MNXR99875" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(606,384) curated (PR #222)" - !!omap - id: "r_0491" - name: "glycerol-3-phosphate dehydrogenase (NAD)" @@ -39514,6 +39833,7 @@ - pubmed: "8852837" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "alternative MetaNetX ID MNXR124474 (PR #220)" - !!omap - id: "r_0503" - name: "glycine hydroxymethyltransferase" @@ -39546,6 +39866,7 @@ - "8852837" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "alternative MetaNetX ID MNXR124474 (PR #220)" - !!omap - id: "r_0504" - name: "glycine-cleavage complex (lipoamide)" @@ -39656,6 +39977,7 @@ - metanetx.reaction: "MNXR100067" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(606,395) curated (PR #222)" - !!omap - id: "r_0507" - name: "glycine-cleavage complex (lipoylprotein)" @@ -39693,6 +40015,7 @@ - metanetx.reaction: "MNXR100068" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220) | KEGG ID curated (PR #220) | model.S(606,396) curated (PR #222)" - !!omap - id: "r_0508" - name: "glycine-cleavage complex (lipoylprotein)" @@ -39785,6 +40108,7 @@ - pubmed: "8900126" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | model.S(610,399) curated (PR #222)" - !!omap - id: "r_0511" - name: "glycogen phosphorylase" @@ -39878,6 +40202,7 @@ - pubmed: "10085243" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "alternative MetaNetX ID MNXR95258 (PR #220) | KEGG ID curated (PR #220)" - !!omap - id: "r_0519" - name: "GPI-anchor assembly, step 5" @@ -40424,6 +40749,7 @@ - pubmed: "8647869" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0542" - name: "homoacontinate hydratase" @@ -40476,6 +40802,7 @@ - metanetx.reaction: "MNXR141692" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0544" - name: "homocysteine S-methyltransferase" @@ -40527,6 +40854,7 @@ - pubmed: "10714900" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,430) curated (PR #222)" - !!omap - id: "r_0546" - name: "homoserine dehydrogenase (NADH)" @@ -40658,6 +40986,7 @@ - pubmed: "15210711" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | model.S(601,435) curated (PR #222)" - !!omap - id: "r_0551" - name: "hydrogen peroxide reductase (thioredoxin)" @@ -40679,6 +41008,7 @@ - pubmed: "10821871" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | model.S(606,436) curated (PR #222)" - !!omap - id: "r_0552" - name: "hydrogen peroxide reductase (thioredoxin)" @@ -40701,6 +41031,7 @@ - pubmed: "14640681" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | model.S(608,437) curated (PR #222)" - !!omap - id: "r_0553" - name: "hydroxyacylglutathione hydrolase" @@ -40841,6 +41172,7 @@ - metanetx.reaction: "MNXR107304" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR100659 (PR #220)" - !!omap - id: "r_0559" - name: "hydroxymethylglutaryl CoA synthase" @@ -40870,6 +41202,7 @@ - metanetx.reaction: "MNXR107257" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR100660 (PR #220)" - !!omap - id: "r_0560" - name: "hydroxymethylglutaryl CoA synthase" @@ -41175,6 +41508,7 @@ - pubmed: "10960485" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,456) curated (PR #222)" - !!omap - id: "r_0572" - name: "inositol-1,3,4,5-triphosphate 6-kinase, nucleus" @@ -41200,6 +41534,7 @@ - pubmed: "11956213" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,457) curated (PR #222)" - !!omap - id: "r_0573" - name: "inositol-1,4,5,6- tetrakisphosphate 3-kinase, nucleus" @@ -41225,6 +41560,7 @@ - pubmed: "11956213" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,458) curated (PR #222)" - !!omap - id: "r_0574" - name: "inositol-1,4,5-triphosphate 6-kinase, nucleus" @@ -41250,6 +41586,7 @@ - pubmed: "11956213" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,459) curated (PR #222)" - !!omap - id: "r_0575" - name: "inositol-1,4,5-trisphosphate 3-kinase, nucleus" @@ -41275,6 +41612,7 @@ - pubmed: "11956213" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,460) curated (PR #222)" - !!omap - id: "r_0596" - name: "IPS phospholipase C" @@ -41717,6 +42055,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,481) curated (PR #222)" - !!omap - id: "r_0617" - name: "IPS phospholipase C" @@ -41739,6 +42078,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,482) curated (PR #222)" - !!omap - id: "r_0618" - name: "IPS phospholipase C" @@ -41761,6 +42101,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,483) curated (PR #222)" - !!omap - id: "r_0619" - name: "IPS phospholipase C" @@ -41783,6 +42124,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,484) curated (PR #222)" - !!omap - id: "r_0620" - name: "IPS phospholipase C" @@ -41805,6 +42147,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,485) curated (PR #222)" - !!omap - id: "r_0621" - name: "IPS phospholipase C" @@ -41827,6 +42170,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,486) curated (PR #222)" - !!omap - id: "r_0622" - name: "IPS phospholipase C" @@ -41849,6 +42193,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,487) curated (PR #222)" - !!omap - id: "r_0623" - name: "IPS phospholipase C" @@ -41871,6 +42216,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,488) curated (PR #222)" - !!omap - id: "r_0624" - name: "IPS phospholipase C" @@ -41893,6 +42239,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,489) curated (PR #222)" - !!omap - id: "r_0625" - name: "IPS phospholipase C" @@ -41915,6 +42262,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(606,490) curated (PR #222)" - !!omap - id: "r_0626" - name: "IPS phospholipase C" @@ -42357,6 +42705,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,511) curated (PR #222)" - !!omap - id: "r_0647" - name: "IPS phospholipase C" @@ -42379,6 +42728,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,512) curated (PR #222)" - !!omap - id: "r_0648" - name: "IPS phospholipase C" @@ -42401,6 +42751,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,513) curated (PR #222)" - !!omap - id: "r_0649" - name: "IPS phospholipase C" @@ -42423,6 +42774,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,514) curated (PR #222)" - !!omap - id: "r_0650" - name: "IPS phospholipase C" @@ -42445,6 +42797,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,515) curated (PR #222)" - !!omap - id: "r_0651" - name: "IPS phospholipase C" @@ -42467,6 +42820,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,516) curated (PR #222)" - !!omap - id: "r_0652" - name: "IPS phospholipase C" @@ -42489,6 +42843,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,517) curated (PR #222)" - !!omap - id: "r_0653" - name: "IPS phospholipase C" @@ -42511,6 +42866,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,518) curated (PR #222)" - !!omap - id: "r_0654" - name: "IPS phospholipase C" @@ -42533,6 +42889,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,519) curated (PR #222)" - !!omap - id: "r_0655" - name: "IPS phospholipase C" @@ -42555,6 +42912,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,520) curated (PR #222)" - !!omap - id: "r_0656" - name: "isoamyl acetate-hydrolyzing esterase" @@ -44080,6 +44438,7 @@ - metanetx.reaction: "MNXR106679" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR124423 (PR #220)" - !!omap - id: "r_0724" - name: "methenyltetrahydrifikate cyclohydrolase" @@ -44181,6 +44540,7 @@ - pubmed: "16083849" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,584) curated (PR #222)" - !!omap - id: "r_0728" - name: "methionyl-tRNA formyltransferase" @@ -44205,6 +44565,7 @@ - metanetx.reaction: "MNXR99604" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR124973 (PR #220)" - !!omap - id: "r_0729" - name: "methionyl-tRNA synthetase" @@ -44505,6 +44866,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,597) curated (PR #222)" - !!omap - id: "r_0748" - name: "MIPC synthase" @@ -44528,6 +44890,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,598) curated (PR #222)" - !!omap - id: "r_0749" - name: "MIPC synthase" @@ -44551,6 +44914,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,599) curated (PR #222)" - !!omap - id: "r_0750" - name: "MIPC synthase" @@ -44574,6 +44938,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,600) curated (PR #222)" - !!omap - id: "r_0751" - name: "MIPC synthase" @@ -44597,6 +44962,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,601) curated (PR #222)" - !!omap - id: "r_0752" - name: "MIPC synthase" @@ -44620,6 +44986,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,602) curated (PR #222)" - !!omap - id: "r_0753" - name: "MIPC synthase" @@ -44643,6 +45010,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,603) curated (PR #222)" - !!omap - id: "r_0754" - name: "MIPC synthase" @@ -44666,6 +45034,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,604) curated (PR #222)" - !!omap - id: "r_0755" - name: "MIPC synthase" @@ -44689,6 +45058,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,605) curated (PR #222)" - !!omap - id: "r_0756" - name: "MIPC synthase" @@ -44712,6 +45082,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(604,606) curated (PR #222)" - !!omap - id: "r_0757" - name: "myo-inositol 1-phosphatase" @@ -44809,6 +45180,7 @@ - pubmed: "9867860" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "alternative MetaNetX ID MNXR124394 (PR #220) | rxnDirection curated (PR #227)" - !!omap - id: "r_0761" - name: "N-acteylglutamate synthase" @@ -44886,6 +45258,7 @@ - pubmed: "8706696" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0764" - name: "NAD diphosphatase" @@ -45915,6 +46288,7 @@ - pubmed: "15042590" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,655) curated (PR #222)" - !!omap - id: "r_0815" - name: "O-succinylhomoserine lyase (L-cysteine)" @@ -46423,6 +46797,7 @@ - "9491083" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0852" - name: "phenylalanyl-tRNA synthetase" @@ -46493,6 +46868,7 @@ - pubmed: "12902239" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0855" - name: "phopshoribosylaminoimidazole synthetase" @@ -46521,6 +46897,7 @@ - metanetx.reaction: "MNXR139261" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220) | alternative MetaNetX ID MNXR108734 (PR #220) | model.S(601,678) curated (PR #222)" - !!omap - id: "r_0882" - name: "phosphoacetylglucosamine mutase" @@ -46565,6 +46942,7 @@ - pubmed: "2203779" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,680) curated (PR #222)" - !!omap - id: "r_0884" - name: "phosphoenolpyruvate carboxykinase" @@ -47013,6 +47391,7 @@ - metanetx.reaction: "MNXR108987" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,697) curated (PR #222)" - !!omap - id: "r_0909" - name: "phosphoribosyl-AMP cyclohydrolase" @@ -47090,6 +47469,7 @@ - metanetx.reaction: "MNXR108735" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR136160 (PR #220) | KEGG ID curated (PR #220) | alternative KEGG ID "R07404, R7405" (PR #220) | model.S(288,700) curated (PR #222) | model.S(324,700) curated (PR #222) | model.S(610,700) curated (PR #222) | model.S(1035,700) curated (PR #222)" - !!omap - id: "r_0912" - name: "phosphoribosylaminoimidazolecarboxamide formyltransferase" @@ -47300,6 +47680,7 @@ - "18296751" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(611,708) curated (PR #222)" - !!omap - id: "r_0920" - name: "phytoceramidase" @@ -47322,6 +47703,7 @@ - metanetx.reaction: "MNXR126694" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220) | alternative MetaNetX ID MNXR110323 (PR #220) | model.S(611,709) curated (PR #222)" - !!omap - id: "r_0921" - name: "Phytosphingosine phosphate lyase" @@ -47369,6 +47751,7 @@ - "9368039" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | alternative MetaNetX ID MNXR110321 (PR #220)" - !!omap - id: "r_0929" - name: "polyamine oxidase" @@ -47496,6 +47879,7 @@ - pubmed: "7502583" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_0939" - name: "prephenate dehydrogenase (NADP)" @@ -47568,6 +47952,7 @@ - metanetx.reaction: "MNXR103208" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,719) curated (PR #222)" - !!omap - id: "r_0942" - name: "protoporphyrinogen oxidase" @@ -47766,6 +48151,7 @@ - metanetx.reaction: "MNXR102438" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "rxnDirection curated (PR #227)" - !!omap - id: "r_0956" - name: "pyridoxine oxidase" @@ -48087,6 +48473,7 @@ - metanetx.reaction: "MNXR97501" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,738) curated (PR #222)" - !!omap - id: "r_0968" - name: "riboflavin synthase" @@ -48110,6 +48497,7 @@ - metanetx.reaction: "MNXR103430" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,739) curated (PR #222)" - !!omap - id: "r_0969" - name: "ribokinase" @@ -48133,6 +48521,7 @@ - pubmed: "1964349" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "KEGG ID curated (PR #220)" - !!omap - id: "r_0970" - name: "ribonucleoside-triphosphate reductase (ATP)" @@ -48154,6 +48543,7 @@ - metanetx.reaction: "MNXR104070" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137376 (PR #220) | model.S(601,741) curated (PR #222)" - !!omap - id: "r_0971" - name: "ribonucleoside-triphosphate reductase (CTP)" @@ -48175,6 +48565,7 @@ - metanetx.reaction: "MNXR104076" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137378 (PR #220) | model.S(601,742) curated (PR #222)" - !!omap - id: "r_0972" - name: "ribonucleoside-triphosphate reductase (GTP)" @@ -48196,6 +48587,7 @@ - metanetx.reaction: "MNXR104073" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137377 (PR #220) | model.S(601,743) curated (PR #222)" - !!omap - id: "r_0973" - name: "ribonucleoside-triphosphate reductase (UTP)" @@ -48217,6 +48609,7 @@ - metanetx.reaction: "MNXR104079" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137379 (PR #220) | model.S(601,744) curated (PR #222)" - !!omap - id: "r_0974" - name: "ribonucleotide reductase" @@ -48243,6 +48636,7 @@ - metanetx.reaction: "MNXR104060" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137337 (PR #220) | model.S(601,745) curated (PR #222)" - !!omap - id: "r_0975" - name: "ribonucleotide reductase" @@ -48269,6 +48663,7 @@ - metanetx.reaction: "MNXR104060" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137337 (PR #220) | model.S(607,746) curated (PR #222)" - !!omap - id: "r_0976" - name: "ribonucleotide reductase" @@ -48295,6 +48690,7 @@ - metanetx.reaction: "MNXR104064" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137339 (PR #220) | model.S(601,747) curated (PR #222)" - !!omap - id: "r_0977" - name: "ribonucleotide reductase" @@ -48321,6 +48717,7 @@ - metanetx.reaction: "MNXR104064" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137339 (PR #220) | model.S(607,748) curated (PR #222)" - !!omap - id: "r_0978" - name: "ribonucleotide reductase" @@ -48347,6 +48744,7 @@ - metanetx.reaction: "MNXR104062" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137338 (PR #220) | model.S(601,749) curated (PR #222)" - !!omap - id: "r_0979" - name: "ribonucleotide reductase" @@ -48373,6 +48771,7 @@ - metanetx.reaction: "MNXR104062" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137338 (PR #220) | model.S(607,750) curated (PR #222)" - !!omap - id: "r_0982" - name: "ribose-5-phosphate isomerase" @@ -48525,6 +48924,7 @@ - metanetx.reaction: "MNXR104357" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "rxnDirection curated (PR #227)" - !!omap - id: "r_0988" - name: "saccharopine dehydrogenase (NAD, L-lysine forming)" @@ -48661,6 +49061,7 @@ - "8058731" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(602,761) curated (PR #222)" - !!omap - id: "r_0995" - name: "seryl-tRNA synthetase" @@ -48776,6 +49177,7 @@ - pubmed: "11980703" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,765) curated (PR #222)" - !!omap - id: "r_0999" - name: "sirohydrochlorin ferrochetalase" @@ -48802,6 +49204,7 @@ - pubmed: "11980703" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,766) curated (PR #222)" - !!omap - id: "r_1000" - name: "fumarate reductase (FMN)" @@ -48825,6 +49228,7 @@ - "12393208" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | alternative MetaNetX ID MNXR99636 (PR #220) | model.S(601,767) curated (PR #222)" - !!omap - id: "r_1001" - name: "spermidine synthase" @@ -49298,6 +49702,7 @@ - metanetx.reaction: "MNXR104650" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,786) curated (PR #222)" - !!omap - id: "r_1028" - name: "taurcholate via ABC system" @@ -49406,6 +49811,7 @@ - "21190580" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_1032" - name: "thiamin diphosphatase" @@ -49429,6 +49835,7 @@ - metanetx.reaction: "MNXR138860" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_1033" - name: "thiamin phosphatase" @@ -49540,6 +49947,7 @@ - pubmed: "12730197" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | model.S(607,795) curated (PR #222)" - !!omap - id: "r_1038" - name: "thioredoxin reductase (NADPH)" @@ -49561,6 +49969,7 @@ - metanetx.reaction: "MNXR104766" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "alternative MetaNetX ID MNXR137353 (PR #220) | model.S(601,796) curated (PR #222)" - !!omap - id: "r_1039" - name: "thioredoxin reductase (NADPH)" @@ -49587,6 +49996,7 @@ - pubmed: "15701801" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "alternative MetaNetX ID MNXR137353 (PR #220) | model.S(606,797) curated (PR #222)" - !!omap - id: "r_1040" - name: "threonine aldolase" @@ -50182,6 +50592,7 @@ - metanetx.reaction: "MNXR143428" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220) | KEGG ID curated (PR #220)" - !!omap - id: "r_1071" - name: "UDPglucose--hexose-1-phosphate uridylyltransferase" @@ -50205,6 +50616,7 @@ - metanetx.reaction: "MNXR143436" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_1072" - name: "UMP kinase" @@ -50503,6 +50915,7 @@ - pubmed: "7588797" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_1085" - name: "V-ATPase, Golgi" @@ -53449,6 +53862,7 @@ - metanetx.reaction: "MNXR138863" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_1271" - name: "UDPgalactose transport" @@ -53611,6 +54025,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1450" - name: "inositol-P-ceramide B' (C26) [Golgi] SLIME rxn" @@ -53626,6 +54041,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1451" - name: "inositol-P-ceramide C (C24) [Golgi] SLIME rxn" @@ -53641,6 +54057,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1452" - name: "inositol-P-ceramide C (C26) [Golgi] SLIME rxn" @@ -53656,6 +54073,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1453" - name: "inositol-P-ceramide A (C24) [Golgi] SLIME rxn" @@ -53671,6 +54089,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1454" - name: "inositol-P-ceramide A (C26) [Golgi] SLIME rxn" @@ -53686,6 +54105,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1455" - name: "inositol-P-ceramide B (C24) [Golgi] SLIME rxn" @@ -53701,6 +54121,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1456" - name: "inositol-P-ceramide B (C26) [Golgi] SLIME rxn" @@ -53716,6 +54137,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1457" - name: "inositol-P-ceramide D (C24) [Golgi] SLIME rxn" @@ -53731,6 +54153,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1458" - name: "inositol-P-ceramide D (C26) [Golgi] SLIME rxn" @@ -53746,6 +54169,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1479" - name: "inositol phosphomannosylinositol phosphoceramide A (C24) [Golgi] SLIME rxn" @@ -53761,6 +54185,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1480" - name: "inositol phosphomannosylinositol phosphoceramide A (C26) [Golgi] SLIME rxn" @@ -53776,6 +54201,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1481" - name: "inositol phosphomannosylinositol phosphoceramide B' (C24) [Golgi] SLIME rxn" @@ -53791,6 +54217,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1482" - name: "inositol phosphomannosylinositol phosphoceramide B' (C26) [Golgi] SLIME rxn" @@ -53806,6 +54233,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1483" - name: "inositol phosphomannosylinositol phosphoceramide B (C24) [Golgi] SLIME rxn" @@ -53821,6 +54249,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1484" - name: "inositol phosphomannosylinositol phosphoceramide B (C26) [Golgi] SLIME rxn" @@ -53836,6 +54265,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1485" - name: "inositol phosphomannosylinositol phosphoceramide C (C24) [Golgi] SLIME rxn" @@ -53851,6 +54281,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1486" - name: "inositol phosphomannosylinositol phosphoceramide C (C26) [Golgi] SLIME rxn" @@ -53866,6 +54297,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1487" - name: "inositol phosphomannosylinositol phosphoceramide D (C24) [Golgi] SLIME rxn" @@ -53881,6 +54313,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1488" - name: "inositol phosphomannosylinositol phosphoceramide D (C26) [Golgi] SLIME rxn" @@ -53896,6 +54329,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1509" - name: "mannosylinositol phosphorylceramide B' (C24) [Golgi] SLIME rxn" @@ -53911,6 +54345,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1510" - name: "mannosylinositol phosphorylceramide B' (C26) [Golgi] SLIME rxn" @@ -53926,6 +54361,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1511" - name: "mannosylinositol phosphorylceramide C (C24) [Golgi] SLIME rxn" @@ -53941,6 +54377,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1512" - name: "mannosylinositol phosphorylceramide C (C26) [Golgi] SLIME rxn" @@ -53956,6 +54393,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1513" - name: "mannosylinositol phosphorylceramide A (C24) [Golgi] SLIME rxn" @@ -53971,6 +54409,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1514" - name: "mannosylinositol phosphorylceramide A (C26) [Golgi] SLIME rxn" @@ -53986,6 +54425,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1515" - name: "mannosylinositol phosphorylceramide B (C24) [Golgi] SLIME rxn" @@ -54001,6 +54441,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1516" - name: "mannosylinositol phosphorylceramide B (C26) [Golgi] SLIME rxn" @@ -54016,6 +54457,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1517" - name: "mannosylinositol phosphorylceramide D (C24) [Golgi] SLIME rxn" @@ -54031,6 +54473,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1518" - name: "mannosylinositol phosphorylceramide D (C26) [Golgi] SLIME rxn" @@ -54046,6 +54489,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_1542" - name: "(1->3)-beta-D-glucan exchange" @@ -54155,6 +54599,7 @@ - annotation: !!omap - bigg.reaction: "EX_lac__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); (S)-lactate exchange" - !!omap - id: "r_1552" - name: "(S)-malate exchange" @@ -54167,6 +54612,7 @@ - annotation: !!omap - bigg.reaction: "EX_mal__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); (S)-malate exchange" - !!omap - id: "r_1553" - name: "1-(sn-glycero-3-phospho)-1D-myo-inositol exchange" @@ -54492,6 +54938,7 @@ - annotation: !!omap - bigg.reaction: "EX_akg_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 2-oxoglutarate exchange" - !!omap - id: "r_1587" - name: "2-oxoglutarate transport" @@ -54634,6 +55081,7 @@ - metanetx.reaction: "MNXR137944" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_1600" - name: "3-methylbutanal transport" @@ -54649,6 +55097,7 @@ - metanetx.reaction: "MNXR137944" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_1601" - name: "3-octaprenyl-4-hydroxybenzoate transport" @@ -54683,6 +55132,7 @@ - metanetx.reaction: "MNXR95632" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "model.S(601,2491) curated (PR #222)" - !!omap - id: "r_1604" - name: "4-aminobenzoate exchange" @@ -55133,6 +55583,7 @@ - annotation: !!omap - bigg.reaction: "EX_ac_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); acetate exchange" - !!omap - id: "r_1635" - name: "acetate transport" @@ -55189,6 +55640,7 @@ - annotation: !!omap - bigg.reaction: "EX_ade_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); adenine exchange" - !!omap - id: "r_1640" - name: "adenine transport" @@ -55244,6 +55696,7 @@ - annotation: !!omap - bigg.reaction: "EX_adn_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); adenosine exchange" - !!omap - id: "r_1644" - name: "ADP transport" @@ -55311,6 +55764,7 @@ - annotation: !!omap - bigg.reaction: "EX_alltn_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); allantoin exchange" - !!omap - id: "r_1650" - name: "trehalose exchange" @@ -55323,6 +55777,7 @@ - annotation: !!omap - bigg.reaction: "EX_tre_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); trehalose exchange" - !!omap - id: "r_1651" - name: "alpha-D-glucosamine 6-phosphate exchange" @@ -55335,6 +55790,7 @@ - annotation: !!omap - bigg.reaction: "EX_gam6p_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); alpha-D-glucosamine 6-phosphate exchange" - !!omap - id: "r_1652" - name: "alpha-ketoglutarate/malate transporter" @@ -55365,6 +55821,7 @@ - bigg.reaction: "EX_nh4_e" - metanetx.reaction: "MNXR101948" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); ammonium exchange" - !!omap - id: "r_1656" - name: "AMP transport" @@ -55805,6 +56262,7 @@ - annotation: !!omap - bigg.reaction: "EX_cit_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); citrate exchange" - !!omap - id: "r_1688" - name: "citrate/isocitrate antiport" @@ -55988,6 +56446,7 @@ - annotation: !!omap - bigg.reaction: "EX_cytd_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); cytidine exchange" - !!omap - id: "r_1703" - name: "cytidylate kinase (CMP)" @@ -56038,6 +56497,7 @@ - annotation: !!omap - bigg.reaction: "EX_csn_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); cytosine exchange" - !!omap - id: "r_1706" - name: "D-arabinose exchange" @@ -56050,6 +56510,7 @@ - annotation: !!omap - bigg.reaction: "EX_arab__D_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-arabinose exchange" - !!omap - id: "r_1707" - name: "D-arabinose transport" @@ -56092,6 +56553,7 @@ - annotation: !!omap - bigg.reaction: "EX_fru_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-fructose exchange" - !!omap - id: "r_1710" - name: "D-galactose exchange" @@ -56106,6 +56568,7 @@ - kegg.reaction: "R10619" - metanetx.reaction: "MNXR113944" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-galactose exchange" - !!omap - id: "r_1711" - name: "D-galacturonate exchange" @@ -56130,6 +56593,7 @@ - annotation: !!omap - bigg.reaction: "EX_sbt__D_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-glucitol exchange" - !!omap - id: "r_1713" - name: "D-glucosamine 6-phosphate uniport" @@ -56157,6 +56621,7 @@ - bigg.reaction: "EX_glc__D_e" - metanetx.reaction: "MNXR138465" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-glucose exchange | MetaNetX ID curated (PR #220)" - !!omap - id: "r_1715" - name: "D-mannose exchange" @@ -56169,6 +56634,7 @@ - annotation: !!omap - bigg.reaction: "EX_man_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-mannose exchange" - !!omap - id: "r_1716" - name: "D-ribose exchange" @@ -56181,6 +56647,7 @@ - annotation: !!omap - bigg.reaction: "EX_rib__D_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-ribose exchange" - !!omap - id: "r_1717" - name: "D-sorbitol transport" @@ -56209,6 +56676,7 @@ - annotation: !!omap - bigg.reaction: "EX_xyl__D_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-xylose exchange" - !!omap - id: "r_1719" - name: "D-xylose transport" @@ -56352,6 +56820,7 @@ - annotation: !!omap - bigg.reaction: "EX_dca_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); decanoate exchange" - !!omap - id: "r_1728" - name: "deoxyadenosine transport" @@ -56595,6 +57064,7 @@ - metanetx.reaction: "MNXR142733" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_1746" - name: "dihydroxyacetone phosphate transport" @@ -56777,6 +57247,7 @@ - annotation: !!omap - bigg.reaction: "EX_etoh_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); ethanol exchange" - !!omap - id: "r_1762" - name: "ethanol transport" @@ -57022,6 +57493,7 @@ - annotation: !!omap - bigg.reaction: "EX_for_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); formate exchange" - !!omap - id: "r_1794" - name: "formate transport" @@ -57097,6 +57569,7 @@ - annotation: !!omap - bigg.reaction: "EX_fum_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); fumarate exchange" - !!omap - id: "r_1800" - name: "gamma-aminobutyrate exchange" @@ -57109,6 +57582,7 @@ - annotation: !!omap - bigg.reaction: "EX_4abut_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); gamma-aminobutyrate exchange" - !!omap - id: "r_1801" - name: "GDP transport" @@ -57194,6 +57668,7 @@ - annotation: !!omap - bigg.reaction: "EX_gthrd_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); glutathione exchange" - !!omap - id: "r_1808" - name: "glycerol exchange" @@ -57206,6 +57681,7 @@ - annotation: !!omap - bigg.reaction: "EX_glyc_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); glycerol exchange" - !!omap - id: "r_1809" - name: "glycerol-3-phosphate shuttle" @@ -57234,6 +57710,7 @@ - annotation: !!omap - bigg.reaction: "EX_gly_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-glycine exchange | MetaNetX ID curated (PR #220)" - !!omap - id: "r_1811" - name: "glycine transport" @@ -57304,6 +57781,7 @@ - annotation: !!omap - bigg.reaction: "EX_glx_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); glyoxylate exchange" - !!omap - id: "r_1816" - name: "glyoxylate transport" @@ -57347,6 +57825,7 @@ - annotation: !!omap - bigg.reaction: "EX_gua_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); guanine exchange" - !!omap - id: "r_1819" - name: "guanine transport" @@ -57374,6 +57853,7 @@ - annotation: !!omap - bigg.reaction: "EX_gsn_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); guanosine exchange" - !!omap - id: "r_1821" - name: "guanosine kinase" @@ -57636,6 +58116,7 @@ - metanetx.reaction: "MNXR141692" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_1839" - name: "hydrogen peroxide transport" @@ -57762,6 +58243,7 @@ - annotation: !!omap - bigg.reaction: "EX_ins_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); inosine exchange" - !!omap - id: "r_1848" - name: "inosine transport" @@ -58119,6 +58601,7 @@ - annotation: !!omap - bigg.reaction: "EX_ala__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-alanine exchange" - !!omap - id: "r_1874" - name: "L-alanine transport" @@ -58146,6 +58629,7 @@ - annotation: !!omap - bigg.reaction: "EX_abt_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-arabinitol exchange" - !!omap - id: "r_1876" - name: "L-arabinitol transport" @@ -58189,6 +58673,7 @@ - annotation: !!omap - bigg.reaction: "EX_arab__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-arabinose exchange" - !!omap - id: "r_1879" - name: "L-arginine exchange" @@ -58201,6 +58686,7 @@ - annotation: !!omap - bigg.reaction: "EX_arg__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-arginine exchange" - !!omap - id: "r_1880" - name: "L-asparagine exchange" @@ -58213,6 +58699,7 @@ - annotation: !!omap - bigg.reaction: "EX_asn__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-asparagine exchange" - !!omap - id: "r_1881" - name: "L-aspartate exchange" @@ -58225,6 +58712,7 @@ - annotation: !!omap - bigg.reaction: "EX_asp__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-aspartate exchange" - !!omap - id: "r_1882" - name: "L-carnitine transport" @@ -58253,6 +58741,7 @@ - annotation: !!omap - bigg.reaction: "EX_cys__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-cysteine exchange" - !!omap - id: "r_1884" - name: "L-erythro-4-hydroxyglutamate transport" @@ -58325,6 +58814,7 @@ - annotation: !!omap - bigg.reaction: "EX_glu__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-glutamate exchange" - !!omap - id: "r_1890" - name: "L-glutamate transport" @@ -58351,6 +58841,7 @@ - annotation: !!omap - bigg.reaction: "EX_gln__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-glutamine exchange" - !!omap - id: "r_1892" - name: "L-glutamine transport" @@ -58404,6 +58895,7 @@ - annotation: !!omap - bigg.reaction: "EX_hom__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-homoserine exchange" - !!omap - id: "r_1897" - name: "L-isoleucine exchange" @@ -58416,6 +58908,7 @@ - annotation: !!omap - bigg.reaction: "EX_ile__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-isoleucine exchange" - !!omap - id: "r_1898" - name: "L-isoleucine transport" @@ -58443,6 +58936,7 @@ - annotation: !!omap - bigg.reaction: "EX_leu__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-leucine exchange" - !!omap - id: "r_1900" - name: "L-lysine exchange" @@ -58482,6 +58976,7 @@ - annotation: !!omap - bigg.reaction: "EX_met__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-methionine exchange" - !!omap - id: "r_1903" - name: "L-phenylalanine exchange" @@ -58494,6 +58989,7 @@ - annotation: !!omap - bigg.reaction: "EX_phe__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-phenylalanine exchange" - !!omap - id: "r_1904" - name: "L-proline exchange" @@ -58506,6 +59002,7 @@ - annotation: !!omap - bigg.reaction: "EX_pro__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-proline exchange" - !!omap - id: "r_1905" - name: "L-proline transport" @@ -58533,6 +59030,7 @@ - annotation: !!omap - bigg.reaction: "EX_ser__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-serine exchange" - !!omap - id: "r_1907" - name: "L-serine transport" @@ -58604,6 +59102,7 @@ - annotation: !!omap - bigg.reaction: "EX_thr__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-threonine exchange" - !!omap - id: "r_1912" - name: "L-tryptophan exchange" @@ -58616,6 +59115,7 @@ - annotation: !!omap - bigg.reaction: "EX_trp__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-tryptophan exchange" - !!omap - id: "r_1913" - name: "L-tyrosine exchange" @@ -58628,6 +59128,7 @@ - annotation: !!omap - bigg.reaction: "EX_tyr__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-tyrosine exchange" - !!omap - id: "r_1914" - name: "L-valine exchange" @@ -58640,6 +59141,7 @@ - annotation: !!omap - bigg.reaction: "EX_val__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-valine exchange" - !!omap - id: "r_1915" - name: "lanosterol exchange" @@ -58839,6 +59341,7 @@ - bigg.reaction: "EX_malt_e" - metanetx.reaction: "MNXR123950" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); maltose exchange" - !!omap - id: "r_1932" - name: "mannan transport" @@ -59319,6 +59822,7 @@ - annotation: !!omap - bigg.reaction: "EX_orn_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); ornithine exchange" - !!omap - id: "r_1988" - name: "oxaloacetate transport" @@ -59348,6 +59852,7 @@ - kegg.reaction: "R00363" - metanetx.reaction: "MNXR125856" - sbo: "SBO:0000627" + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_1990" - name: "oxidized glutathione uniport" @@ -59571,6 +60076,7 @@ - annotation: !!omap - bigg.reaction: "EX_pi_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); phosphate exchange" - !!omap - id: "r_2008" - name: "phosphate transport" @@ -59795,6 +60301,7 @@ - annotation: !!omap - bigg.reaction: "EX_pyr_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); pyruvate exchange" - !!omap - id: "r_2034" - name: "pyruvate transport" @@ -60077,6 +60584,7 @@ - annotation: !!omap - bigg.reaction: "EX_succ_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); succinate exchange" - !!omap - id: "r_2057" - name: "succinate transport" @@ -60104,6 +60612,7 @@ - annotation: !!omap - bigg.reaction: "EX_sucr_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); sucrose exchange" - !!omap - id: "r_2060" - name: "sulphate exchange" @@ -60116,6 +60625,7 @@ - annotation: !!omap - bigg.reaction: "EX_so4_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); sulphate exchange" - !!omap - id: "r_2061" - name: "sulphite exchange" @@ -60516,6 +61026,7 @@ - annotation: !!omap - bigg.reaction: "EX_urea_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); urea exchange" - !!omap - id: "r_2092" - name: "uridine exchange" @@ -60700,6 +61211,7 @@ - annotation: !!omap - bigg.reaction: "EX_xylt_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); xylitol exchange" - !!omap - id: "r_2105" - name: "xylitol transport" @@ -60758,6 +61270,7 @@ - pubmed: "18687109" - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_2111" - name: "growth" @@ -60794,6 +61307,7 @@ - pubmed: "18205391" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | alternative MetaNetX ID MNXR99596 (PR #220) | model.S(610,847) curated (PR #222)" - !!omap - id: "r_2113" - name: "spontaneous kynurenic acid to quinaldic acid" @@ -60814,6 +61328,7 @@ - pubmed: "18205391" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "MetaNetX ID curated (PR #220) | KEGG ID curated (PR #220) | model.S(951,848) curated (PR #222) | model.S(955,848) curated (PR #222) | model.S(610,848) curated (PR #222) | model.S(601,848) curated (PR #222)" - !!omap - id: "r_2114" - name: "spontaneous 2-amino-3-carboxymuconate-6-semialdehyde to quinolinate" @@ -60832,6 +61347,7 @@ - pubmed: "18205391" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(601,849) curated (PR #222)" - !!omap - id: "r_2115" - name: "alcohol dehydrogenase, (acetaldehyde to ethanol)" @@ -60888,6 +61404,7 @@ - metanetx.reaction: "MNXR95749" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "MetaNetX ID curated (PR #220) | KEGG ID curated (PR #220) | model.S(601,851) curated (PR #222)" - !!omap - id: "r_2117" - name: "phenylalanine transaminase" @@ -60918,6 +61435,7 @@ - "9491083" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | KEGG ID curated (PR #220)" - !!omap - id: "r_2118" - name: "tryptophan transaminase" @@ -60995,6 +61513,7 @@ - pubmed: "22672422" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_2126" - name: "sedoheptulose bisphosphatase" @@ -61024,6 +61543,7 @@ - "22672422" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(610,855) curated (PR #222)" - !!omap - id: "r_2129" - name: "proton leak" @@ -61348,6 +61868,7 @@ - pubmed: "9388293" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_2148" - name: "3-hydroxyacyl-thioester dehydratase (trans-but-2-enoyl-ACP)" @@ -61401,6 +61922,7 @@ - pubmed: "15387819" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_2151" - name: "enoyl-ACP reductase (butanoyl-ACP)" @@ -61797,6 +62319,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_2167" - name: "B-ketoacyl-CoA reductase ((S)-3-hydroxyhexacosanoyl-CoA)" @@ -61958,6 +62481,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | rxnDirection curated (PR #227)" - !!omap - id: "r_2174" - name: "B-hydroxyacyl-CoA dehydratase (trans-hexacos-2-enoyl-CoA)" @@ -63257,6 +63781,7 @@ - pubmed: "16490786" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(608,926) curated (PR #222)" - !!omap - id: "r_2233" - name: "peroxisomal acyl-CoA thioesterase (6:0)" @@ -63282,6 +63807,7 @@ - pubmed: "16490786" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(608,927) curated (PR #222)" - !!omap - id: "r_2234" - name: "peroxisomal acyl-CoA thioesterase (16:1)" @@ -63357,6 +63883,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_2237" - name: "acyl-CoA oxidase (hexanoyl-CoA)" @@ -63383,6 +63910,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_2238" - name: "acyl-CoA oxidase (octanoyl-CoA)" @@ -63481,6 +64009,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_2242" - name: "acyl-CoA oxidase (palmitoleoyl-CoA)" @@ -63506,6 +64035,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(608,936) curated (PR #222)" - !!omap - id: "r_2243" - name: "acyl-CoA oxidase (cis-tetradec-7-enoyl-CoA)" @@ -63775,6 +64305,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(608,948) curated (PR #222)" - !!omap - id: "r_2255" - name: "2-enoyl-CoA hydratase (3-hydroxyhexanoyl-CoA)" @@ -63815,6 +64346,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220) | model.S(608,950) curated (PR #222)" - !!omap - id: "r_2257" - name: "2-enoyl-CoA hydratase (3-hydroxyicosanoyl-CoA)" @@ -63873,6 +64405,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "MetaNetX ID curated (PR #220)" - !!omap - id: "r_2260" - name: "2-enoyl-CoA hydratase (3-hydroxy-cis-hexadec-9-enoyl-CoA)" @@ -63950,6 +64483,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(608,957) curated (PR #222)" - !!omap - id: "r_2264" - name: "2-enoyl-CoA hydratase (3-hydroxy-cis-hexadec-7-enoyl-CoA)" @@ -64695,6 +65229,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(608,989) curated (PR #222)" - !!omap - id: "r_2296" - name: "delta3,delta2-enoyl-CoA isomerase (trans-2,cis-5-dodecadienoyl-CoA)" @@ -64735,6 +65270,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(608,991) curated (PR #222)" - !!omap - id: "r_2298" - name: "delta3,delta2-enoyl-CoA isomerase (cis-dodec-3-enoyl-CoA)" @@ -64755,6 +65291,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(608,992) curated (PR #222)" - !!omap - id: "r_2299" - name: "delta3,delta2-enoyl-CoA isomerase (trans-2,cis-5-tetradecadienoyl-CoA)" @@ -64794,6 +65331,7 @@ - pubmed: "12697341" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(608,994) curated (PR #222)" - !!omap - id: "r_2301" - name: "delta(3,5)-delta(2,4)-dienoyl-CoA isomerase (trans-3,cis-5-dodecadienoyl-CoA)" @@ -64919,6 +65457,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1000) curated (PR #222)" - !!omap - id: "r_2309" - name: "glycerol-3-phosphate acyltransferase (16:1), ER membrane" @@ -64944,6 +65483,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1001) curated (PR #222)" - !!omap - id: "r_2310" - name: "glycerol-3-phosphate acyltransferase (18:0), ER membrane" @@ -64969,6 +65509,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1002) curated (PR #222)" - !!omap - id: "r_2311" - name: "glycerol-3-phosphate acyltransferase (18:1), ER membrane" @@ -64994,6 +65535,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1003) curated (PR #222)" - !!omap - id: "r_2312" - name: "dihydroxyacetone phosphate acyltransferase (16:0), ER membrane" @@ -65019,6 +65561,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1004) curated (PR #222)" - !!omap - id: "r_2313" - name: "dihydroxyacetone phosphate acyltransferase (16:1), ER membrane" @@ -65044,6 +65587,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1005) curated (PR #222)" - !!omap - id: "r_2314" - name: "dihydroxyacetone phosphate acyltransferase (18:0), ER membrane" @@ -65069,6 +65613,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1006) curated (PR #222)" - !!omap - id: "r_2315" - name: "dihydroxyacetone phosphate acyltransferase (18:1), ER membrane" @@ -65094,6 +65639,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1007) curated (PR #222)" - !!omap - id: "r_2316" - name: "glycerol-3-phosphate acyltransferase (16:0), lipid particle" @@ -65119,6 +65665,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1008) curated (PR #222)" - !!omap - id: "r_2317" - name: "glycerol-3-phosphate acyltransferase (16:1), lipid particle" @@ -65144,6 +65691,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1009) curated (PR #222)" - !!omap - id: "r_2318" - name: "glycerol-3-phosphate acyltransferase (18:0), lipid particle" @@ -65169,6 +65717,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1010) curated (PR #222)" - !!omap - id: "r_2319" - name: "glycerol-3-phosphate acyltransferase (18:1), lipid particle" @@ -65194,6 +65743,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1011) curated (PR #222)" - !!omap - id: "r_2320" - name: "dihydroxyacetone phosphate acyltransferase (16:0), lipid particle" @@ -65219,6 +65769,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(605,1012) curated (PR #222)" - !!omap - id: "r_2321" - name: "dihydroxyacetone phosphate acyltransferase (16:1), lipid particle" @@ -65244,6 +65795,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(605,1013) curated (PR #222)" - !!omap - id: "r_2322" - name: "dihydroxyacetone phosphate acyltransferase (18:0), lipid particle" @@ -65269,6 +65821,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(605,1014) curated (PR #222)" - !!omap - id: "r_2323" - name: "dihydroxyacetone phosphate acyltransferase (18:1), lipid particle" @@ -65294,6 +65847,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(605,1015) curated (PR #222)" - !!omap - id: "r_2324" - name: "acyl dhap reductase (16:0), ER membrane" @@ -65769,6 +66323,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1036) curated (PR #222)" - !!omap - id: "r_2345" - name: "PA phosphatase (1-16:0, 2-18:1), ER membrane" @@ -65792,6 +66347,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1037) curated (PR #222)" - !!omap - id: "r_2346" - name: "PA phosphatase (1-16:1, 2-16:1), ER membrane" @@ -65815,6 +66371,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1038) curated (PR #222)" - !!omap - id: "r_2347" - name: "PA phosphatase (1-16:1, 2-18:1), ER membrane" @@ -65838,6 +66395,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1039) curated (PR #222)" - !!omap - id: "r_2348" - name: "PA phosphatase (1-18:0, 2-16:1), ER membrane" @@ -65861,6 +66419,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1040) curated (PR #222)" - !!omap - id: "r_2349" - name: "PA phosphatase (1-18:0, 2-18:1), ER membrane" @@ -65884,6 +66443,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1041) curated (PR #222)" - !!omap - id: "r_2350" - name: "PA phosphatase (1-18:1, 2-16:1), ER membrane" @@ -65907,6 +66467,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1042) curated (PR #222)" - !!omap - id: "r_2351" - name: "PA phosphatase (1-18:1, 2-18:1), ER membrane" @@ -65930,6 +66491,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1043) curated (PR #222)" - !!omap - id: "r_2352" - name: "PA phosphatase (1-16:0, 2-16:1), vacuolar membrane" @@ -65955,6 +66517,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1044) curated (PR #222)" - !!omap - id: "r_2353" - name: "PA phosphatase (1-16:0, 2-18:1), vacuolar membrane" @@ -65980,6 +66543,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1045) curated (PR #222)" - !!omap - id: "r_2354" - name: "PA phosphatase (1-16:1, 2-16:1), vacuolar membrane" @@ -66005,6 +66569,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1046) curated (PR #222)" - !!omap - id: "r_2355" - name: "PA phosphatase (1-16:1, 2-18:1), vacuolar membrane" @@ -66030,6 +66595,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1047) curated (PR #222)" - !!omap - id: "r_2356" - name: "PA phosphatase (1-18:0, 2-16:1), vacuolar membrane" @@ -66055,6 +66621,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1048) curated (PR #222)" - !!omap - id: "r_2357" - name: "PA phosphatase (1-18:0, 2-18:1), vacuolar membrane" @@ -66080,6 +66647,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1049) curated (PR #222)" - !!omap - id: "r_2358" - name: "PA phosphatase (1-18:1, 2-16:1), vacuolar membrane" @@ -66105,6 +66673,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1050) curated (PR #222)" - !!omap - id: "r_2359" - name: "PA phosphatase (1-18:1, 2-18:1), vacuolar membrane" @@ -66130,6 +66699,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1051) curated (PR #222)" - !!omap - id: "r_2360" - name: "PA phosphatase (1-16:0, 2-16:1), Golgi membrane" @@ -66151,6 +66721,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1052) curated (PR #222)" - !!omap - id: "r_2361" - name: "PA phosphatase (1-16:0, 2-18:1), Golgi membrane" @@ -66172,6 +66743,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1053) curated (PR #222)" - !!omap - id: "r_2362" - name: "PA phosphatase (1-16:1, 2-16:1), Golgi membrane" @@ -66193,6 +66765,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1054) curated (PR #222)" - !!omap - id: "r_2363" - name: "PA phosphatase (1-16:1, 2-18:1), Golgi membrane" @@ -66214,6 +66787,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1055) curated (PR #222)" - !!omap - id: "r_2364" - name: "PA phosphatase (1-18:0, 2-16:1), Golgi membrane" @@ -66235,6 +66809,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1056) curated (PR #222)" - !!omap - id: "r_2365" - name: "PA phosphatase (1-18:0, 2-18:1), Golgi membrane" @@ -66256,6 +66831,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1057) curated (PR #222)" - !!omap - id: "r_2366" - name: "PA phosphatase (1-18:1, 2-16:1), Golgi membrane" @@ -66277,6 +66853,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1058) curated (PR #222)" - !!omap - id: "r_2367" - name: "PA phosphatase (1-18:1, 2-18:1), Golgi membrane" @@ -66298,6 +66875,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1059) curated (PR #222)" - !!omap - id: "r_2368" - name: "diacylglycerol acyltransferase (1-16:0, 2-16:1, 3-16:0), ER membrane" @@ -68083,6 +68661,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1138) curated (PR #222)" - !!omap - id: "r_2447" - name: "PS synthase (1-16:1, 2-16:1), ER membrane" @@ -68106,6 +68685,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1139) curated (PR #222)" - !!omap - id: "r_2448" - name: "PS synthase (1-18:0, 2-16:1), ER membrane" @@ -68129,6 +68709,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1140) curated (PR #222)" - !!omap - id: "r_2449" - name: "PS synthase (1-18:1, 2-16:1), ER membrane" @@ -68152,6 +68733,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1141) curated (PR #222)" - !!omap - id: "r_2450" - name: "PS synthase (1-16:0, 2-18:1), ER membrane" @@ -68175,6 +68757,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1142) curated (PR #222)" - !!omap - id: "r_2451" - name: "PS synthase (1-16:1, 2-18:1), ER membrane" @@ -68198,6 +68781,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1143) curated (PR #222)" - !!omap - id: "r_2452" - name: "PS synthase (1-18:0, 2-18:1), ER membrane" @@ -68221,6 +68805,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1144) curated (PR #222)" - !!omap - id: "r_2453" - name: "PS synthase (1-18:1, 2-18:1), ER membrane" @@ -68244,6 +68829,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1145) curated (PR #222)" - !!omap - id: "r_2454" - name: "PI synthase (1-16:0, 2-16:1), ER membrane" @@ -68267,6 +68853,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1146) curated (PR #222)" - !!omap - id: "r_2455" - name: "PI synthase (1-16:1, 2-16:1), ER membrane" @@ -68290,6 +68877,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1147) curated (PR #222)" - !!omap - id: "r_2456" - name: "PI synthase (1-18:0, 2-16:1), ER membrane" @@ -68313,6 +68901,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1148) curated (PR #222)" - !!omap - id: "r_2457" - name: "PI synthase (1-18:1, 2-16:1), ER membrane" @@ -68336,6 +68925,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1149) curated (PR #222)" - !!omap - id: "r_2458" - name: "PI synthase (1-16:0, 2-18:1), ER membrane" @@ -68359,6 +68949,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1150) curated (PR #222)" - !!omap - id: "r_2459" - name: "PI synthase (1-16:1, 2-18:1), ER membrane" @@ -68382,6 +68973,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1151) curated (PR #222)" - !!omap - id: "r_2460" - name: "PI synthase (1-18:0, 2-18:1), ER membrane" @@ -68405,6 +68997,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1152) curated (PR #222)" - !!omap - id: "r_2461" - name: "PI synthase (1-18:1, 2-18:1), ER membrane" @@ -68428,6 +69021,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1153) curated (PR #222)" - !!omap - id: "r_2462" - name: "lysoPI acyltransferase (1-18:0, 2-16:1), ER membrane" @@ -68484,6 +69078,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1156) curated (PR #222)" - !!omap - id: "r_2465" - name: "PS decarboxylase (1-16:1, 2-16:1), mitochondrial membrane" @@ -68504,6 +69099,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1157) curated (PR #222)" - !!omap - id: "r_2466" - name: "PS decarboxylase (1-18:0, 2-16:1), mitochondrial membrane" @@ -68524,6 +69120,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1158) curated (PR #222)" - !!omap - id: "r_2467" - name: "PS decarboxylase (1-18:1, 2-16:1), mitochondrial membrane" @@ -68544,6 +69141,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1159) curated (PR #222)" - !!omap - id: "r_2468" - name: "PS decarboxylase (1-16:0, 2-18:1), mitochondrial membrane" @@ -68564,6 +69162,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1160) curated (PR #222)" - !!omap - id: "r_2469" - name: "PS decarboxylase (1-16:1, 2-18:1), mitochondrial membrane" @@ -68584,6 +69183,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1161) curated (PR #222)" - !!omap - id: "r_2470" - name: "PS decarboxylase (1-18:0, 2-18:1), mitochondrial membrane" @@ -68604,6 +69204,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1162) curated (PR #222)" - !!omap - id: "r_2471" - name: "PS decarboxylase (1-18:1, 2-18:1), mitochondrial membrane" @@ -68624,6 +69225,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1163) curated (PR #222)" - !!omap - id: "r_2472" - name: "PS decarboxylase (1-16:0, 2-16:1), Golgi membrane" @@ -68644,6 +69246,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1164) curated (PR #222)" - !!omap - id: "r_2473" - name: "PS decarboxylase (1-16:1, 2-16:1), Golgi membrane" @@ -68664,6 +69267,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1165) curated (PR #222)" - !!omap - id: "r_2474" - name: "PS decarboxylase (1-18:0, 2-16:1), Golgi membrane" @@ -68684,6 +69288,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1166) curated (PR #222)" - !!omap - id: "r_2475" - name: "PS decarboxylase (1-18:1, 2-16:1), Golgi membrane" @@ -68704,6 +69309,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1167) curated (PR #222)" - !!omap - id: "r_2476" - name: "PS decarboxylase (1-16:0, 2-18:1), Golgi membrane" @@ -68724,6 +69330,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1168) curated (PR #222)" - !!omap - id: "r_2477" - name: "PS decarboxylase (1-16:1, 2-18:1), Golgi membrane" @@ -68744,6 +69351,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1169) curated (PR #222)" - !!omap - id: "r_2478" - name: "PS decarboxylase (1-18:0, 2-18:1), Golgi membrane" @@ -68764,6 +69372,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1170) curated (PR #222)" - !!omap - id: "r_2479" - name: "PS decarboxylase (1-18:1, 2-18:1), Golgi membrane" @@ -68784,6 +69393,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1171) curated (PR #222)" - !!omap - id: "r_2480" - name: "PS decarboxylase (1-16:0, 2-16:1), vacuolar membrane" @@ -68804,6 +69414,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1172) curated (PR #222)" - !!omap - id: "r_2481" - name: "PS decarboxylase (1-16:1, 2-16:1), vacuolar membrane" @@ -68824,6 +69435,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1173) curated (PR #222)" - !!omap - id: "r_2482" - name: "PS decarboxylase (1-18:0, 2-16:1), vacuolar membrane" @@ -68844,6 +69456,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1174) curated (PR #222)" - !!omap - id: "r_2483" - name: "PS decarboxylase (1-18:1, 2-16:1), vacuolar membrane" @@ -68864,6 +69477,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1175) curated (PR #222)" - !!omap - id: "r_2484" - name: "PS decarboxylase (1-16:0, 2-18:1), vacuolar membrane" @@ -68884,6 +69498,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1176) curated (PR #222)" - !!omap - id: "r_2485" - name: "PS decarboxylase (1-16:1, 2-18:1), vacuolar membrane" @@ -68904,6 +69519,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1177) curated (PR #222)" - !!omap - id: "r_2486" - name: "PS decarboxylase (1-18:0, 2-18:1), vacuolar membrane" @@ -68924,6 +69540,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1178) curated (PR #222)" - !!omap - id: "r_2487" - name: "PS decarboxylase (1-18:1, 2-18:1), vacuolar membrane" @@ -68944,6 +69561,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1179) curated (PR #222)" - !!omap - id: "r_2488" - name: "PE methyltransferase (1-16:0, 2-16:1), ER membrane" @@ -69542,6 +70160,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1204) curated (PR #222)" - !!omap - id: "r_2513" - name: "DAG kinase (1-16:1, 2-16:1), ER membrane" @@ -69564,6 +70183,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1205) curated (PR #222)" - !!omap - id: "r_2514" - name: "DAG kinase (1-18:0, 2-16:1), ER membrane" @@ -69586,6 +70206,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1206) curated (PR #222)" - !!omap - id: "r_2515" - name: "DAG kinase (1-18:1, 2-16:1), ER membrane" @@ -69608,6 +70229,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1207) curated (PR #222)" - !!omap - id: "r_2516" - name: "DAG kinase (1-16:0, 2-18:1), ER membrane" @@ -69630,6 +70252,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1208) curated (PR #222)" - !!omap - id: "r_2517" - name: "DAG kinase (1-16:1, 2-18:1), ER membrane" @@ -69652,6 +70275,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1209) curated (PR #222)" - !!omap - id: "r_2518" - name: "DAG kinase (1-18:0, 2-18:1), ER membrane" @@ -69674,6 +70298,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1210) curated (PR #222)" - !!omap - id: "r_2519" - name: "DAG kinase (1-18:1, 2-18:1), ER membrane" @@ -69696,6 +70321,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1211) curated (PR #222)" - !!omap - id: "r_2520" - name: "ethanolaminephosphotransferase (1-16:0, 2-16:1), ER membrane" @@ -70115,6 +70741,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1228) curated (PR #222)" - !!omap - id: "r_2537" - name: "phosphatidylglycerolphosphate synthase (1-16:1, 2-16:1), mitochondrial membrane" @@ -70134,6 +70761,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1229) curated (PR #222)" - !!omap - id: "r_2538" - name: "phosphatidylglycerolphosphate synthase (1-18:0, 2-16:1), mitochondrial membrane" @@ -70153,6 +70781,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1230) curated (PR #222)" - !!omap - id: "r_2539" - name: "phosphatidylglycerolphosphate synthase (1-18:1, 2-16:1), mitochondrial membrane" @@ -70172,6 +70801,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1231) curated (PR #222)" - !!omap - id: "r_2540" - name: "phosphatidylglycerolphosphate synthase (1-16:0, 2-18:1), mitochondrial membrane" @@ -70191,6 +70821,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1232) curated (PR #222)" - !!omap - id: "r_2541" - name: "phosphatidylglycerolphosphate synthase (1-16:1, 2-18:1), mitochondrial membrane" @@ -70210,6 +70841,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1233) curated (PR #222)" - !!omap - id: "r_2542" - name: "PGP phosphatase (1-16:0, 2-16:1), mitochondrial membrane" @@ -70230,6 +70862,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1234) curated (PR #222)" - !!omap - id: "r_2543" - name: "PGP phosphatase (1-16:1, 2-16:1), mitochondrial membrane" @@ -70250,6 +70883,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1235) curated (PR #222)" - !!omap - id: "r_2544" - name: "PGP phosphatase (1-18:0, 2-16:1), mitochondrial membrane" @@ -70270,6 +70904,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1236) curated (PR #222)" - !!omap - id: "r_2545" - name: "PGP phosphatase (1-18:1, 2-16:1), mitochondrial membrane" @@ -70290,6 +70925,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1237) curated (PR #222)" - !!omap - id: "r_2546" - name: "PGP phosphatase (1-16:0, 2-18:1), mitochondrial membrane" @@ -70310,6 +70946,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1238) curated (PR #222)" - !!omap - id: "r_2547" - name: "PGP phosphatase (1-16:1, 2-18:1), mitochondrial membrane" @@ -70330,6 +70967,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1239) curated (PR #222)" - !!omap - id: "r_2548" - name: "CL synthase (1-16:0, 2-16:1, 3-16:0, 4-16:1), mitochondrial membrane" @@ -70350,6 +70988,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1240) curated (PR #222)" - !!omap - id: "r_2549" - name: "CL synthase (1-16:0, 2-16:1, 3-16:1, 4-16:1), mitochondrial membrane" @@ -70370,6 +71009,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1241) curated (PR #222)" - !!omap - id: "r_2550" - name: "CL synthase (1-16:0, 2-16:1, 3-18:0, 4-16:1), mitochondrial membrane" @@ -70390,6 +71030,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1242) curated (PR #222)" - !!omap - id: "r_2551" - name: "CL synthase (1-16:0, 2-16:1, 3-18:1, 4-16:1), mitochondrial membrane" @@ -70410,6 +71051,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1243) curated (PR #222)" - !!omap - id: "r_2552" - name: "CL synthase (1-16:0, 2-16:1, 3-16:0, 4-18:1), mitochondrial membrane" @@ -70430,6 +71072,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1244) curated (PR #222)" - !!omap - id: "r_2553" - name: "CL synthase (1-16:0, 2-16:1, 3-16:1, 4-18:1), mitochondrial membrane" @@ -70450,6 +71093,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1245) curated (PR #222)" - !!omap - id: "r_2554" - name: "CL synthase (1-16:1, 2-16:1, 3-16:0, 4-16:1), mitochondrial membrane" @@ -70470,6 +71114,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1246) curated (PR #222)" - !!omap - id: "r_2555" - name: "CL synthase (1-16:1, 2-16:1, 3-16:1, 4-16:1), mitochondrial membrane" @@ -70490,6 +71135,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1247) curated (PR #222)" - !!omap - id: "r_2556" - name: "CL synthase (1-16:1, 2-16:1, 3-18:0, 4-16:1), mitochondrial membrane" @@ -70510,6 +71156,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1248) curated (PR #222)" - !!omap - id: "r_2557" - name: "CL synthase (1-16:1, 2-16:1, 3-18:1, 4-16:1), mitochondrial membrane" @@ -70530,6 +71177,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1249) curated (PR #222)" - !!omap - id: "r_2558" - name: "CL synthase (1-16:1, 2-16:1, 3-16:0, 4-18:1), mitochondrial membrane" @@ -70550,6 +71198,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1250) curated (PR #222)" - !!omap - id: "r_2559" - name: "CL synthase (1-16:1, 2-16:1, 3-16:1, 4-18:1), mitochondrial membrane" @@ -70570,6 +71219,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1251) curated (PR #222)" - !!omap - id: "r_2560" - name: "CL synthase (1-18:0, 2-16:1, 3-16:0, 4-16:1), mitochondrial membrane" @@ -70590,6 +71240,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1252) curated (PR #222)" - !!omap - id: "r_2561" - name: "CL synthase (1-18:0, 2-16:1, 3-16:1, 4-16:1), mitochondrial membrane" @@ -70610,6 +71261,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1253) curated (PR #222)" - !!omap - id: "r_2562" - name: "CL synthase (1-18:0, 2-16:1, 3-18:0, 4-16:1), mitochondrial membrane" @@ -70630,6 +71282,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1254) curated (PR #222)" - !!omap - id: "r_2563" - name: "CL synthase (1-18:0, 2-16:1, 3-18:1, 4-16:1), mitochondrial membrane" @@ -70650,6 +71303,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1255) curated (PR #222)" - !!omap - id: "r_2564" - name: "CL synthase (1-18:0, 2-16:1, 3-16:0, 4-18:1), mitochondrial membrane" @@ -70670,6 +71324,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1256) curated (PR #222)" - !!omap - id: "r_2565" - name: "CL synthase (1-18:0, 2-16:1, 3-16:1, 4-18:1), mitochondrial membrane" @@ -70690,6 +71345,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1257) curated (PR #222)" - !!omap - id: "r_2566" - name: "CL synthase (1-18:1, 2-16:1, 3-16:0, 4-16:1), mitochondrial membrane" @@ -70710,6 +71366,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1258) curated (PR #222)" - !!omap - id: "r_2567" - name: "CL synthase (1-18:1, 2-16:1, 3-16:1, 4-16:1), mitochondrial membrane" @@ -70730,6 +71387,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1259) curated (PR #222)" - !!omap - id: "r_2568" - name: "CL synthase (1-18:1, 2-16:1, 3-18:0, 4-16:1), mitochondrial membrane" @@ -70750,6 +71408,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1260) curated (PR #222)" - !!omap - id: "r_2569" - name: "CL synthase (1-18:1, 2-16:1, 3-18:1, 4-16:1), mitochondrial membrane" @@ -70770,6 +71429,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1261) curated (PR #222)" - !!omap - id: "r_2570" - name: "CL synthase (1-18:1, 2-16:1, 3-16:0, 4-18:1), mitochondrial membrane" @@ -70790,6 +71450,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1262) curated (PR #222)" - !!omap - id: "r_2571" - name: "CL synthase (1-18:1, 2-16:1, 3-16:1, 4-18:1), mitochondrial membrane" @@ -70810,6 +71471,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1263) curated (PR #222)" - !!omap - id: "r_2572" - name: "CL synthase (1-16:0, 2-18:1, 3-16:0, 4-16:1), mitochondrial membrane" @@ -70830,6 +71492,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1264) curated (PR #222)" - !!omap - id: "r_2573" - name: "CL synthase (1-16:0, 2-18:1, 3-16:1, 4-16:1), mitochondrial membrane" @@ -70850,6 +71513,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1265) curated (PR #222)" - !!omap - id: "r_2574" - name: "CL synthase (1-16:0, 2-18:1, 3-18:0, 4-16:1), mitochondrial membrane" @@ -70870,6 +71534,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1266) curated (PR #222)" - !!omap - id: "r_2575" - name: "CL synthase (1-16:0, 2-18:1, 3-18:1, 4-16:1), mitochondrial membrane" @@ -70890,6 +71555,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1267) curated (PR #222)" - !!omap - id: "r_2576" - name: "CL synthase (1-16:0, 2-18:1, 3-16:0, 4-18:1), mitochondrial membrane" @@ -70910,6 +71576,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1268) curated (PR #222)" - !!omap - id: "r_2577" - name: "CL synthase (1-16:0, 2-18:1, 3-16:1, 4-18:1), mitochondrial membrane" @@ -70930,6 +71597,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1269) curated (PR #222)" - !!omap - id: "r_2578" - name: "CL synthase (1-16:1, 2-18:1, 3-16:0, 4-16:1), mitochondrial membrane" @@ -70950,6 +71618,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1270) curated (PR #222)" - !!omap - id: "r_2579" - name: "CL synthase (1-16:1, 2-18:1, 3-16:1, 4-16:1), mitochondrial membrane" @@ -70970,6 +71639,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1271) curated (PR #222)" - !!omap - id: "r_2580" - name: "CL synthase (1-16:1, 2-18:1, 3-18:0, 4-16:1), mitochondrial membrane" @@ -70990,6 +71660,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1272) curated (PR #222)" - !!omap - id: "r_2581" - name: "CL synthase (1-16:1, 2-18:1, 3-18:1, 4-16:1), mitochondrial membrane" @@ -71010,6 +71681,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1273) curated (PR #222)" - !!omap - id: "r_2582" - name: "CL synthase (1-16:1, 2-18:1, 3-16:0, 4-18:1), mitochondrial membrane" @@ -71030,6 +71702,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1274) curated (PR #222)" - !!omap - id: "r_2583" - name: "CL synthase (1-16:1, 2-18:1, 3-16:1, 4-18:1), mitochondrial membrane" @@ -71050,6 +71723,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1275) curated (PR #222)" - !!omap - id: "r_2584" - name: "CL (1-16:0, 2-16:1, 3-16:0, 4-16:1) phospholipase (1-position), mitochondrial membrane" @@ -75561,6 +76235,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1504) curated (PR #222)" - !!omap - id: "r_2821" - name: "phosphatidylinositol 4-kinase (1-16:1, 2-16:1), cell envelope" @@ -75584,6 +76259,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1505) curated (PR #222)" - !!omap - id: "r_2822" - name: "phosphatidylinositol 4-kinase (1-18:0, 2-16:1), cell envelope" @@ -75607,6 +76283,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1506) curated (PR #222)" - !!omap - id: "r_2823" - name: "phosphatidylinositol 4-kinase (1-18:1, 2-16:1), cell envelope" @@ -75630,6 +76307,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1507) curated (PR #222)" - !!omap - id: "r_2824" - name: "phosphatidylinositol 4-kinase (1-16:0, 2-18:1), cell envelope" @@ -75653,6 +76331,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1508) curated (PR #222)" - !!omap - id: "r_2825" - name: "phosphatidylinositol 4-kinase (1-16:1, 2-18:1), cell envelope" @@ -75676,6 +76355,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1509) curated (PR #222)" - !!omap - id: "r_2826" - name: "phosphatidylinositol 4-kinase (1-18:0, 2-18:1), cell envelope" @@ -75699,6 +76379,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1510) curated (PR #222)" - !!omap - id: "r_2827" - name: "phosphatidylinositol 4-kinase (1-18:1, 2-18:1), cell envelope" @@ -75722,6 +76403,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1511) curated (PR #222)" - !!omap - id: "r_2828" - name: "phosphatidylinositol 4-kinase (1-16:0, 2-16:1), vacuolar membrane" @@ -75744,6 +76426,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1512) curated (PR #222)" - !!omap - id: "r_2829" - name: "phosphatidylinositol 4-kinase (1-16:1, 2-16:1), vacuolar membrane" @@ -75766,6 +76449,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1513) curated (PR #222)" - !!omap - id: "r_2830" - name: "phosphatidylinositol 4-kinase (1-18:0, 2-16:1), vacuolar membrane" @@ -75788,6 +76472,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1514) curated (PR #222)" - !!omap - id: "r_2831" - name: "phosphatidylinositol 4-kinase (1-18:1, 2-16:1), vacuolar membrane" @@ -75810,6 +76495,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1515) curated (PR #222)" - !!omap - id: "r_2832" - name: "phosphatidylinositol 4-kinase (1-16:0, 2-18:1), vacuolar membrane" @@ -75832,6 +76518,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1516) curated (PR #222)" - !!omap - id: "r_2833" - name: "phosphatidylinositol 4-kinase (1-16:1, 2-18:1), vacuolar membrane" @@ -75854,6 +76541,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1517) curated (PR #222)" - !!omap - id: "r_2834" - name: "phosphatidylinositol 4-kinase (1-18:0, 2-18:1), vacuolar membrane" @@ -75876,6 +76564,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1518) curated (PR #222)" - !!omap - id: "r_2835" - name: "phosphatidylinositol 4-kinase (1-18:1, 2-18:1), vacuolar membrane" @@ -75898,6 +76587,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1519) curated (PR #222)" - !!omap - id: "r_2836" - name: "phosphatidylinositol 4-kinase (1-16:0, 2-16:1), Golgi membrane" @@ -75920,6 +76610,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1520) curated (PR #222)" - !!omap - id: "r_2837" - name: "phosphatidylinositol 4-kinase (1-16:1, 2-16:1), Golgi membrane" @@ -75942,6 +76633,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1521) curated (PR #222)" - !!omap - id: "r_2838" - name: "phosphatidylinositol 4-kinase (1-18:0, 2-16:1), Golgi membrane" @@ -75964,6 +76656,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1522) curated (PR #222)" - !!omap - id: "r_2839" - name: "phosphatidylinositol 4-kinase (1-18:1, 2-16:1), Golgi membrane" @@ -75986,6 +76679,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1523) curated (PR #222)" - !!omap - id: "r_2840" - name: "phosphatidylinositol 4-kinase (1-16:0, 2-18:1), Golgi membrane" @@ -76008,6 +76702,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1524) curated (PR #222)" - !!omap - id: "r_2841" - name: "phosphatidylinositol 4-kinase (1-16:1, 2-18:1), Golgi membrane" @@ -76030,6 +76725,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1525) curated (PR #222)" - !!omap - id: "r_2842" - name: "phosphatidylinositol 4-kinase (1-18:0, 2-18:1), Golgi membrane" @@ -76052,6 +76748,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1526) curated (PR #222)" - !!omap - id: "r_2843" - name: "phosphatidylinositol 4-kinase (1-18:1, 2-18:1), Golgi membrane" @@ -76074,6 +76771,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1527) curated (PR #222)" - !!omap - id: "r_2844" - name: "phosphatidylinositol 4-kinase (1-16:0, 2-16:1), nucleus" @@ -76096,6 +76794,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1528) curated (PR #222)" - !!omap - id: "r_2845" - name: "phosphatidylinositol 4-kinase (1-16:1, 2-16:1), nucleus" @@ -76118,6 +76817,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1529) curated (PR #222)" - !!omap - id: "r_2846" - name: "phosphatidylinositol 4-kinase (1-18:0, 2-16:1), nucleus" @@ -76140,6 +76840,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1530) curated (PR #222)" - !!omap - id: "r_2847" - name: "phosphatidylinositol 4-kinase (1-18:1, 2-16:1), nucleus" @@ -76162,6 +76863,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1531) curated (PR #222)" - !!omap - id: "r_2848" - name: "phosphatidylinositol 4-kinase (1-16:0, 2-18:1), nucleus" @@ -76184,6 +76886,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1532) curated (PR #222)" - !!omap - id: "r_2849" - name: "phosphatidylinositol 4-kinase (1-16:1, 2-18:1), nucleus" @@ -76206,6 +76909,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1533) curated (PR #222)" - !!omap - id: "r_2850" - name: "phosphatidylinositol 4-kinase (1-18:0, 2-18:1), nucleus" @@ -76228,6 +76932,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1534) curated (PR #222)" - !!omap - id: "r_2851" - name: "phosphatidylinositol 4-kinase (1-18:1, 2-18:1), nucleus" @@ -76250,6 +76955,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1535) curated (PR #222)" - !!omap - id: "r_2852" - name: "phosphatidylinositol 3-kinase (1-16:0, 2-16:1), vacuolar membrane" @@ -76277,6 +76983,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1536) curated (PR #222)" - !!omap - id: "r_2853" - name: "phosphatidylinositol 3-kinase (1-16:1, 2-16:1), vacuolar membrane" @@ -76304,6 +77011,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1537) curated (PR #222)" - !!omap - id: "r_2854" - name: "phosphatidylinositol 3-kinase (1-18:0, 2-16:1), vacuolar membrane" @@ -76331,6 +77039,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1538) curated (PR #222)" - !!omap - id: "r_2855" - name: "phosphatidylinositol 3-kinase (1-18:1, 2-16:1), vacuolar membrane" @@ -76358,6 +77067,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1539) curated (PR #222)" - !!omap - id: "r_2856" - name: "phosphatidylinositol 3-kinase (1-16:0, 2-18:1), vacuolar membrane" @@ -76385,6 +77095,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1540) curated (PR #222)" - !!omap - id: "r_2857" - name: "phosphatidylinositol 3-kinase (1-16:1, 2-18:1), vacuolar membrane" @@ -76412,6 +77123,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1541) curated (PR #222)" - !!omap - id: "r_2858" - name: "phosphatidylinositol 3-kinase (1-18:0, 2-18:1), vacuolar membrane" @@ -76439,6 +77151,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1542) curated (PR #222)" - !!omap - id: "r_2859" - name: "phosphatidylinositol 3-kinase (1-18:1, 2-18:1), vacuolar membrane" @@ -76466,6 +77179,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1543) curated (PR #222)" - !!omap - id: "r_2860" - name: "PI 4-P 5-kinase (1-16:0, 2-16:1), nucleus" @@ -76491,6 +77205,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1544) curated (PR #222)" - !!omap - id: "r_2861" - name: "PI 4-P 5-kinase (1-16:1, 2-16:1), nucleus" @@ -76516,6 +77231,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1545) curated (PR #222)" - !!omap - id: "r_2862" - name: "PI 4-P 5-kinase (1-18:0, 2-16:1), nucleus" @@ -76541,6 +77257,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1546) curated (PR #222)" - !!omap - id: "r_2863" - name: "PI 4-P 5-kinase (1-18:1, 2-16:1), nucleus" @@ -76566,6 +77283,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1547) curated (PR #222)" - !!omap - id: "r_2864" - name: "PI 4-P 5-kinase (1-16:0, 2-18:1), nucleus" @@ -76591,6 +77309,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1548) curated (PR #222)" - !!omap - id: "r_2865" - name: "PI 4-P 5-kinase (1-16:1, 2-18:1), nucleus" @@ -76616,6 +77335,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1549) curated (PR #222)" - !!omap - id: "r_2866" - name: "PI 4-P 5-kinase (1-18:0, 2-18:1), nucleus" @@ -76641,6 +77361,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1550) curated (PR #222)" - !!omap - id: "r_2867" - name: "PI 4-P 5-kinase (1-18:1, 2-18:1), nucleus" @@ -76666,6 +77387,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1551) curated (PR #222)" - !!omap - id: "r_2868" - name: "PI 4-P 5-kinase (1-16:0, 2-16:1), cell envelope" @@ -76691,6 +77413,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1552) curated (PR #222)" - !!omap - id: "r_2869" - name: "PI 4-P 5-kinase (1-16:1, 2-16:1), cell envelope" @@ -76716,6 +77439,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1553) curated (PR #222)" - !!omap - id: "r_2870" - name: "PI 4-P 5-kinase (1-18:0, 2-16:1), cell envelope" @@ -76741,6 +77465,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1554) curated (PR #222)" - !!omap - id: "r_2871" - name: "PI 4-P 5-kinase (1-18:1, 2-16:1), cell envelope" @@ -76766,6 +77491,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1555) curated (PR #222)" - !!omap - id: "r_2872" - name: "PI 4-P 5-kinase (1-16:0, 2-18:1), cell envelope" @@ -76791,6 +77517,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1556) curated (PR #222)" - !!omap - id: "r_2873" - name: "PI 4-P 5-kinase (1-16:1, 2-18:1), cell envelope" @@ -76816,6 +77543,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1557) curated (PR #222)" - !!omap - id: "r_2874" - name: "PI 4-P 5-kinase (1-18:0, 2-18:1), cell envelope" @@ -76841,6 +77569,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1558) curated (PR #222)" - !!omap - id: "r_2875" - name: "PI 4-P 5-kinase (1-18:1, 2-18:1), cell envelope" @@ -76866,6 +77595,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1559) curated (PR #222)" - !!omap - id: "r_2876" - name: "PI 3-P 5-kinase (1-16:0, 2-16:1), vacuolar membrane" @@ -76889,6 +77619,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1560) curated (PR #222)" - !!omap - id: "r_2877" - name: "PI 3-P 5-kinase (1-16:1, 2-16:1), vacuolar membrane" @@ -76912,6 +77643,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1561) curated (PR #222)" - !!omap - id: "r_2878" - name: "PI 3-P 5-kinase (1-18:0, 2-16:1), vacuolar membrane" @@ -76935,6 +77667,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1562) curated (PR #222)" - !!omap - id: "r_2879" - name: "PI 3-P 5-kinase (1-18:1, 2-16:1), vacuolar membrane" @@ -76958,6 +77691,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1563) curated (PR #222)" - !!omap - id: "r_2880" - name: "PI 3-P 5-kinase (1-16:0, 2-18:1), vacuolar membrane" @@ -76981,6 +77715,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1564) curated (PR #222)" - !!omap - id: "r_2881" - name: "PI 3-P 5-kinase (1-16:1, 2-18:1), vacuolar membrane" @@ -77004,6 +77739,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1565) curated (PR #222)" - !!omap - id: "r_2882" - name: "PI 3-P 5-kinase (1-18:0, 2-18:1), vacuolar membrane" @@ -77027,6 +77763,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1566) curated (PR #222)" - !!omap - id: "r_2883" - name: "PI 3-P 5-kinase (1-18:1, 2-18:1), vacuolar membrane" @@ -77050,6 +77787,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1567) curated (PR #222)" - !!omap - id: "r_2884" - name: "PE (1-16:0, 2-16:1) diacylglycerol (1-16:0, 2-16:1) acyltransferase, ER membrane" @@ -80622,6 +81360,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1752) curated (PR #222)" - !!omap - id: "r_3079" - name: "LPI phospholipase B (16:1), cell envelope" @@ -80642,6 +81381,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1753) curated (PR #222)" - !!omap - id: "r_3080" - name: "LPI phospholipase B (18:0), cell envelope" @@ -80662,6 +81402,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1754) curated (PR #222)" - !!omap - id: "r_3081" - name: "LPI phospholipase B (18:1), cell envelope" @@ -80682,6 +81423,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1755) curated (PR #222)" - !!omap - id: "r_3082" - name: "PI 4,5-P2 phospholipase C (1-16:0, 2-16:1), cytoplasm" @@ -80705,6 +81447,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1756) curated (PR #222)" - !!omap - id: "r_3083" - name: "PI 4,5-P2 phospholipase C (1-16:1, 2-16:1), cytoplasm" @@ -80728,6 +81471,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1757) curated (PR #222)" - !!omap - id: "r_3084" - name: "PI 4,5-P2 phospholipase C (1-18:0, 2-16:1), cytoplasm" @@ -80751,6 +81495,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1758) curated (PR #222)" - !!omap - id: "r_3085" - name: "PI 4,5-P2 phospholipase C (1-18:1, 2-16:1), cytoplasm" @@ -80774,6 +81519,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1759) curated (PR #222)" - !!omap - id: "r_3086" - name: "PI 4,5-P2 phospholipase C (1-16:0, 2-18:1), cytoplasm" @@ -80797,6 +81543,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1760) curated (PR #222)" - !!omap - id: "r_3087" - name: "PI 4,5-P2 phospholipase C (1-16:1, 2-18:1), cytoplasm" @@ -80820,6 +81567,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1761) curated (PR #222)" - !!omap - id: "r_3088" - name: "PI 4,5-P2 phospholipase C (1-18:0, 2-18:1), cytoplasm" @@ -80843,6 +81591,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1762) curated (PR #222)" - !!omap - id: "r_3089" - name: "PI 4,5-P2 phospholipase C (1-18:1, 2-18:1), cytoplasm" @@ -80866,6 +81615,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1763) curated (PR #222)" - !!omap - id: "r_3090" - name: "PI 4,5-P2 phospholipase C (1-16:0, 2-16:1), nucleus" @@ -80889,6 +81639,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1764) curated (PR #222)" - !!omap - id: "r_3091" - name: "PI 4,5-P2 phospholipase C (1-16:1, 2-16:1), nucleus" @@ -80912,6 +81663,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1765) curated (PR #222)" - !!omap - id: "r_3092" - name: "PI 4,5-P2 phospholipase C (1-18:0, 2-16:1), nucleus" @@ -80935,6 +81687,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1766) curated (PR #222)" - !!omap - id: "r_3093" - name: "PI 4,5-P2 phospholipase C (1-18:1, 2-16:1), nucleus" @@ -80958,6 +81711,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1767) curated (PR #222)" - !!omap - id: "r_3094" - name: "PI 4,5-P2 phospholipase C (1-16:0, 2-18:1), nucleus" @@ -80981,6 +81735,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1768) curated (PR #222)" - !!omap - id: "r_3095" - name: "PI 4,5-P2 phospholipase C (1-16:1, 2-18:1), nucleus" @@ -81004,6 +81759,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1769) curated (PR #222)" - !!omap - id: "r_3096" - name: "PI 4,5-P2 phospholipase C (1-18:0, 2-18:1), nucleus" @@ -81027,6 +81783,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1770) curated (PR #222)" - !!omap - id: "r_3097" - name: "PI 4,5-P2 phospholipase C (1-18:1, 2-18:1), nucleus" @@ -81050,6 +81807,7 @@ - pubmed: "17382260" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(607,1771) curated (PR #222)" - !!omap - id: "r_3098" - name: "PG phospholipase C (1-16:0, 2-16:1), mitochondrial membrane" @@ -81070,6 +81828,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1772) curated (PR #222)" - !!omap - id: "r_3099" - name: "PG phospholipase C (1-16:1, 2-16:1), mitochondrial membrane" @@ -81090,6 +81849,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1773) curated (PR #222)" - !!omap - id: "r_3100" - name: "PG phospholipase C (1-18:0, 2-16:1), mitochondrial membrane" @@ -81110,6 +81870,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1774) curated (PR #222)" - !!omap - id: "r_3101" - name: "PG phospholipase C (1-18:1, 2-16:1), mitochondrial membrane" @@ -81130,6 +81891,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1775) curated (PR #222)" - !!omap - id: "r_3102" - name: "PG phospholipase C (1-16:0, 2-18:1), mitochondrial membrane" @@ -81150,6 +81912,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1776) curated (PR #222)" - !!omap - id: "r_3103" - name: "PG phospholipase C (1-16:1, 2-18:1), mitochondrial membrane" @@ -81170,6 +81933,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1588,1777) curated (PR #222)" - !!omap - id: "r_3104" - name: "PC phospholipase D (1-16:0, 2-16:1), cell envelope" @@ -81193,6 +81957,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1778) curated (PR #222)" - !!omap - id: "r_3105" - name: "PC phospholipase D (1-16:1, 2-16:1), cell envelope" @@ -81216,6 +81981,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1779) curated (PR #222)" - !!omap - id: "r_3106" - name: "PC phospholipase D (1-18:0, 2-16:1), cell envelope" @@ -81239,6 +82005,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1780) curated (PR #222)" - !!omap - id: "r_3107" - name: "PC phospholipase D (1-18:1, 2-16:1), cell envelope" @@ -81262,6 +82029,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1781) curated (PR #222)" - !!omap - id: "r_3108" - name: "PC phospholipase D (1-16:0, 2-18:1), cell envelope" @@ -81285,6 +82053,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1782) curated (PR #222)" - !!omap - id: "r_3109" - name: "PC phospholipase D (1-16:1, 2-18:1), cell envelope" @@ -81308,6 +82077,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1783) curated (PR #222)" - !!omap - id: "r_3110" - name: "PC phospholipase D (1-18:0, 2-18:1), cell envelope" @@ -81331,6 +82101,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1784) curated (PR #222)" - !!omap - id: "r_3111" - name: "PC phospholipase D (1-18:1, 2-18:1), cell envelope" @@ -81354,6 +82125,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1785) curated (PR #222)" - !!omap - id: "r_3112" - name: "PI 3-P phosphatase (1-16:0, 2-16:1), cell envelope" @@ -81378,6 +82150,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1786) curated (PR #222)" - !!omap - id: "r_3113" - name: "PI 3-P phosphatase (1-16:1, 2-16:1), cell envelope" @@ -81402,6 +82175,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1787) curated (PR #222)" - !!omap - id: "r_3114" - name: "PI 3-P phosphatase (1-18:0, 2-16:1), cell envelope" @@ -81426,6 +82200,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1788) curated (PR #222)" - !!omap - id: "r_3115" - name: "PI 3-P phosphatase (1-18:1, 2-16:1), cell envelope" @@ -81450,6 +82225,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1789) curated (PR #222)" - !!omap - id: "r_3116" - name: "PI 3-P phosphatase (1-16:0, 2-18:1), cell envelope" @@ -81474,6 +82250,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1790) curated (PR #222)" - !!omap - id: "r_3117" - name: "PI 3-P phosphatase (1-16:1, 2-18:1), cell envelope" @@ -81498,6 +82275,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1791) curated (PR #222)" - !!omap - id: "r_3118" - name: "PI 3-P phosphatase (1-18:0, 2-18:1), cell envelope" @@ -81522,6 +82300,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1792) curated (PR #222)" - !!omap - id: "r_3119" - name: "PI 3-P phosphatase (1-18:1, 2-18:1), cell envelope" @@ -81546,6 +82325,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1793) curated (PR #222)" - !!omap - id: "r_3120" - name: "PI 3-P phosphatase (1-16:0, 2-16:1), cytoplasm" @@ -81572,6 +82352,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1794) curated (PR #222)" - !!omap - id: "r_3121" - name: "PI 3-P phosphatase (1-16:1, 2-16:1), cytoplasm" @@ -81599,6 +82380,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1795) curated (PR #222)" - !!omap - id: "r_3122" - name: "PI 3-P phosphatase (1-18:0, 2-16:1), cytoplasm" @@ -81625,6 +82407,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1796) curated (PR #222)" - !!omap - id: "r_3123" - name: "PI 3-P phosphatase (1-18:1, 2-16:1), cytoplasm" @@ -81651,6 +82434,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1797) curated (PR #222)" - !!omap - id: "r_3124" - name: "PI 3-P phosphatase (1-16:0, 2-18:1), cytoplasm" @@ -81677,6 +82461,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1798) curated (PR #222)" - !!omap - id: "r_3125" - name: "PI 3-P phosphatase (1-16:1, 2-18:1), cytoplasm" @@ -81703,6 +82488,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1799) curated (PR #222)" - !!omap - id: "r_3126" - name: "PI 3-P phosphatase (1-18:0, 2-18:1), cytoplasm" @@ -81729,6 +82515,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1800) curated (PR #222)" - !!omap - id: "r_3127" - name: "PI 3-P phosphatase (1-18:1, 2-18:1), cytoplasm" @@ -81755,6 +82542,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1801) curated (PR #222)" - !!omap - id: "r_3128" - name: "PI 3-P phosphatase (1-16:0, 2-16:1), ER membrane" @@ -81777,6 +82565,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1802) curated (PR #222)" - !!omap - id: "r_3129" - name: "PI 3-P phosphatase (1-16:1, 2-16:1), ER membrane" @@ -81799,6 +82588,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1803) curated (PR #222)" - !!omap - id: "r_3130" - name: "PI 3-P phosphatase (1-18:0, 2-16:1), ER membrane" @@ -81821,6 +82611,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1804) curated (PR #222)" - !!omap - id: "r_3131" - name: "PI 3-P phosphatase (1-18:1, 2-16:1), ER membrane" @@ -81843,6 +82634,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1805) curated (PR #222)" - !!omap - id: "r_3132" - name: "PI 3-P phosphatase (1-16:0, 2-18:1), ER membrane" @@ -81865,6 +82657,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1806) curated (PR #222)" - !!omap - id: "r_3133" - name: "PI 3-P phosphatase (1-16:1, 2-18:1), ER membrane" @@ -81887,6 +82680,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1807) curated (PR #222)" - !!omap - id: "r_3134" - name: "PI 3-P phosphatase (1-18:0, 2-18:1), ER membrane" @@ -81909,6 +82703,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1808) curated (PR #222)" - !!omap - id: "r_3135" - name: "PI 3-P phosphatase (1-18:1, 2-18:1), ER membrane" @@ -81931,6 +82726,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1809) curated (PR #222)" - !!omap - id: "r_3136" - name: "PI 3-P phosphatase (1-16:0, 2-16:1), Golgi membrane" @@ -81953,6 +82749,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1810) curated (PR #222)" - !!omap - id: "r_3137" - name: "PI 3-P phosphatase (1-16:1, 2-16:1), Golgi membrane" @@ -81975,6 +82772,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1811) curated (PR #222)" - !!omap - id: "r_3138" - name: "PI 3-P phosphatase (1-18:0, 2-16:1), Golgi membrane" @@ -81997,6 +82795,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1812) curated (PR #222)" - !!omap - id: "r_3139" - name: "PI 3-P phosphatase (1-18:1, 2-16:1), Golgi membrane" @@ -82019,6 +82818,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1813) curated (PR #222)" - !!omap - id: "r_3140" - name: "PI 3-P phosphatase (1-16:0, 2-18:1), Golgi membrane" @@ -82041,6 +82841,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1814) curated (PR #222)" - !!omap - id: "r_3141" - name: "PI 3-P phosphatase (1-16:1, 2-18:1), Golgi membrane" @@ -82063,6 +82864,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1815) curated (PR #222)" - !!omap - id: "r_3142" - name: "PI 3-P phosphatase (1-18:0, 2-18:1), Golgi membrane" @@ -82085,6 +82887,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1816) curated (PR #222)" - !!omap - id: "r_3143" - name: "PI 3-P phosphatase (1-18:1, 2-18:1), Golgi membrane" @@ -82107,6 +82910,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1817) curated (PR #222)" - !!omap - id: "r_3144" - name: "PI 4-P phosphatase (1-16:0, 2-16:1), cell envelope" @@ -82131,6 +82935,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1818) curated (PR #222)" - !!omap - id: "r_3145" - name: "PI 4-P phosphatase (1-16:1, 2-16:1), cell envelope" @@ -82155,6 +82960,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1819) curated (PR #222)" - !!omap - id: "r_3146" - name: "PI 4-P phosphatase (1-18:0, 2-16:1), cell envelope" @@ -82179,6 +82985,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1820) curated (PR #222)" - !!omap - id: "r_3147" - name: "PI 4-P phosphatase (1-18:1, 2-16:1), cell envelope" @@ -82203,6 +83010,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1821) curated (PR #222)" - !!omap - id: "r_3148" - name: "PI 4-P phosphatase (1-16:0, 2-18:1), cell envelope" @@ -82227,6 +83035,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1822) curated (PR #222)" - !!omap - id: "r_3149" - name: "PI 4-P phosphatase (1-16:1, 2-18:1), cell envelope" @@ -82251,6 +83060,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1823) curated (PR #222)" - !!omap - id: "r_3150" - name: "PI 4-P phosphatase (1-18:0, 2-18:1), cell envelope" @@ -82275,6 +83085,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1824) curated (PR #222)" - !!omap - id: "r_3151" - name: "PI 4-P phosphatase (1-18:1, 2-18:1), cell envelope" @@ -82299,6 +83110,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1825) curated (PR #222)" - !!omap - id: "r_3152" - name: "PI 4-P phosphatase (1-16:0, 2-16:1), cytoplasm" @@ -82323,6 +83135,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1826) curated (PR #222)" - !!omap - id: "r_3153" - name: "PI 4-P phosphatase (1-16:1, 2-16:1), cytoplasm" @@ -82347,6 +83160,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1827) curated (PR #222)" - !!omap - id: "r_3154" - name: "PI 4-P phosphatase (1-18:0, 2-16:1), cytoplasm" @@ -82371,6 +83185,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1828) curated (PR #222)" - !!omap - id: "r_3155" - name: "PI 4-P phosphatase (1-18:1, 2-16:1), cytoplasm" @@ -82395,6 +83210,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1829) curated (PR #222)" - !!omap - id: "r_3156" - name: "PI 4-P phosphatase (1-16:0, 2-18:1), cytoplasm" @@ -82419,6 +83235,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1830) curated (PR #222)" - !!omap - id: "r_3157" - name: "PI 4-P phosphatase (1-16:1, 2-18:1), cytoplasm" @@ -82443,6 +83260,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1831) curated (PR #222)" - !!omap - id: "r_3158" - name: "PI 4-P phosphatase (1-18:0, 2-18:1), cytoplasm" @@ -82467,6 +83285,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1832) curated (PR #222)" - !!omap - id: "r_3159" - name: "PI 4-P phosphatase (1-18:1, 2-18:1), cytoplasm" @@ -82491,6 +83310,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1833) curated (PR #222)" - !!omap - id: "r_3160" - name: "PI 4-P phosphatase (1-16:0, 2-16:1), ER membrane" @@ -82513,6 +83333,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1834) curated (PR #222)" - !!omap - id: "r_3161" - name: "PI 4-P phosphatase (1-16:1, 2-16:1), ER membrane" @@ -82535,6 +83356,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1835) curated (PR #222)" - !!omap - id: "r_3162" - name: "PI 4-P phosphatase (1-18:0, 2-16:1), ER membrane" @@ -82557,6 +83379,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1836) curated (PR #222)" - !!omap - id: "r_3163" - name: "PI 4-P phosphatase (1-18:1, 2-16:1), ER membrane" @@ -82579,6 +83402,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1837) curated (PR #222)" - !!omap - id: "r_3164" - name: "PI 4-P phosphatase (1-16:0, 2-18:1), ER membrane" @@ -82601,6 +83425,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1838) curated (PR #222)" - !!omap - id: "r_3165" - name: "PI 4-P phosphatase (1-16:1, 2-18:1), ER membrane" @@ -82623,6 +83448,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1839) curated (PR #222)" - !!omap - id: "r_3166" - name: "PI 4-P phosphatase (1-18:0, 2-18:1), ER membrane" @@ -82645,6 +83471,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1840) curated (PR #222)" - !!omap - id: "r_3167" - name: "PI 4-P phosphatase (1-18:1, 2-18:1), ER membrane" @@ -82667,6 +83494,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1841) curated (PR #222)" - !!omap - id: "r_3168" - name: "PI 4-P phosphatase (1-16:0, 2-16:1), Golgi membrane" @@ -82689,6 +83517,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1842) curated (PR #222)" - !!omap - id: "r_3169" - name: "PI 4-P phosphatase (1-16:1, 2-16:1), Golgi membrane" @@ -82711,6 +83540,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1843) curated (PR #222)" - !!omap - id: "r_3170" - name: "PI 4-P phosphatase (1-18:0, 2-16:1), Golgi membrane" @@ -82733,6 +83563,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1844) curated (PR #222)" - !!omap - id: "r_3171" - name: "PI 4-P phosphatase (1-18:1, 2-16:1), Golgi membrane" @@ -82755,6 +83586,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1845) curated (PR #222)" - !!omap - id: "r_3172" - name: "PI 4-P phosphatase (1-16:0, 2-18:1), Golgi membrane" @@ -82777,6 +83609,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1846) curated (PR #222)" - !!omap - id: "r_3173" - name: "PI 4-P phosphatase (1-16:1, 2-18:1), Golgi membrane" @@ -82799,6 +83632,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1847) curated (PR #222)" - !!omap - id: "r_3174" - name: "PI 4-P phosphatase (1-18:0, 2-18:1), Golgi membrane" @@ -82821,6 +83655,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1848) curated (PR #222)" - !!omap - id: "r_3175" - name: "PI 4-P phosphatase (1-18:1, 2-18:1), Golgi membrane" @@ -82843,6 +83678,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1849) curated (PR #222)" - !!omap - id: "r_3176" - name: "PI 3,5-P2 phosphatase (1-16:0, 2-16:1), cell envelope" @@ -82867,6 +83703,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1850) curated (PR #222)" - !!omap - id: "r_3177" - name: "PI 3,5-P2 phosphatase (1-16:1, 2-16:1), cell envelope" @@ -82891,6 +83728,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1851) curated (PR #222)" - !!omap - id: "r_3178" - name: "PI 3,5-P2 phosphatase (1-18:0, 2-16:1), cell envelope" @@ -82915,6 +83753,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1852) curated (PR #222)" - !!omap - id: "r_3179" - name: "PI 3,5-P2 phosphatase (1-18:1, 2-16:1), cell envelope" @@ -82939,6 +83778,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1853) curated (PR #222)" - !!omap - id: "r_3180" - name: "PI 3,5-P2 phosphatase (1-16:0, 2-18:1), cell envelope" @@ -82963,6 +83803,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1854) curated (PR #222)" - !!omap - id: "r_3181" - name: "PI 3,5-P2 phosphatase (1-16:1, 2-18:1), cell envelope" @@ -82987,6 +83828,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1855) curated (PR #222)" - !!omap - id: "r_3182" - name: "PI 3,5-P2 phosphatase (1-18:0, 2-18:1), cell envelope" @@ -83011,6 +83853,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1856) curated (PR #222)" - !!omap - id: "r_3183" - name: "PI 3,5-P2 phosphatase (1-18:1, 2-18:1), cell envelope" @@ -83035,6 +83878,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1857) curated (PR #222)" - !!omap - id: "r_3184" - name: "PI 3,5-P2 phosphatase (1-16:0, 2-16:1), cytoplasm" @@ -83059,6 +83903,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1858) curated (PR #222)" - !!omap - id: "r_3185" - name: "PI 3,5-P2 phosphatase (1-16:1, 2-16:1), cytoplasm" @@ -83083,6 +83928,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1859) curated (PR #222)" - !!omap - id: "r_3186" - name: "PI 3,5-P2 phosphatase (1-18:0, 2-16:1), cytoplasm" @@ -83107,6 +83953,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1860) curated (PR #222)" - !!omap - id: "r_3187" - name: "PI 3,5-P2 phosphatase (1-18:1, 2-16:1), cytoplasm" @@ -83131,6 +83978,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1861) curated (PR #222)" - !!omap - id: "r_3188" - name: "PI 3,5-P2 phosphatase (1-16:0, 2-18:1), cytoplasm" @@ -83155,6 +84003,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1862) curated (PR #222)" - !!omap - id: "r_3189" - name: "PI 3,5-P2 phosphatase (1-16:1, 2-18:1), cytoplasm" @@ -83179,6 +84028,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1863) curated (PR #222)" - !!omap - id: "r_3190" - name: "PI 3,5-P2 phosphatase (1-18:0, 2-18:1), cytoplasm" @@ -83203,6 +84053,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1864) curated (PR #222)" - !!omap - id: "r_3191" - name: "PI 3,5-P2 phosphatase (1-18:1, 2-18:1), cytoplasm" @@ -83227,6 +84078,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1865) curated (PR #222)" - !!omap - id: "r_3192" - name: "PI 4,5-P2 phosphatase (1-16:0, 2-16:1), cell envelope" @@ -83251,6 +84103,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1866) curated (PR #222)" - !!omap - id: "r_3193" - name: "PI 4,5-P2 phosphatase (1-16:1, 2-16:1), cell envelope" @@ -83275,6 +84128,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1867) curated (PR #222)" - !!omap - id: "r_3194" - name: "PI 4,5-P2 phosphatase (1-18:0, 2-16:1), cell envelope" @@ -83299,6 +84153,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1868) curated (PR #222)" - !!omap - id: "r_3195" - name: "PI 4,5-P2 phosphatase (1-18:1, 2-16:1), cell envelope" @@ -83323,6 +84178,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1869) curated (PR #222)" - !!omap - id: "r_3196" - name: "PI 4,5-P2 phosphatase (1-16:0, 2-18:1), cell envelope" @@ -83347,6 +84203,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1870) curated (PR #222)" - !!omap - id: "r_3197" - name: "PI 4,5-P2 phosphatase (1-16:1, 2-18:1), cell envelope" @@ -83371,6 +84228,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1871) curated (PR #222)" - !!omap - id: "r_3198" - name: "PI 4,5-P2 phosphatase (1-18:0, 2-18:1), cell envelope" @@ -83395,6 +84253,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1872) curated (PR #222)" - !!omap - id: "r_3199" - name: "PI 4,5-P2 phosphatase (1-18:1, 2-18:1), cell envelope" @@ -83419,6 +84278,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(600,1873) curated (PR #222)" - !!omap - id: "r_3200" - name: "PI 4,5-P2 phosphatase (1-16:0, 2-16:1), cytoplasm" @@ -83443,6 +84303,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1874) curated (PR #222)" - !!omap - id: "r_3201" - name: "PI 4,5-P2 phosphatase (1-16:1, 2-16:1), cytoplasm" @@ -83467,6 +84328,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1875) curated (PR #222)" - !!omap - id: "r_3202" - name: "PI 4,5-P2 phosphatase (1-18:0, 2-16:1), cytoplasm" @@ -83491,6 +84353,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1876) curated (PR #222)" - !!omap - id: "r_3203" - name: "PI 4,5-P2 phosphatase (1-18:1, 2-16:1), cytoplasm" @@ -83515,6 +84378,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1877) curated (PR #222)" - !!omap - id: "r_3204" - name: "PI 4,5-P2 phosphatase (1-16:0, 2-18:1), cytoplasm" @@ -83539,6 +84403,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1878) curated (PR #222)" - !!omap - id: "r_3205" - name: "PI 4,5-P2 phosphatase (1-16:1, 2-18:1), cytoplasm" @@ -83563,6 +84428,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1879) curated (PR #222)" - !!omap - id: "r_3206" - name: "PI 4,5-P2 phosphatase (1-18:0, 2-18:1), cytoplasm" @@ -83587,6 +84453,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1880) curated (PR #222)" - !!omap - id: "r_3207" - name: "PI 4,5-P2 phosphatase (1-18:1, 2-18:1), cytoplasm" @@ -83611,6 +84478,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1881) curated (PR #222)" - !!omap - id: "r_3208" - name: "PI 4,5-P2 phosphatase (1-16:0, 2-16:1), ER membrane" @@ -83633,6 +84501,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1882) curated (PR #222)" - !!omap - id: "r_3209" - name: "PI 4,5-P2 phosphatase (1-16:1, 2-16:1), ER membrane" @@ -83655,6 +84524,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1883) curated (PR #222)" - !!omap - id: "r_3210" - name: "PI 4,5-P2 phosphatase (1-18:0, 2-16:1), ER membrane" @@ -83677,6 +84547,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1884) curated (PR #222)" - !!omap - id: "r_3211" - name: "PI 4,5-P2 phosphatase (1-18:1, 2-16:1), ER membrane" @@ -83699,6 +84570,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1885) curated (PR #222)" - !!omap - id: "r_3212" - name: "PI 4,5-P2 phosphatase (1-16:0, 2-18:1), ER membrane" @@ -83721,6 +84593,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1886) curated (PR #222)" - !!omap - id: "r_3213" - name: "PI 4,5-P2 phosphatase (1-16:1, 2-18:1), ER membrane" @@ -83743,6 +84616,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1887) curated (PR #222)" - !!omap - id: "r_3214" - name: "PI 4,5-P2 phosphatase (1-18:0, 2-18:1), ER membrane" @@ -83765,6 +84639,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1888) curated (PR #222)" - !!omap - id: "r_3215" - name: "PI 4,5-P2 phosphatase (1-18:1, 2-18:1), ER membrane" @@ -83787,6 +84662,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1281,1889) curated (PR #222)" - !!omap - id: "r_3216" - name: "PI 3,5-P2 phosphatase (1-16:0, 2-16:1), vacuolar membrane" @@ -83806,6 +84682,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1890) curated (PR #222)" - !!omap - id: "r_3217" - name: "PI 3,5-P2 phosphatase (1-16:1, 2-16:1), vacuolar membrane" @@ -83825,6 +84702,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1891) curated (PR #222)" - !!omap - id: "r_3218" - name: "PI 3,5-P2 phosphatase (1-18:0, 2-16:1), vacuolar membrane" @@ -83844,6 +84722,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1892) curated (PR #222)" - !!omap - id: "r_3219" - name: "PI 3,5-P2 phosphatase (1-18:1, 2-16:1), vacuolar membrane" @@ -83863,6 +84742,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1893) curated (PR #222)" - !!omap - id: "r_3220" - name: "PI 3,5-P2 phosphatase (1-16:0, 2-18:1), vacuolar membrane" @@ -83882,6 +84762,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1894) curated (PR #222)" - !!omap - id: "r_3221" - name: "PI 3,5-P2 phosphatase (1-16:1, 2-18:1), vacuolar membrane" @@ -83901,6 +84782,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1895) curated (PR #222)" - !!omap - id: "r_3222" - name: "PI 3,5-P2 phosphatase (1-18:0, 2-18:1), vacuolar membrane" @@ -83920,6 +84802,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1896) curated (PR #222)" - !!omap - id: "r_3223" - name: "PI 3,5-P2 phosphatase (1-18:1, 2-18:1), vacuolar membrane" @@ -83939,6 +84822,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1897) curated (PR #222)" - !!omap - id: "r_3224" - name: "DGPP phosphatase (1-16:0, 2-16:1), vacuolar membrane" @@ -83964,6 +84848,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1898) curated (PR #222)" - !!omap - id: "r_3225" - name: "DGPP phosphatase (1-16:1, 2-16:1), vacuolar membrane" @@ -83989,6 +84874,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1899) curated (PR #222)" - !!omap - id: "r_3226" - name: "DGPP phosphatase (1-18:0, 2-16:1), vacuolar membrane" @@ -84014,6 +84900,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1900) curated (PR #222)" - !!omap - id: "r_3227" - name: "DGPP phosphatase (1-18:1, 2-16:1), vacuolar membrane" @@ -84039,6 +84926,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1901) curated (PR #222)" - !!omap - id: "r_3228" - name: "DGPP phosphatase (1-16:0, 2-18:1), vacuolar membrane" @@ -84064,6 +84952,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1902) curated (PR #222)" - !!omap - id: "r_3229" - name: "DGPP phosphatase (1-16:1, 2-18:1), vacuolar membrane" @@ -84089,6 +84978,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1903) curated (PR #222)" - !!omap - id: "r_3230" - name: "DGPP phosphatase (1-18:0, 2-18:1), vacuolar membrane" @@ -84114,6 +85004,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1904) curated (PR #222)" - !!omap - id: "r_3231" - name: "DGPP phosphatase (1-18:1, 2-18:1), vacuolar membrane" @@ -84139,6 +85030,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1905) curated (PR #222)" - !!omap - id: "r_3232" - name: "DGPP phosphatase (1-16:0, 2-16:1), Golgi membrane" @@ -84160,6 +85052,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1906) curated (PR #222)" - !!omap - id: "r_3233" - name: "DGPP phosphatase (1-16:1, 2-16:1), Golgi membrane" @@ -84181,6 +85074,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1907) curated (PR #222)" - !!omap - id: "r_3234" - name: "DGPP phosphatase (1-18:0, 2-16:1), Golgi membrane" @@ -84202,6 +85096,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1908) curated (PR #222)" - !!omap - id: "r_3235" - name: "DGPP phosphatase (1-18:1, 2-16:1), Golgi membrane" @@ -84223,6 +85118,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1909) curated (PR #222)" - !!omap - id: "r_3236" - name: "DGPP phosphatase (1-16:0, 2-18:1), Golgi membrane" @@ -84244,6 +85140,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1910) curated (PR #222)" - !!omap - id: "r_3237" - name: "DGPP phosphatase (1-16:1, 2-18:1), Golgi membrane" @@ -84265,6 +85162,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1911) curated (PR #222)" - !!omap - id: "r_3238" - name: "DGPP phosphatase (1-18:0, 2-18:1), Golgi membrane" @@ -84286,6 +85184,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1912) curated (PR #222)" - !!omap - id: "r_3239" - name: "DGPP phosphatase (1-18:1, 2-18:1), Golgi membrane" @@ -84307,6 +85206,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1913) curated (PR #222)" - !!omap - id: "r_3240" - name: "lysoPA phosphatase (16:0), cytoplasm" @@ -84325,6 +85225,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1914) curated (PR #222)" - !!omap - id: "r_3241" - name: "lysoPA phosphatase (16:1), cytoplasm" @@ -84343,6 +85244,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1915) curated (PR #222)" - !!omap - id: "r_3242" - name: "lysoPA phosphatase (18:0), cytoplasm" @@ -84361,6 +85263,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1916) curated (PR #222)" - !!omap - id: "r_3243" - name: "lysoPA phosphatase (18:1), cytoplasm" @@ -84379,6 +85282,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(601,1917) curated (PR #222)" - !!omap - id: "r_3244" - name: "lysoPA phosphatase (16:0), vacuolar membrane" @@ -84404,6 +85308,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1918) curated (PR #222)" - !!omap - id: "r_3245" - name: "lysoPA phosphatase (16:1), vacuolar membrane" @@ -84429,6 +85334,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1919) curated (PR #222)" - !!omap - id: "r_3246" - name: "lysoPA phosphatase (18:0), vacuolar membrane" @@ -84454,6 +85360,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1920) curated (PR #222)" - !!omap - id: "r_3247" - name: "lysoPA phosphatase (18:1), vacuolar membrane" @@ -84479,6 +85386,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1658,1921) curated (PR #222)" - !!omap - id: "r_3248" - name: "lysoPA phosphatase (16:0), Golgi membrane" @@ -84500,6 +85408,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1922) curated (PR #222)" - !!omap - id: "r_3249" - name: "lysoPA phosphatase (16:1), Golgi membrane" @@ -84521,6 +85430,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1923) curated (PR #222)" - !!omap - id: "r_3250" - name: "lysoPA phosphatase (18:0), Golgi membrane" @@ -84542,6 +85452,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1924) curated (PR #222)" - !!omap - id: "r_3251" - name: "lysoPA phosphatase (18:1), Golgi membrane" @@ -84563,6 +85474,7 @@ - pubmed: "22345606" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(1640,1925) curated (PR #222)" - !!omap - id: "r_3252" - name: "ergosteryl ester hydrolase (16:1), lipid particle" @@ -86427,6 +87339,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1640,2934) curated (PR #222)" - !!omap - id: "r_3333" - name: "PA kinase (1-16:1, 2-16:1), Golgi membrane" @@ -86443,6 +87356,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1640,2935) curated (PR #222)" - !!omap - id: "r_3334" - name: "PA kinase (1-18:0, 2-16:1), Golgi membrane" @@ -86459,6 +87373,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1640,2936) curated (PR #222)" - !!omap - id: "r_3335" - name: "PA kinase (1-18:1, 2-16:1), Golgi membrane" @@ -86475,6 +87390,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1640,2937) curated (PR #222)" - !!omap - id: "r_3336" - name: "PA kinase (1-16:0, 2-18:1), Golgi membrane" @@ -86491,6 +87407,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1640,2938) curated (PR #222)" - !!omap - id: "r_3337" - name: "PA kinase (1-16:1, 2-18:1), Golgi membrane" @@ -86507,6 +87424,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1640,2939) curated (PR #222)" - !!omap - id: "r_3338" - name: "PA kinase (1-18:0, 2-18:1), Golgi membrane" @@ -86523,6 +87441,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1640,2940) curated (PR #222)" - !!omap - id: "r_3339" - name: "PA kinase (1-18:1, 2-18:1), Golgi membrane" @@ -86539,6 +87458,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1640,2941) curated (PR #222)" - !!omap - id: "r_3340" - name: "PA kinase (1-16:0, 2-16:1), vacuolar membrane" @@ -86555,6 +87475,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1658,2942) curated (PR #222)" - !!omap - id: "r_3341" - name: "PA kinase (1-16:1, 2-16:1), vacuolar membrane" @@ -86571,6 +87492,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1658,2943) curated (PR #222)" - !!omap - id: "r_3342" - name: "PA kinase (1-18:0, 2-16:1), vacuolar membrane" @@ -86587,6 +87509,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1658,2944) curated (PR #222)" - !!omap - id: "r_3343" - name: "PA kinase (1-18:1, 2-16:1), vacuolar membrane" @@ -86603,6 +87526,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1658,2945) curated (PR #222)" - !!omap - id: "r_3344" - name: "PA kinase (1-16:0, 2-18:1), vacuolar membrane" @@ -86619,6 +87543,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1658,2946) curated (PR #222)" - !!omap - id: "r_3345" - name: "PA kinase (1-16:1, 2-18:1), vacuolar membrane" @@ -86635,6 +87560,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1658,2947) curated (PR #222)" - !!omap - id: "r_3346" - name: "PA kinase (1-18:0, 2-18:1), vacuolar membrane" @@ -86651,6 +87577,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1658,2948) curated (PR #222)" - !!omap - id: "r_3347" - name: "PA kinase (1-18:1, 2-18:1), vacuolar membrane" @@ -86667,6 +87594,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "model.S(1658,2949) curated (PR #222)" - !!omap - id: "r_3348" - name: "inositolphosphotransferase (PI (1-16:0, 2-16:1) MIPC-A (C24))" @@ -95946,6 +96874,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3964" - name: "1-phosphatidyl-1D-myo-inositol (1-16:1, 2-16:1) [cytoplasm] SLIME rxn" @@ -95960,6 +96889,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3965" - name: "1-phosphatidyl-1D-myo-inositol (1-18:0, 2-16:1) [cytoplasm] SLIME rxn" @@ -95975,6 +96905,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3966" - name: "1-phosphatidyl-1D-myo-inositol (1-18:1, 2-16:1) [cytoplasm] SLIME rxn" @@ -95990,6 +96921,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3967" - name: "1-phosphatidyl-1D-myo-inositol (1-16:0, 2-18:1) [cytoplasm] SLIME rxn" @@ -96005,6 +96937,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3968" - name: "1-phosphatidyl-1D-myo-inositol (1-16:1, 2-18:1) [cytoplasm] SLIME rxn" @@ -96020,6 +96953,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3969" - name: "1-phosphatidyl-1D-myo-inositol (1-18:0, 2-18:1) [cytoplasm] SLIME rxn" @@ -96035,6 +96969,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3970" - name: "1-phosphatidyl-1D-myo-inositol (1-18:1, 2-18:1) [cytoplasm] SLIME rxn" @@ -96049,6 +96984,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3971" - name: "ergosteryl palmitoleate [endoplasmic reticulum membrane] SLIME rxn" @@ -96063,6 +96999,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3972" - name: "ergosteryl oleate [endoplasmic reticulum membrane] SLIME rxn" @@ -96077,6 +97014,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3973" - name: "ergosterol ester transport, ER membrane-cytoplasm" @@ -96090,6 +97028,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3975" - name: "palmitate [cytoplasm] SLIME rxn" @@ -96104,6 +97043,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3976" - name: "palmitoleate [cytoplasm] SLIME rxn" @@ -96118,6 +97058,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3977" - name: "stearate [cytoplasm] SLIME rxn" @@ -96132,6 +97073,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3978" - name: "oleate [cytoplasm] SLIME rxn" @@ -96146,6 +97088,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3979" - name: "phosphatidyl-L-serine (1-16:0, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96161,6 +97104,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3980" - name: "phosphatidyl-L-serine (1-16:1, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96175,6 +97119,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3981" - name: "phosphatidyl-L-serine (1-18:0, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96190,6 +97135,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3982" - name: "phosphatidyl-L-serine (1-18:1, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96205,6 +97151,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3983" - name: "phosphatidyl-L-serine (1-16:0, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96220,6 +97167,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3984" - name: "phosphatidyl-L-serine (1-16:1, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96235,6 +97183,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3985" - name: "phosphatidyl-L-serine (1-18:0, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96250,6 +97199,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3986" - name: "phosphatidyl-L-serine (1-18:1, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96264,6 +97214,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3987" - name: "phosphatidyl-L-serine transport, ER membrane-cytoplasm" @@ -96278,6 +97229,7 @@ - metanetx.reaction: "MNXR103315" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3988" - name: "phosphatidylcholine (1-16:0, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96293,6 +97245,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3989" - name: "phosphatidylcholine (1-16:1, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96307,6 +97260,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3990" - name: "phosphatidylcholine (1-18:0, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96322,6 +97276,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3991" - name: "phosphatidylcholine (1-18:1, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96337,6 +97292,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3992" - name: "phosphatidylcholine (1-16:0, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96352,6 +97308,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3993" - name: "phosphatidylcholine (1-16:1, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96367,6 +97324,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3994" - name: "phosphatidylcholine (1-18:0, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96382,6 +97340,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3995" - name: "phosphatidylcholine (1-18:1, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96396,6 +97355,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3996" - name: "phosphatidylcholine transport, ER membrane-cytoplasm" @@ -96410,6 +97370,7 @@ - metanetx.reaction: "MNXR102406" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3997" - name: "phosphatidylethanolamine (1-16:0, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96425,6 +97386,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3998" - name: "phosphatidylethanolamine (1-16:1, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96439,6 +97401,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_3999" - name: "phosphatidylethanolamine (1-18:0, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96454,6 +97417,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4000" - name: "phosphatidylethanolamine (1-18:1, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96469,6 +97433,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4001" - name: "phosphatidylethanolamine (1-16:0, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96484,6 +97449,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4002" - name: "phosphatidylethanolamine (1-16:1, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96499,6 +97465,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4003" - name: "phosphatidylethanolamine (1-18:0, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96514,6 +97481,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4004" - name: "phosphatidylethanolamine (1-18:1, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96528,6 +97496,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4005" - name: "phosphatidylethanolamine transport, ER membrane-cytoplasm" @@ -96542,6 +97511,7 @@ - metanetx.reaction: "MNXR102505" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4006" - name: "triglyceride (1-16:0, 2-16:1, 3-16:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96557,6 +97527,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4007" - name: "triglyceride (1-16:0, 2-18:1, 3-16:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96572,6 +97543,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4008" - name: "triglyceride (1-16:1, 2-16:1, 3-16:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96587,6 +97559,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4009" - name: "triglyceride (1-16:1, 2-18:1, 3-16:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96603,6 +97576,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4010" - name: "triglyceride (1-18:0, 2-16:1, 3-16:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96619,6 +97593,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4011" - name: "triglyceride (1-18:0, 2-18:1, 3-16:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96635,6 +97610,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4012" - name: "triglyceride (1-18:1, 2-16:1, 3-16:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96651,6 +97627,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4013" - name: "triglyceride (1-18:1, 2-18:1, 3-16:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96666,6 +97643,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4014" - name: "triglyceride (1-16:0, 2-16:1, 3-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96681,6 +97659,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4015" - name: "triglyceride (1-16:0, 2-18:1, 3-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96697,6 +97676,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4016" - name: "triglyceride (1-16:1, 2-16:1, 3-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96711,6 +97691,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4017" - name: "triglyceride (1-16:1, 2-18:1, 3-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96726,6 +97707,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4018" - name: "triglyceride (1-18:0, 2-16:1, 3-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96741,6 +97723,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4019" - name: "triglyceride (1-18:0, 2-18:1, 3-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96757,6 +97740,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4020" - name: "triglyceride (1-18:1, 2-16:1, 3-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96772,6 +97756,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4021" - name: "triglyceride (1-18:1, 2-18:1, 3-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96787,6 +97772,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4022" - name: "triglyceride (1-16:0, 2-16:1, 3-18:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96803,6 +97789,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4023" - name: "triglyceride (1-16:0, 2-18:1, 3-18:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96819,6 +97806,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4024" - name: "triglyceride (1-16:1, 2-16:1, 3-18:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96834,6 +97822,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4025" - name: "triglyceride (1-16:1, 2-18:1, 3-18:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96850,6 +97839,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4026" - name: "triglyceride (1-18:0, 2-16:1, 3-18:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96865,6 +97855,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4027" - name: "triglyceride (1-18:0, 2-18:1, 3-18:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96880,6 +97871,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4028" - name: "triglyceride (1-18:1, 2-16:1, 3-18:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96896,6 +97888,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4029" - name: "triglyceride (1-18:1, 2-18:1, 3-18:0) [endoplasmic reticulum membrane] SLIME rxn" @@ -96911,6 +97904,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4030" - name: "triglyceride (1-16:0, 2-16:1, 3-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96927,6 +97921,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4031" - name: "triglyceride (1-16:0, 2-18:1, 3-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96942,6 +97937,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4032" - name: "triglyceride (1-16:1, 2-16:1, 3-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96957,6 +97953,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4033" - name: "triglyceride (1-16:1, 2-18:1, 3-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96972,6 +97969,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4034" - name: "triglyceride (1-18:0, 2-16:1, 3-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -96988,6 +97986,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4035" - name: "triglyceride (1-18:0, 2-18:1, 3-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97003,6 +98002,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4036" - name: "triglyceride (1-18:1, 2-16:1, 3-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97018,6 +98018,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4037" - name: "triglyceride (1-18:1, 2-18:1, 3-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97032,6 +98033,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4038" - name: "triglyceride transport, ER membrane-cytoplasm" @@ -97046,6 +98048,7 @@ - metanetx.reaction: "MNXR104713" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4039" - name: "succinyl-CoA:acetate CoA transferase" @@ -97122,6 +98125,7 @@ - pubmed: "4967422" - sbo: "SBO:0000176" - confidence_score: 3 + - rxnNotes: "model.S(612,2007) curated (PR #222)" - !!omap - id: "r_4043" - name: "raffinose exchange" @@ -97134,6 +98138,7 @@ - annotation: !!omap - bigg.reaction: "EX_raffin_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); raffinose exchange" - !!omap - id: "r_4044" - name: "melibiose exchange" @@ -97191,46 +98196,46 @@ - id: "r_4047" - name: "protein pseudoreaction" - metabolites: !!omap - - s_0404: -0.527012401965 - - s_0428: -0.184592178971 - - s_0430: -0.116820320233 - - s_0432: -0.341731040134 - - s_0542: -0.00758125964441 - - s_0747: -0.121070423838 - - s_0748: -0.346670343715 - - s_0757: -0.333575424354 - - s_0832: -0.0761571964321 - - s_0847: -0.221349807714 - - s_1077: -0.340467492581 - - s_1099: -0.328750973172 - - s_1148: -0.0582378601226 - - s_1314: -0.153807679448 - - s_1379: -0.189186891122 - - s_1428: -0.21296447002 - - s_1491: -0.219856538246 - - s_1527: -0.0326223903741 - - s_1533: -0.117164920221 - - s_1561: -0.303939602869 - - s_1582: 0.527012401965 - - s_1583: 0.184592178971 - - s_1585: 0.116820320233 - - s_1587: 0.341731040134 - - s_1589: 0.00758125964441 - - s_1590: 0.121070423838 - - s_1591: 0.346670343715 - - s_1593: 0.333575424354 - - s_1594: 0.0761571964321 - - s_1596: 0.221349807714 - - s_1598: 0.340467492581 - - s_1600: 0.328750973172 - - s_1602: 0.0582378601226 - - s_1604: 0.153807679448 - - s_1606: 0.189186891122 - - s_1607: 0.21296447002 - - s_1608: 0.219856538246 - - s_1610: 0.0326223903741 - - s_1612: 0.117164920221 - - s_1614: 0.303939602869 + - s_0404: -0.527012401964609 + - s_0428: -0.184592178971158 + - s_0430: -0.116820320233205 + - s_0432: -0.341731040134025 + - s_0542: -0.00758125964441183 + - s_0747: -0.121070423838014 + - s_0748: -0.346670343714861 + - s_0757: -0.33357542435412 + - s_0832: -0.0761571964321321 + - s_0847: -0.221349807713738 + - s_1077: -0.340467492580805 + - s_1099: -0.328750973172121 + - s_1148: -0.0582378601225956 + - s_1314: -0.15380767944836 + - s_1379: -0.189186891122282 + - s_1428: -0.212964470019559 + - s_1491: -0.219856538246244 + - s_1527: -0.0326223903740585 + - s_1533: -0.117164920221219 + - s_1561: -0.303939602869103 + - s_1582: 0.527012401964609 + - s_1583: 0.184592178971158 + - s_1585: 0.116820320233205 + - s_1587: 0.341731040134025 + - s_1589: 0.00758125964441183 + - s_1590: 0.121070423838014 + - s_1591: 0.346670343714861 + - s_1593: 0.33357542435412 + - s_1594: 0.0761571964321321 + - s_1596: 0.221349807713738 + - s_1598: 0.340467492580805 + - s_1600: 0.328750973172121 + - s_1602: 0.0582378601225956 + - s_1604: 0.15380767944836 + - s_1606: 0.189186891122282 + - s_1607: 0.212964470019559 + - s_1608: 0.219856538246244 + - s_1610: 0.0326223903740585 + - s_1612: 0.117164920221219 + - s_1614: 0.303939602869103 - s_3717: 1 - lower_bound: 0 - upper_bound: 1000 @@ -97243,11 +98248,11 @@ - id: "r_4048" - name: "carbohydrate pseudoreaction" - metabolites: !!omap - - s_0001: -0.748514964335 - - s_0004: -0.250091654489 - - s_0773: -0.361414527576 - - s_1107: -0.71093962537 - - s_1520: -0.138275712087 + - s_0001: -0.748514964334505 + - s_0004: -0.25009165448919 + - s_0773: -0.361414527575564 + - s_1107: -0.710939625370425 + - s_1520: -0.138275712087142 - s_3718: 1 - lower_bound: 0 - upper_bound: 1000 @@ -97260,10 +98265,10 @@ - id: "r_4049" - name: "RNA pseudoreaction" - metabolites: !!omap - - s_0423: -0.0445348319234 - - s_0526: -0.0432762391845 - - s_0782: -0.0445348319234 - - s_1545: -0.0579920969092 + - s_0423: -0.0445348319234424 + - s_0526: -0.043276239184487 + - s_0782: -0.0445348319234424 + - s_1545: -0.0579920969091588 - s_3719: 1 - lower_bound: 0 - upper_bound: 1000 @@ -97276,10 +98281,10 @@ - id: "r_4050" - name: "DNA pseudoreaction" - metabolites: !!omap - - s_0584: -0.00359999993816 - - s_0589: -0.00240000011399 - - s_0615: -0.00240000011399 - - s_0649: -0.00359999993816 + - s_0584: -0.00359999993816018 + - s_0589: -0.00240000011399388 + - s_0615: -0.00240000011399388 + - s_0649: -0.00359999993816018 - s_3720: 1 - lower_bound: 0 - upper_bound: 1000 @@ -97301,6 +98306,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4052" - name: "inositol phosphomannosylinositol phosphoceramide transport" @@ -97314,6 +98320,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4053" - name: "inositol-P-ceramide transport" @@ -97327,6 +98334,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4054" - name: "mannosylinositol phosphorylceramide transport" @@ -97340,6 +98348,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4055" - name: "long-chain base transport" @@ -97353,6 +98362,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4056" - name: "long-chain base phosphate transport" @@ -97366,6 +98376,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4057" - name: "phosphatidate transport" @@ -97379,6 +98390,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4058" - name: "diglyceride transport" @@ -97392,6 +98404,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4059" - name: "sn-2-acyl-1-lysophosphatidylinositol transport" @@ -97405,6 +98418,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4060" - name: "phosphatidylglycerol transport" @@ -97418,6 +98432,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4061" - name: "cardiolipin transport" @@ -97431,6 +98446,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4062" - name: "lipid backbone exchange" @@ -97442,18 +98458,19 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000632" + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4063" - name: "lipid backbone pseudoreaction" - metabolites: !!omap - - s_0089: -0.00691029997543 - - s_0666: -0.0265829002485 - - s_0672: -0.00680580006447 - - s_0694: -0.00148009998957 - - s_1337: -0.00595080018975 - - s_1346: -0.0257830007933 - - s_1351: -0.0069293001201 - - s_1524: -0.00685710001271 + - s_0089: -0.00691029997542501 + - s_0666: -0.026582900248468 + - s_0672: -0.0068058000644669 + - s_0694: -0.00148009998956695 + - s_1337: -0.00595080018974841 + - s_1346: -0.025783000793308 + - s_1351: -0.00692930012010039 + - s_1524: -0.00685710001271219 - s_3746: 1 - lower_bound: 0 - upper_bound: 1000 @@ -97462,6 +98479,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4064" - name: "lipid chain exchange" @@ -97473,14 +98491,15 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000632" + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4065" - name: "lipid chain pseudoreaction" - metabolites: !!omap - - s_3740: -0.00808584038168 - - s_3741: -0.0237302090973 - - s_3742: -0.00226631597616 - - s_3743: -0.0087066385895 + - s_3740: -0.00808584038168192 + - s_3741: -0.0237302090972662 + - s_3742: -0.00226631597615778 + - s_3743: -0.00870663858950138 - s_3747: 1 - lower_bound: 0 - upper_bound: 1000 @@ -97489,6 +98508,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4066" - name: "ceramide-1 (C24) [Golgi] SLIME rxn" @@ -97504,6 +98524,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4067" - name: "ceramide-1 (C26) [Golgi] SLIME rxn" @@ -97519,6 +98540,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4068" - name: "ceramide-2 (C24) [Golgi] SLIME rxn" @@ -97534,6 +98556,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4069" - name: "ceramide-2 (C26) [Golgi] SLIME rxn" @@ -97549,6 +98572,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4070" - name: "ceramide-2' (C24) [Golgi] SLIME rxn" @@ -97564,6 +98588,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4071" - name: "ceramide-2' (C26) [Golgi] SLIME rxn" @@ -97579,6 +98604,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4072" - name: "ceramide-3 (C24) [Golgi] SLIME rxn" @@ -97594,6 +98620,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4073" - name: "ceramide-3 (C26) [Golgi] SLIME rxn" @@ -97609,6 +98636,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4074" - name: "ceramide-4 (C24) [Golgi] SLIME rxn" @@ -97624,6 +98652,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4075" - name: "ceramide-4 (C26) [Golgi] SLIME rxn" @@ -97639,6 +98668,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4076" - name: "phytosphingosine [endoplasmic reticulum] SLIME rxn" @@ -97653,6 +98683,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4077" - name: "phytosphingosine 1-phosphate [endoplasmic reticulum] SLIME rxn" @@ -97667,6 +98698,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4078" - name: "sphinganine [endoplasmic reticulum] SLIME rxn" @@ -97681,6 +98713,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4079" - name: "sphinganine 1-phosphate [endoplasmic reticulum] SLIME rxn" @@ -97695,6 +98728,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4080" - name: "phosphatidate (1-16:0, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97710,6 +98744,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4081" - name: "phosphatidate (1-16:0, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97725,6 +98760,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4082" - name: "phosphatidate (1-16:1, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97739,6 +98775,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4083" - name: "phosphatidate (1-16:1, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97754,6 +98791,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4084" - name: "phosphatidate (1-18:0, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97769,6 +98807,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4085" - name: "phosphatidate (1-18:0, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97784,6 +98823,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4086" - name: "phosphatidate (1-18:1, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97799,6 +98839,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4087" - name: "phosphatidate (1-18:1, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97813,6 +98854,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4088" - name: "diglyceride (1-16:0, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97828,6 +98870,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4089" - name: "diglyceride (1-16:0, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97843,6 +98886,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4090" - name: "diglyceride (1-16:1, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97857,6 +98901,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4091" - name: "diglyceride (1-16:1, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97872,6 +98917,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4092" - name: "diglyceride (1-18:0, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97887,6 +98933,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4093" - name: "diglyceride (1-18:0, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97902,6 +98949,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4094" - name: "diglyceride (1-18:1, 2-16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97917,6 +98965,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4095" - name: "diglyceride (1-18:1, 2-18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97931,6 +98980,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4096" - name: "sn-2-acyl-1-lysophosphatidylinositol (16:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97945,6 +98995,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4097" - name: "sn-2-acyl-1-lysophosphatidylinositol (18:1) [endoplasmic reticulum membrane] SLIME rxn" @@ -97959,6 +99010,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4098" - name: "phosphatidylglycerol (1-16:0, 2-16:1) [mitochondrial membrane] SLIME rxn" @@ -97974,6 +99026,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4099" - name: "phosphatidylglycerol (1-16:1, 2-16:1) [mitochondrial membrane] SLIME rxn" @@ -97988,6 +99041,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4100" - name: "phosphatidylglycerol (1-18:0, 2-16:1) [mitochondrial membrane] SLIME rxn" @@ -98003,6 +99057,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4101" - name: "phosphatidylglycerol (1-18:1, 2-16:1) [mitochondrial membrane] SLIME rxn" @@ -98018,6 +99073,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4102" - name: "phosphatidylglycerol (1-16:0, 2-18:1) [mitochondrial membrane] SLIME rxn" @@ -98033,6 +99089,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4103" - name: "phosphatidylglycerol (1-16:1, 2-18:1) [mitochondrial membrane] SLIME rxn" @@ -98048,6 +99105,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4104" - name: "cardiolipin (1-16:0, 2-16:1, 3-16:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98063,6 +99121,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4105" - name: "cardiolipin (1-16:0, 2-16:1, 3-16:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98078,6 +99137,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4106" - name: "cardiolipin (1-16:0, 2-16:1, 3-18:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98094,6 +99154,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4107" - name: "cardiolipin (1-16:0, 2-16:1, 3-18:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98110,6 +99171,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4108" - name: "cardiolipin (1-16:0, 2-16:1, 3-16:0, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98126,6 +99188,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4109" - name: "cardiolipin (1-16:0, 2-16:1, 3-16:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98142,6 +99205,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4110" - name: "cardiolipin (1-16:1, 2-16:1, 3-16:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98157,6 +99221,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4111" - name: "cardiolipin (1-16:1, 2-16:1, 3-16:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98171,6 +99236,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4112" - name: "cardiolipin (1-16:1, 2-16:1, 3-18:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98186,6 +99252,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4113" - name: "cardiolipin (1-16:1, 2-16:1, 3-18:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98201,6 +99268,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4114" - name: "cardiolipin (1-16:1, 2-16:1, 3-16:0, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98217,6 +99285,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4115" - name: "cardiolipin (1-16:1, 2-16:1, 3-16:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98232,6 +99301,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4116" - name: "cardiolipin (1-18:0, 2-16:1, 3-16:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98248,6 +99318,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4117" - name: "cardiolipin (1-18:0, 2-16:1, 3-16:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98263,6 +99334,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4118" - name: "cardiolipin (1-18:0, 2-16:1, 3-18:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98278,6 +99350,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4119" - name: "cardiolipin (1-18:0, 2-16:1, 3-18:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98294,6 +99367,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4120" - name: "cardiolipin (1-18:0, 2-16:1, 3-16:0, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98311,6 +99385,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4121" - name: "cardiolipin (1-18:0, 2-16:1, 3-16:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98327,6 +99402,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4122" - name: "cardiolipin (1-18:1, 2-16:1, 3-16:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98343,6 +99419,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4123" - name: "cardiolipin (1-18:1, 2-16:1, 3-16:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98358,6 +99435,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4124" - name: "cardiolipin (1-18:1, 2-16:1, 3-18:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98374,6 +99452,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4125" - name: "cardiolipin (1-18:1, 2-16:1, 3-18:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98389,6 +99468,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4126" - name: "cardiolipin (1-18:1, 2-16:1, 3-16:0, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98405,6 +99485,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4127" - name: "cardiolipin (1-18:1, 2-16:1, 3-16:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98420,6 +99501,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4128" - name: "cardiolipin (1-16:0, 2-18:1, 3-16:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98436,6 +99518,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4129" - name: "cardiolipin (1-16:0, 2-18:1, 3-16:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98452,6 +99535,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4130" - name: "cardiolipin (1-16:0, 2-18:1, 3-18:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98469,6 +99553,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4131" - name: "cardiolipin (1-16:0, 2-18:1, 3-18:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98485,6 +99570,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4132" - name: "cardiolipin (1-16:0, 2-18:1, 3-16:0, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98500,6 +99586,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4133" - name: "cardiolipin (1-16:0, 2-18:1, 3-16:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98516,6 +99603,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4134" - name: "cardiolipin (1-16:1, 2-18:1, 3-16:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98532,6 +99620,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4135" - name: "cardiolipin (1-16:1, 2-18:1, 3-16:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98547,6 +99636,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4136" - name: "cardiolipin (1-16:1, 2-18:1, 3-18:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98563,6 +99653,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4137" - name: "cardiolipin (1-16:1, 2-18:1, 3-18:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98578,6 +99669,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4138" - name: "cardiolipin (1-16:1, 2-18:1, 3-16:0, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98594,6 +99686,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4139" - name: "cardiolipin (1-16:1, 2-18:1, 3-16:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98609,6 +99702,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4140" - name: "cardiolipin (1-18:1, 2-18:1, 3-16:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98625,6 +99719,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4141" - name: "cardiolipin (1-18:1, 2-18:1, 3-16:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98640,6 +99735,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4142" - name: "cardiolipin (1-18:1, 2-18:1, 3-18:0, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98656,6 +99752,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4143" - name: "cardiolipin (1-18:1, 2-18:1, 3-18:1, 4-16:1) [mitochondrial membrane] SLIME rxn" @@ -98671,6 +99768,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4144" - name: "cardiolipin (1-18:1, 2-18:1, 3-16:0, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98686,6 +99784,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4145" - name: "cardiolipin (1-18:1, 2-18:1, 3-16:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98701,6 +99800,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4146" - name: "cardiolipin (1-16:0, 2-16:1, 3-18:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98717,6 +99817,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4147" - name: "cardiolipin (1-16:1, 2-16:1, 3-18:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98732,6 +99833,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4148" - name: "cardiolipin (1-18:0, 2-16:1, 3-18:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98748,6 +99850,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4149" - name: "cardiolipin (1-18:1, 2-16:1, 3-18:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98763,6 +99866,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4150" - name: "cardiolipin (1-16:0, 2-18:1, 3-18:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98778,6 +99882,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4151" - name: "cardiolipin (1-16:1, 2-18:1, 3-18:1, 4-18:1) [mitochondrial membrane] SLIME rxn" @@ -98793,6 +99898,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "pseudo-reaction part of the SLIMEr formalism (PR #112); units in mg/gDWh" - !!omap - id: "r_4152" - name: "Cytochrome c apocytochrome-c-lyase" @@ -98814,6 +99920,7 @@ - metanetx.reaction: "MNXR138510" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4153" - name: "(R)-Acetoin:NAD+ oxidoreductase" @@ -98835,6 +99942,7 @@ - metanetx.reaction: "MNXR95419" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | rxnDirection curated (PR #227)" - !!omap - id: "r_4154" - name: "Probable diacetyl reductase [(R)-acetoin forming] 2 (EC 1.1.1.303)" @@ -98855,6 +99963,7 @@ - metanetx.reaction: "MNXR95419" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4155" - name: "Glutamyl-tRNA(Gln) amidotransferase subunit B, mitochondrial (Glu-AdT subunit B) (EC 6.3.5.-) (Cytochrome c oxidase assembly factor PET112)" @@ -98877,6 +99986,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(606,3523) curated (PR #222)" - !!omap - id: "r_4156" - name: "Methionine aminopeptidase 2 (MAP 2) (MetAP 2) (EC 3.4.11.18) (Peptidase M)" @@ -98894,6 +100004,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4157" - name: "ADP-ribose 1''-phosphate phosphatase (EC 3.1.3.84) (EC 3.2.2.-) ([Protein ADP-ribosylglutamate] hydrolase)" @@ -98913,6 +100024,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4158" - name: "NADPH2:quinone oxidoreductase" @@ -98933,6 +100045,7 @@ - metanetx.reaction: "MNXR107466" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4159" - name: "UDP-N-acetylglucosamine transferase subunit ALG14 (Asparagine-linked glycosylation protein 14)" @@ -98953,6 +100066,7 @@ - metanetx.reaction: "MNXR100208" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4160" - name: "ADP-ribose pyrophosphatase (EC 3.6.1.13) (ADP-ribose diphosphatase) (ADP-ribose phosphohydrolase) (Adenosine diphosphoribose pyrophosphatase) (ADPR-PPase)" @@ -98971,6 +100085,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4161" - name: "Probable vacuolar amino acid transporter YPQ3 (PQ-loop repeat-containing protein 3) (Protein RTC2) (Restriction of telomere capping protein 2)" @@ -98985,6 +100100,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4162" - name: "Probable vacuolar amino acid transporter YPQ3 (PQ-loop repeat-containing protein 3) (Protein RTC2) (Restriction of telomere capping protein 2)" @@ -98999,6 +100115,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4163" - name: "Probable vacuolar amino acid transporter YPQ3 (PQ-loop repeat-containing protein 3) (Protein RTC2) (Restriction of telomere capping protein 2)" @@ -99013,6 +100130,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4164" - name: "oxalate:CoA ligase (AMP-forming)" @@ -99034,6 +100152,7 @@ - metanetx.reaction: "MNXR102232" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4165" - name: "Glucosidase 2 subunit alpha (EC 3.2.1.84) (Alpha-glucosidase II subunit alpha) (Glucosidase II subunit alpha) (Reversal of TOR2 lethality protein 2)" @@ -99053,6 +100172,7 @@ - metanetx.reaction: "MNXR109971" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4166" - name: "Glucosidase 2 subunit alpha (EC 3.2.1.84) (Alpha-glucosidase II subunit alpha) (Glucosidase II subunit alpha) (Reversal of TOR2 lethality protein 2)" @@ -99072,6 +100192,7 @@ - metanetx.reaction: "MNXR109972" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4167" - name: "Vacuolar cation-chloride cotransporter 1 (Vacuolar homolog of CCC family protein 1)" @@ -99091,6 +100212,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4168" - name: "Probable metabolite transport protein YBR241C" @@ -99105,6 +100227,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4169" - name: "Probable metabolite transport protein YBR241C" @@ -99119,6 +100242,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4170" - name: "UDP-N-acetyl-D-glucosamine:dolichyl-phosphate N-acetyl-D-glucosamine phosphotransferase" @@ -99138,6 +100262,7 @@ - metanetx.reaction: "MNXR106786" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4171" - name: "(5-glutamyl)-peptide:amino-acid 5-glutamyltransferase" @@ -99158,6 +100283,7 @@ - metanetx.reaction: "MNXR108524" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4172" - name: "P-type cation-transporting ATPase (EC 3.6.3.3) (Cadmium resistance protein 2) (Cadmium-translocating P-type ATPase) (Cd(2+)-exporting ATPase)" @@ -99179,6 +100305,7 @@ - bigg.reaction: "CD2abc1" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4173" - name: "L-cysteine:sulfur-acceptor sulfurtransferase" @@ -99198,6 +100325,7 @@ - metanetx.reaction: "MNXR114822" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4174" - name: "Probable ATP-dependent permease" @@ -99212,6 +100340,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4175" - name: "Putative aryl-alcohol dehydrogenase AAD3 (EC 1.1.1.-)" @@ -99230,6 +100359,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4176" - name: "Putative aryl-alcohol dehydrogenase AAD3 (EC 1.1.1.-)" @@ -99248,6 +100378,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4177" - name: "Putative aryl-alcohol dehydrogenase AAD3 (EC 1.1.1.-)" @@ -99269,6 +100400,7 @@ - metanetx.reaction: "MNXR94914" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4178" - name: "Putative aryl-alcohol dehydrogenase AAD3 (EC 1.1.1.-)" @@ -99287,6 +100419,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4179" - name: "Putative aryl-alcohol dehydrogenase AAD3 (EC 1.1.1.-)" @@ -99306,6 +100439,7 @@ - bigg.reaction: "4MBZALDH" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4180" - name: "Benzyl alcohol:NAD+ oxidoreductase" @@ -99327,6 +100461,7 @@ - metanetx.reaction: "MNXR96362" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4181" - name: "Manganese-transporting ATPase 1 (EC 3.6.3.-)" @@ -99347,6 +100482,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4183" - name: "D-Mannitol:NAD+ 2-oxidoreductase" @@ -99368,6 +100504,7 @@ - metanetx.reaction: "MNXR101675" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4184" - name: "4-hydroxy-4-methyl-2-oxoglutarate pyruvate-lyase (pyruvate-forming)" @@ -99387,6 +100524,7 @@ - metanetx.reaction: "MNXR106336" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4185" - name: "oxaloacetate carboxy-lyase (pyruvate-forming)" @@ -99409,6 +100547,7 @@ - metanetx.reaction: "MNXR102097" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4186" - name: "L-methionine:thioredoxin-disulfide S-oxidoreductase" @@ -99430,6 +100569,7 @@ - metanetx.reaction: "MNXR101484" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | alternative MetaNetX ID MNXR139547 (PR #220) | model.S(601,3553) curated (PR #222)" - !!omap - id: "r_4187" - name: "L-proline:tRNA(Pro) ligase (AMP-forming)" @@ -99451,6 +100591,7 @@ - metanetx.reaction: "MNXR103208" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4188" - name: "Glutathione-specific gamma-glutamylcyclotransferase (Gamma-GCG) (EC 4.3.2.-)" @@ -99469,6 +100610,7 @@ - kegg.reaction: "R11861" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4189" - name: "4a-hydroxytetrahydrobiopterin hydro-lyase" @@ -99487,6 +100629,7 @@ - metanetx.reaction: "MNXR143540" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4190" - name: "superoxide:superoxide oxidoreductase" @@ -99507,6 +100650,7 @@ - metanetx.reaction: "MNXR104498" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | rxnDirection curated (PR #227)" - !!omap - id: "r_4191" - name: "2-Deoxy-D-glucose 6-phosphate phosphohydrolase" @@ -99527,6 +100671,7 @@ - metanetx.reaction: "MNXR94794" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4192" - name: "Cytochrome c lysine N-methyltransferase 1 (EC 2.1.1.59)" @@ -99547,6 +100692,7 @@ - metanetx.reaction: "MNXR108494" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4193" - name: "S-Adenosyl-L-methionine:histone-L-lysine N6-methyltransferase" @@ -99567,6 +100713,7 @@ - metanetx.reaction: "MNXR108541" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4194" - name: "Zinc transporter YKE4" @@ -99581,6 +100728,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4195" - name: "Zinc transporter YKE4" @@ -99595,6 +100743,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4196" - name: "NADH:ferricytochrome-b5 oxidoreductase" @@ -99614,6 +100763,7 @@ - metanetx.reaction: "MNXR106388" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4197" - name: "NADH-cytochrome b5 reductase 1 (EC 1.6.2.2) (Microsomal cytochrome b reductase) (P35)" @@ -99635,6 +100785,7 @@ - metanetx.reaction: "MNXR106388" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4198" - name: "Benzil reductase ((S)-benzoin forming) IRC24 (EC 1.1.1.320) (Increased recombination centers protein 24)" @@ -99653,6 +100804,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4199" - name: "Glutathione S-transferase 1 (EC 2.5.1.18) (GST-I)" @@ -99672,6 +100824,7 @@ - metanetx.reaction: "MNXR125877" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4200" - name: "Glutathione S-transferase 1 (EC 2.5.1.18) (GST-I)" @@ -99691,6 +100844,7 @@ - metanetx.reaction: "MNXR125877" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4201" - name: "Glutathione S-transferase 1 (EC 2.5.1.18) (GST-I)" @@ -99710,6 +100864,7 @@ - metanetx.reaction: "MNXR125877" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4202" - name: "L-methionine:oxidized-thioredoxin S-oxidoreductase" @@ -99732,6 +100887,7 @@ - metanetx.reaction: "MNXR101484" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(601,3569) curated (PR #222)" - !!omap - id: "r_4203" - name: "Vacuolar aminopeptidase 1 (EC 3.4.11.22) (Aminopeptidase yscI) (Leucine aminopeptidase IV) (LAPIV) (Lysosomal aminopeptidase III) (Polypeptidase) (Vacuolar aminopeptidase I)" @@ -99749,6 +100905,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4204" - name: "Vacuolar aminopeptidase 1 (EC 3.4.11.22) (Aminopeptidase yscI) (Leucine aminopeptidase IV) (LAPIV) (Lysosomal aminopeptidase III) (Polypeptidase) (Vacuolar aminopeptidase I)" @@ -99766,6 +100923,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4205" - name: "5-oxo-L-proline amidohydrolase (ATP-hydrolysing)" @@ -99789,6 +100947,7 @@ - metanetx.reaction: "MNXR138674" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4206" - name: "threo-3-hydroxy-L-aspartate ammonia-lyase" @@ -99807,6 +100966,7 @@ - metanetx.reaction: "MNXR109814" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4207" - name: "Glutathione S-transferase omega-like 2 (EC 2.5.1.18) (Extracellular mutant protein 4) (Glutathione-dependent dehydroascorbate reductase) (EC 1.8.5.1)" @@ -99826,6 +100986,7 @@ - metanetx.reaction: "MNXR125877" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4208" - name: "glutathione:dehydroascorbate oxidoreductase" @@ -99848,6 +101009,7 @@ - metanetx.reaction: "MNXR138490" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4209" - name: "Glutathione S-transferase omega-like 2 (EC 2.5.1.18) (Extracellular mutant protein 4) (Glutathione-dependent dehydroascorbate reductase) (EC 1.8.5.1)" @@ -99869,6 +101031,7 @@ - metanetx.reaction: "MNXR138490" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4210" - name: "urea hydro-lyase (cyanamide-forming)" @@ -99887,6 +101050,7 @@ - metanetx.reaction: "MNXR106683" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4211" - name: "D-ribose 5-phosphate,D-glyceraldehyde 3-phosphate pyridoxal 5-phosphate-lyase (glutamine-hydrolyzing)" @@ -99912,6 +101076,7 @@ - metanetx.reaction: "MNXR140225" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4212" - name: "D-ribulose 5-phosphate,D-glyceraldehyde 3-phosphate pyridoxal 5-phosphate-lyase" @@ -99938,6 +101103,7 @@ - metanetx.reaction: "MNXR103369" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4214" - name: "L-cysteinylglycine dipeptidase" @@ -99958,6 +101124,7 @@ - metanetx.reaction: "MNXR95828" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4215" - name: "Cys-Gly metallodipeptidase DUG1 (EC 3.4.13.-) (Deficient in utilization of glutathione protein 1) (GSH degradosomal complex subunit DUG1)" @@ -99977,6 +101144,7 @@ - metanetx.reaction: "MNXR109244" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4216" - name: "riboflavin-5-phosphate phosphohydrolase" @@ -99997,6 +101165,7 @@ - metanetx.reaction: "MNXR95393" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4217" - name: "Fe(II):oxygen oxidoreductase; Fe2+:oxygen oxidoreductase" @@ -100017,6 +101186,7 @@ - metanetx.reaction: "MNXR99561" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4218" - name: "D-aminoacyl-tRNA deacylase (DTD) (EC 3.1.1.96) (D-tyrosyl-tRNA(Tyr) deacylase) (Gly-tRNA(Ala) deacylase) (EC 3.1.1.-)" @@ -100037,6 +101207,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(601,3584) curated (PR #222)" - !!omap - id: "r_4219" - name: "D-aminoacyl-tRNA deacylase (DTD) (EC 3.1.1.96) (D-tyrosyl-tRNA(Tyr) deacylase) (Gly-tRNA(Ala) deacylase) (EC 3.1.1.-)" @@ -100057,6 +101228,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4220" - name: "4-nitrophenyl phosphate phosphohydrolase" @@ -100077,6 +101249,7 @@ - metanetx.reaction: "MNXR107896" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4221" - name: "D-Iditol:NAD+ 2-oxidoreductase" @@ -100098,6 +101271,7 @@ - metanetx.reaction: "MNXR107809" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4222" - name: "ATP:alpha-D-galactose 1-phosphotransferase" @@ -100118,6 +101292,7 @@ - metanetx.reaction: "MNXR99985" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4223" - name: "3-Hydroxy-2-methylpropanoyl-CoA hydrolase" @@ -100138,6 +101313,7 @@ - metanetx.reaction: "MNXR108112" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | rxnDirection curated (PR #227)" - !!omap - id: "r_4224" - name: "Sodium transport ATPase 5 (EC 3.6.3.7)" @@ -100159,6 +101335,7 @@ - bigg.reaction: "NAabcO" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4225" - name: "Broad-range acid phosphatase DET1 (EC 3.1.3.-) (Decreased ergosterol transport protein 1)" @@ -100179,6 +101356,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4226" - name: "L-Alanine:2-oxoglutarate aminotransferase" @@ -100199,6 +101377,7 @@ - metanetx.reaction: "MNXR95698" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4227" - name: "2-phenylacetamide amidohydrolase" @@ -100219,6 +101398,7 @@ - metanetx.reaction: "MNXR95813" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4228" - name: "Indole-3-acetamide amidohydrolase" @@ -100239,6 +101419,7 @@ - metanetx.reaction: "MNXR95814" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | rxnDirection curated (PR #227)" - !!omap - id: "r_4230" - name: "Probable amidase (EC 3.5.1.4)" @@ -100259,6 +101440,7 @@ - metanetx.reaction: "MNXR95816" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4231" - name: "Acylamide aminohydrolase" @@ -100276,6 +101458,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4232" - name: "ATP:D-Gluconate 6-phosphotransferase" @@ -100297,6 +101480,7 @@ - metanetx.reaction: "MNXR100390" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4233" - name: "S-Adenosyl-L-methionine:protein-C-terminal-S-farnesyl-L-cysteine O-methyltransferase" @@ -100316,6 +101500,7 @@ - metanetx.reaction: "MNXR108926" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4234" - name: "Phosphatidylinositol N-acetylglucosaminyltransferase subunit GPI19 (GPI-GlcNAc transferase complex subunit GPI19) (GPI-GnT subunit GPI19) (EC 2.4.1.198)" @@ -100336,6 +101521,7 @@ - metanetx.reaction: "MNXR109940" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4236" - name: "(R)-lactate hydro-lyase" @@ -100356,6 +101542,7 @@ - metanetx.reaction: "MNXR100354" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4237" - name: "Calcium-transporting ATPase 2 (EC 3.6.3.8) (Vacuolar Ca(2+)-ATPase)" @@ -100376,6 +101563,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4238" - name: "Calcium-transporting ATPase 2 (EC 3.6.3.8) (Golgi Ca(2+)-ATPase)" @@ -100396,6 +101584,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4239" - name: "L-arginyl-tRNA(Arg):protein arginyltransferase" @@ -100416,6 +101605,7 @@ - metanetx.reaction: "MNXR108483" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4240" - name: "Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3 (Oligosaccharyl transferase subunit STT3) (EC 2.4.99.18)" @@ -100436,6 +101626,7 @@ - metanetx.reaction: "MNXR109968" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4241" - name: "Mannosyl-oligosaccharide glucosidase (EC 3.2.1.106) (Processing A-glucosidase I) (Glucosidase I)" @@ -100455,6 +101646,7 @@ - metanetx.reaction: "MNXR109970" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4242" - name: "Initiation-specific alpha-1,6-mannosyltransferase (EC 2.4.1.232) (Outer chain elongation protein 1)" @@ -100475,6 +101667,7 @@ - metanetx.reaction: "MNXR112120" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4243" - name: "Alpha-1,3/1,6-mannosyltransferase ALG2 (EC 2.4.1.132) (EC 2.4.1.257) (Asparagine-linked glycosylation protein 2) (GDP-Man:Man(1)GlcNAc(2)-PP-Dol alpha-1,3-mannosyltransferase) (GDP-Man:Man(1)GlcNAc(2)-PP-dolichol mannosyltransferase) (GDP-Man:Man(2)GlcNAc(2)-PP-Dol alpha-1,6-mannosyltransferase)" @@ -100497,6 +101690,7 @@ - metanetx.reaction: "MNXR109280" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4244" - name: "GDP-D-mannose:D-Man-alpha-(1->3)-D-Man-beta-(1->4)-D-GlcNAc-beta-(1->4)-D-GlcNAc-diphosphodolichol alpha-6-mannosyltransferase" @@ -100519,6 +101713,7 @@ - metanetx.reaction: "MNXR110084" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4245" - name: "2-O-(6-phospho-alpha-D-mannosyl)-D-glycerate 6-phosphomannohydrolase" @@ -100538,6 +101733,7 @@ - metanetx.reaction: "MNXR101397" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | KEGG ID curated (PR #220)" - !!omap - id: "r_4246" - name: "Alpha-mannosidase (EC 3.2.1.24) (Alpha-D-mannoside mannohydrolase)" @@ -100555,6 +101751,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4247" - name: "ATP:L-threonyl,bicarbonate adenylyltransferase" @@ -100576,6 +101773,7 @@ - metanetx.reaction: "MNXR113802" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4248" - name: "D-serine ammonia-lyase" @@ -100595,6 +101793,7 @@ - metanetx.reaction: "MNXR104338" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | rxnDirection curated (PR #227)" - !!omap - id: "r_4249" - name: "O3-acetyl-L-serine:hydrogen-sulfide 2-amino-2-carboxyethyltransferase; O3-acetyl-L-serine acetate-lyase (adding hydrogen sulfide)" @@ -100615,6 +101814,7 @@ - metanetx.reaction: "MNXR97007" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4250" - name: "Dolichyl-diphosphate phosphohydrolase" @@ -100635,6 +101835,7 @@ - metanetx.reaction: "MNXR106783" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(602,3615) curated (PR #222)" - !!omap - id: "r_4251" - name: "CTP:phosphatidate cytidyltransferase" @@ -100655,6 +101856,7 @@ - metanetx.reaction: "MNXR107177" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(606,3616) curated (PR #222)" - !!omap - id: "r_4252" - name: "Thiamine thiazole synthase (Thiazole biosynthetic enzyme)" @@ -100675,6 +101877,7 @@ - metanetx.reaction: "MNXR139808" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4253" - name: "dolichyl beta-D-glucosyl phosphate:D-Glc-alpha-(1->3)-D-Glc-alpha-(1->3)-D-Man-alpha-(1->2)-D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->2)-D-Man-alpha-(1->6)]-D-Man-alpha-(1->6)]-D-Man-beta-(1->4)-D-GlcNAc-beta-(1->4)-D-GlcNAc-diphosphodolichol alpha-1,2-glucosyltransferase" @@ -100695,6 +101898,7 @@ - metanetx.reaction: "MNXR110098" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(602,3618) curated (PR #222)" - !!omap - id: "r_4254" - name: "nitric oxide, NADH2:oxygen oxidoreductase" @@ -100717,6 +101921,7 @@ - metanetx.reaction: "MNXR101996" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220) | KEGG ID curated (PR #220)" - !!omap - id: "r_4255" - name: "nitric oxide, NADPH2:oxygen oxidoreductase" @@ -100739,6 +101944,7 @@ - metanetx.reaction: "MNXR101997" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4256" - name: "Putative lipoate-protein ligase A (EC 6.3.1.20) (Altered inheritance rate of mitochondria protein 22)" @@ -100759,6 +101965,7 @@ - metanetx.reaction: "MNXR101081" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4258" - name: "[lipoyl-carrier protein]-L-lysine:lipoate ligase (AMP-forming)" @@ -100780,6 +101987,7 @@ - metanetx.reaction: "MNXR114442" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4260" - name: "Deaminated glutathione amidase (dGSH amidase) (EC 3.5.1.-) (Nitrilase homolog 1)" @@ -100798,6 +102006,7 @@ - kegg.reaction: "R12024" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4261" - name: "Deaminated glutathione amidase (dGSH amidase) (EC 3.5.1.-) (Nitrilase homolog 1)" @@ -100816,6 +102025,7 @@ - kegg.reaction: "R12024" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4262" - name: "citrate hydroxymutase" @@ -100834,6 +102044,7 @@ - metanetx.reaction: "MNXR95384" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4263" - name: "Anion/proton exchange transporter GEF1 (CLC protein GEF1) (ClC-A) (ClC-Y1) (Voltage-gated chloride channel) [Cleaved into: GEF1 N-terminal; GEF1 C-terminal]" @@ -100848,6 +102059,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4264" - name: "succinate:NAD+ oxidoreductase" @@ -100868,6 +102080,7 @@ - metanetx.reaction: "MNXR106516" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | rxnDirection curated (PR #227)" - !!omap - id: "r_4265" - name: "nucleoside-triphosphate diphosphohydrolase" @@ -100888,6 +102101,7 @@ - metanetx.reaction: "MNXR107043" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4266" - name: "Inosine triphosphate pyrophosphatase (ITPase) (Inosine triphosphatase) (EC 3.6.1.9) (Hydroxylaminopurine sensitivity protein 1) (Non-canonical purine NTP pyrophosphatase) (Non-standard purine NTP pyrophosphatase) (Nucleoside-triphosphate diphosphatase) (Nucleoside-triphosphate pyrophosphatase) (NTPase)" @@ -100907,6 +102121,7 @@ - bigg.reaction: "NTPP5" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4267" - name: "2'-Deoxyguanosine 5'-triphosphate diphosphohydrolase" @@ -100928,6 +102143,7 @@ - metanetx.reaction: "MNXR102049" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4268" - name: "dTTP diphosphohydrolase" @@ -100949,6 +102165,7 @@ - metanetx.reaction: "MNXR97809" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4269" - name: "Inosine triphosphate pyrophosphatase (ITPase) (Inosine triphosphatase) (EC 3.6.1.9) (Hydroxylaminopurine sensitivity protein 1) (Non-canonical purine NTP pyrophosphatase) (Non-standard purine NTP pyrophosphatase) (Nucleoside-triphosphate diphosphatase) (Nucleoside-triphosphate pyrophosphatase) (NTPase)" @@ -100967,6 +102184,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4270" - name: "superoxide:superoxide oxidoreductase" @@ -100987,6 +102205,7 @@ - metanetx.reaction: "MNXR104498" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | rxnDirection curated (PR #227)" - !!omap - id: "r_4271" - name: "Endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase (EC 3.2.1.113) (ER alpha-1,2-mannosidase) (Man(9)-alpha-mannosidase)" @@ -101008,6 +102227,7 @@ - metanetx.reaction: "MNXR109973" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4272" - name: "alpha 1,2-mannosyloligosaccharide alpha-D-mannohydrolase" @@ -101029,6 +102249,7 @@ - metanetx.reaction: "MNXR110483" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4273" - name: "ethylnitronate:oxygen 2-oxidoreductase (nitrite-forming)" @@ -101052,6 +102273,7 @@ - metanetx.reaction: "MNXR106342" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4274" - name: "O-Succinyl-L-homoserine succinate-lyase (deaminating; 2-oxobutanoate-forming)" @@ -101074,6 +102296,7 @@ - metanetx.reaction: "MNXR104384" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | rxnDirection curated (PR #227)" - !!omap - id: "r_4275" - name: "Fe(II):NADP+ oxidoreductase" @@ -101094,6 +102317,7 @@ - metanetx.reaction: "MNXR112960" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4276" - name: "Fe(II):NADP+ oxidoreductase" @@ -101114,6 +102338,7 @@ - metanetx.reaction: "MNXR112960" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4277" - name: "acyl-CoA:sn-glycerol-3-phosphate 1-O-acyltransferase" @@ -101133,6 +102358,7 @@ - metanetx.reaction: "MNXR106715" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4278" - name: "diphthine:ammonia ligase (AMP-forming)" @@ -101155,6 +102381,7 @@ - metanetx.reaction: "MNXR108295" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4279" - name: "8-oxo-dGTP diphosphohydrolase" @@ -101175,6 +102402,7 @@ - metanetx.reaction: "MNXR113234" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(608,3642) curated (PR #222) | rxnDirection curated (PR #227)" - !!omap - id: "r_4280" - name: "octanoyl-[acp]:protein N6-octanoyltransferase" @@ -101194,6 +102422,7 @@ - metanetx.reaction: "MNXR111354" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4281" - name: "lipoyl-[acp]:protein N6-lipoyltransferase" @@ -101213,6 +102442,7 @@ - metanetx.reaction: "MNXR111357" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4282" - name: "ATP:D-fructose-6-phosphate 2-phosphotransferase" @@ -101236,6 +102466,7 @@ - metanetx.reaction: "MNXR102508" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4283" - name: "ATP:D-fructose 6-phosphotransferase" @@ -101256,6 +102487,7 @@ - metanetx.reaction: "MNXR100614" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4284" - name: "ATP:beta-D-glucose 6-phosphotransferase" @@ -101277,6 +102509,7 @@ - metanetx.reaction: "MNXR107081" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4285" - name: "ATP:alpha-D-glucose 6-phosphotransferase" @@ -101298,6 +102531,7 @@ - metanetx.reaction: "MNXR100284" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4286" - name: "ATP:D-glucosamine 6-phosphotransferase" @@ -101319,6 +102553,7 @@ - metanetx.reaction: "MNXR100613" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4287" - name: "ATP:D-fructose 6-phosphotransferase" @@ -101340,6 +102575,7 @@ - metanetx.reaction: "MNXR95167" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4288" - name: "alpha-D-Glucose 6-phosphate ketol-isomerase" @@ -101358,6 +102594,7 @@ - metanetx.reaction: "MNXR99911" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4291" - name: "D-Glyceraldehyde:NAD+ oxidoreductase" @@ -101380,6 +102617,7 @@ - metanetx.reaction: "MNXR100310" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4292" - name: "4-Aminobutyraldehyde:NAD+ oxidoreductase" @@ -101402,6 +102640,7 @@ - metanetx.reaction: "MNXR94991" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4293" - name: "4-aminobutanal:NAD+ 1-oxidoreductase; 4-aminobutyraldehyde:NAD+ oxidoreductase" @@ -101424,6 +102663,7 @@ - metanetx.reaction: "MNXR95191" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4294" - name: "Indole-3-acetaldehyde:NAD+ oxidoreductase" @@ -101446,6 +102686,7 @@ - metanetx.reaction: "MNXR95744" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4295" - name: "2-Propyn-1-al:NAD+ oxidoreductase" @@ -101467,6 +102708,7 @@ - metanetx.reaction: "MNXR107839" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4296" - name: "D-Glucuronolactone:NAD+ oxidoreductase" @@ -101489,6 +102731,7 @@ - metanetx.reaction: "MNXR95753" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | rxnDirection curated (PR #227)" - !!omap - id: "r_4297" - name: "4-Trimethylammoniobutanal:NAD+ 1-oxidoreductase; 4-Trimethylammoniobutanal:NAD+ oxidoreductase" @@ -101510,6 +102753,7 @@ - metanetx.reaction: "MNXR108074" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(601,3658) curated (PR #222)" - !!omap - id: "r_4298" - name: "(S)-Methylmalonate semialdehyde:NAD+ oxidoreductase" @@ -101531,6 +102775,7 @@ - metanetx.reaction: "MNXR95762" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4299" - name: "Imidazole acetaldehyde:NAD+ oxidoreductase" @@ -101552,6 +102797,7 @@ - metanetx.reaction: "MNXR95745" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(601,3660) curated (PR #222)" - !!omap - id: "r_4300" - name: "3alpha,7alpha-Dihydroxy-5beta-cholestan-26-al:NAD+ oxidoreductase" @@ -101574,6 +102820,7 @@ - metanetx.reaction: "MNXR108934" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4301" - name: "5-Hydroxyindoleacetaldehyde:NAD+ oxidoreductase" @@ -101595,6 +102842,7 @@ - metanetx.reaction: "MNXR109205" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(601,3662) curated (PR #222)" - !!omap - id: "r_4302" - name: "N4-Acetylaminobutanal:NAD+ oxidoreductase" @@ -101617,6 +102865,7 @@ - metanetx.reaction: "MNXR101805" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4303" - name: "Fatty aldehyde dehydrogenase HFD1 (EC 1.2.1.3)" @@ -101638,6 +102887,7 @@ - metanetx.reaction: "MNXR109413" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(942,3664) curated (PR #222) | model.S(947,3664) curated (PR #222)" - !!omap - id: "r_4304" - name: "Fatty aldehyde dehydrogenase HFD1 (EC 1.2.1.3)" @@ -101659,6 +102909,7 @@ - metanetx.reaction: "MNXR109414" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(942,3665) curated (PR #222) | model.S(947,3665) curated (PR #222)" - !!omap - id: "r_4305" - name: "Chloroacetaldehyde:NAD+ oxidoreductase" @@ -101680,6 +102931,7 @@ - metanetx.reaction: "MNXR109457" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(601,3666) curated (PR #222)" - !!omap - id: "r_4306" - name: "Aldehyde:NAD+ oxidoreductase" @@ -101701,6 +102953,7 @@ - metanetx.reaction: "MNXR110183" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(601,3667) curated (PR #222)" - !!omap - id: "r_4307" - name: "farnesal:NAD+ oxidoreductase" @@ -101722,6 +102975,7 @@ - metanetx.reaction: "MNXR111724" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(601,3668) curated (PR #222)" - !!omap - id: "r_4308" - name: "Probable phospholipid-transporting ATPase DNF3 (EC 3.6.3.1) (Aminophospholipid translocase) (APT) (Phospholipid translocase) (PLT)" @@ -101742,6 +102996,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4309" - name: "Putative esterase YMR210W (EC 3.1.1.-)" @@ -101760,6 +103015,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4310" - name: "GDP-mannose:glycolipid 1,2-alpha-D-mannosyltransferase" @@ -101780,6 +103036,7 @@ - metanetx.reaction: "MNXR110030" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4311" - name: "GDP-mannose:glycolipid 1,2-alpha-D-mannosyltransferase" @@ -101800,6 +103057,7 @@ - metanetx.reaction: "MNXR110031" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4312" - name: "S-adenosyl-L-methionine:carnosine N-methyltransferase" @@ -101820,6 +103078,7 @@ - metanetx.reaction: "MNXR107333" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4313" - name: "Alpha-1,2-mannosyltransferase ALG9 (EC 2.4.1.259) (EC 2.4.1.261) (Asparagine-linked glycosylation protein 9) (Dol-P-Man:Man(6)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase) (Dol-P-Man:Man(8)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase)" @@ -101841,6 +103100,7 @@ - metanetx.reaction: "MNXR110093" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(602,3674) curated (PR #222)" - !!omap - id: "r_4314" - name: "Alpha-1,2-mannosyltransferase ALG9 (EC 2.4.1.259) (EC 2.4.1.261) (Asparagine-linked glycosylation protein 9) (Dol-P-Man:Man(6)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase) (Dol-P-Man:Man(8)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase)" @@ -101862,6 +103122,7 @@ - metanetx.reaction: "MNXR110095" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4315" - name: "Glycolate:NAD+ oxidoreductase" @@ -101883,6 +103144,7 @@ - metanetx.reaction: "MNXR100331" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4316" - name: "Dol-P-Man:Man(7)GlcNAc(2)-PP-Dol alpha-1,6-mannosyltransferase (EC 2.4.1.260) (Asparagine-linked glycosylation protein 12) (Dolichyl-P-Man:Man(7)GlcNAc(2)-PP-dolichyl-alpha-1,6-mannosyltransferase) (Extracellular mutant protein 39) (Mannosyltransferase ALG12)" @@ -101902,6 +103164,7 @@ - metanetx.reaction: "MNXR110094" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4317" - name: "sucrose glucohydrolase" @@ -101922,6 +103185,7 @@ - metanetx.reaction: "MNXR104638" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4318" - name: "Isomaltose 6-alpha-D-glucanohydrolase" @@ -101941,6 +103205,7 @@ - metanetx.reaction: "MNXR107140" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4319" - name: "Dextrin 6-alpha-D-glucanohydrolase" @@ -101959,6 +103224,7 @@ - metanetx.reaction: "MNXR107171" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4320" - name: "dolichyl beta-D-glucosyl phosphate:D-Man-alpha-(1->2)-D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->2)-D-Man-alpha-(1->6)]-D-Man-alpha-(1->6)]-D-Man-beta-(1->4)-D-GlcNAc-beta-(1->4)-D-GlcNAc-diphosphodolichol alpha-1,3-glucosyltransferase" @@ -101979,6 +103245,7 @@ - metanetx.reaction: "MNXR110096" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(602,3681) curated (PR #222)" - !!omap - id: "r_4321" - name: "dolichyl beta-D-glucosyl phosphate:D-Glc-alpha-(1->3)-D-Man-alpha-(1->2)-D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->2)-D-Man-alpha-(1->6)]-D-Man-alpha-(1->6)]-D-Man-beta-(1->4)-D-GlcNAc-beta-(1->4)-D-GlcNAc-diphosphodolichol alpha-1,3-glucosyltransferase" @@ -101999,6 +103266,7 @@ - metanetx.reaction: "MNXR110097" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | model.S(602,3682) curated (PR #222)" - !!omap - id: "r_4322" - name: "GPI mannosyltransferase 4 (EC 2.4.1.-) (GPI mannosyltransferase IV) (GPI-MT-IV)" @@ -102019,6 +103287,7 @@ - metanetx.reaction: "MNXR110833" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4323" - name: "protein N6-(octanoyl)lysine:sulfur sulfurtransferase" @@ -102040,6 +103309,7 @@ - metanetx.reaction: "MNXR111355" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4324" - name: "octanoyl-[acp]:sulfur sulfurtransferase" @@ -102061,6 +103331,7 @@ - metanetx.reaction: "MNXR111356" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4325" - name: "Iron sulfur cluster assembly protein 2, mitochondrial (Iron sulfur cluster scaffold protein 2)" @@ -102076,6 +103347,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4326" - name: "thiosulfate:cyanide sulfurtranserase" @@ -102099,6 +103371,7 @@ - metanetx.reaction: "MNXR138187" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220) | model.S(606,3687) curated (PR #222)" - !!omap - id: "r_4327" - name: "Magnesium transporter MRS2, mitochondrial (RNA-splicing protein MRS2)" @@ -102113,6 +103386,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4328" - name: "UDPglucose:dolichyl-phosphate beta-D-glucosyltransferase" @@ -102133,6 +103407,7 @@ - metanetx.reaction: "MNXR143462" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142) | MetaNetX ID curated (PR #220) | model.S(602,3689) curated (PR #222)" - !!omap - id: "r_4329" - name: "Putative sulfate transporter YPR003C" @@ -102148,6 +103423,7 @@ - bigg.reaction: "HMR_9626" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4330" - name: "Pyridoxine:NADP+ 4-oxidoreductase" @@ -102169,6 +103445,7 @@ - metanetx.reaction: "MNXR103366" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4331" - name: "[1,4-(N-Acetyl-beta-D-glucosaminyl)]n glycanohydrolase" @@ -102187,6 +103464,7 @@ - metanetx.reaction: "MNXR106866" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4332" - name: "Protein PNS1 (pH nine-sensitive protein 1)" @@ -102202,6 +103480,7 @@ - bigg.reaction: "CHOLtu" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4333" - name: "Polyphosphate phosphohydrolase" @@ -102224,6 +103503,7 @@ - metanetx.reaction: "MNXR107906" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4334" - name: "Copper-transporting ATPase (EC 3.6.3.54) (Cu(2+)-ATPase)" @@ -102244,6 +103524,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4335" - name: "Endopolyphosphatase (EC 3.6.1.10) (Deoxyadenosine triphosphate phosphohydrolase) (dATP phosphohydrolase) (EC 3.6.1.-) (Exopolyphosphatase) (EC 3.6.1.11) (Phosphate metabolism protein 5)" @@ -102266,6 +103547,7 @@ - bigg.reaction: "NTP2" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4336" - name: "Monoamide of a dicarboxylic acid amidohydrolase" @@ -102286,6 +103568,7 @@ - metanetx.reaction: "MNXR108439" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4337" - name: "Iron-sulfur clusters transporter ATM1, mitochondrial" @@ -102305,6 +103588,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4338" - name: "Oligo-1,6-glucosidase IMA2 (EC 3.2.1.10) (Alpha-glucosidase) (Isomaltase 2)" @@ -102323,6 +103607,7 @@ - metanetx.reaction: "MNXR110064" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4339" - name: "UDP-N-acetylglucosamine transporter YEA4" @@ -102337,6 +103622,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4340" - name: "D-amino-acid N-acetyltransferase HPA3 (DNT) (EC 2.3.1.36) (EC 2.3.1.48) (Histone and other protein acetyltransferase 3)" @@ -102357,6 +103643,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after new annotation (PR #142)" - !!omap - id: "r_4341" - name: "glycerol 2-phosphate(2-) transport" @@ -102371,6 +103658,7 @@ - metanetx.reaction: "MNXR100319" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); bigg:GLYC2Ptex;glycerol 2-phosphate(2-)_P Source | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4342" - name: "Glycerol-2-phosphate phosphohydrolase" @@ -102390,6 +103678,7 @@ - metanetx.reaction: "MNXR99852" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:13105;glycerol 2-phosphate(2-)_P Source" - !!omap - id: "r_4343" - name: "L-Threonine phosphate transport in via proton symport" @@ -102406,6 +103695,7 @@ - metanetx.reaction: "MNXR136678" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn11407;O-phospho-L-threonine_P Source" - !!omap - id: "r_4344" - name: "acid phosphatase / phosphotransferase" @@ -102423,6 +103713,7 @@ - metanetx.reaction: "MNXR103332" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:30579;O-phospho-L-threonine_P Source" - !!omap - id: "r_4345" - name: "alkaline phosphatase" @@ -102440,6 +103731,7 @@ - metanetx.reaction: "MNXR118732" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); metacyc:RXN-14512;guanosine 2'-monophosphate_P Source" - !!omap - id: "r_4346" - name: "Guanosine transport via proton symport" @@ -102455,6 +103747,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); guanosine 2'-monophosphate_P Source" - !!omap - id: "r_4347" - name: "Guanosine 3'-phosphate phosphohydrolase" @@ -102474,6 +103767,7 @@ - metanetx.reaction: "MNXR94936" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:27862;3'-GMP_P Source" - !!omap - id: "r_4348" - name: "Guanosine transport via proton symport(for 3'-GMP)" @@ -102490,6 +103784,7 @@ - bigg.reaction: "3GMPt6" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); 3'-GMP_P Source" - !!omap - id: "r_4349" - name: "2-Phosphoglycolate transport in/out via proton symport" @@ -102507,6 +103802,7 @@ - metanetx.reaction: "MNXR94822" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05473;2-phosphoglycolate_P Source" - !!omap - id: "r_4350" - name: "2-phosphoglycolate phosphohydrolase" @@ -102526,6 +103822,7 @@ - metanetx.reaction: "MNXR102543" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:14369;2-phosphoglycolate_P Source" - !!omap - id: "r_4351" - name: "alkaline phosphatase" @@ -102543,6 +103840,7 @@ - metanetx.reaction: "MNXR118734" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37251;cysteamine S-phosphate_P Source" - !!omap - id: "r_4352" - name: "cysteamine S-phosphate transport via proton symport" @@ -102556,6 +103854,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); cysteamine S-phosphate_P Source" - !!omap - id: "r_4353" - name: "Cysteamine:oxygen oxidoreductase" @@ -102574,6 +103873,7 @@ - metanetx.reaction: "MNXR107528" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:14409;cysteamine S-phosphate_P Source" - !!omap - id: "r_4354" - name: "hypotaurine:NAD+ oxidoreductase" @@ -102594,6 +103894,7 @@ - metanetx.reaction: "MNXR107116" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:17385;cysteamine S-phosphate_P Source" - !!omap - id: "r_4355" - name: "2-aminobutanoate:2-oxoglutarate aminotransferase" @@ -102613,6 +103914,7 @@ - metanetx.reaction: "MNXR103594" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); 2-aminobutanoate_N Source" - !!omap - id: "r_4356" - name: "2-aminobutyrate transport" @@ -102628,6 +103930,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); 2-aminobutanoate_N Source" - !!omap - id: "r_4357" - name: "alkaline phosphatase" @@ -102645,6 +103948,7 @@ - metanetx.reaction: "MNXR118730" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37355;uridine 2'-phosphate_P Source" - !!omap - id: "r_4358" - name: "Uridine 2'-phosphate transport in via proton symport" @@ -102661,6 +103965,7 @@ - metanetx.reaction: "MNXR136675" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn11403;uridine 2'-phosphate_P Source" - !!omap - id: "r_4359" - name: "Uridine 3'-monophosphate phosphohydrolase" @@ -102680,6 +103985,7 @@ - metanetx.reaction: "MNXR94932" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:27890;3'-UMP_P Source" - !!omap - id: "r_4360" - name: "3'-UMP transport in via proton symport" @@ -102697,6 +104003,7 @@ - metanetx.reaction: "MNXR94982" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05480;3'-UMP_P Source" - !!omap - id: "r_4361" - name: "Gly-Met transport via proton symport" @@ -102714,6 +104021,7 @@ - metanetx.reaction: "MNXR137072" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12552;Gly-Met_N Source" - !!omap - id: "r_4362" - name: "dipeptidase" @@ -102731,6 +104039,7 @@ - metanetx.reaction: "MNXR123343" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37323;Gly-Met_N Source" - !!omap - id: "r_4363" - name: "R07420" @@ -102747,6 +104056,7 @@ - metanetx.reaction: "MNXR111061" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05129;N-phosphocreatine_P Source" - !!omap - id: "r_4364" - name: "N-phosphocreatine transport" @@ -102762,6 +104072,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); N-phosphocreatine_P Source" - !!omap - id: "r_4365" - name: "creatinine transport" @@ -102777,6 +104088,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); N-phosphocreatine_P Source" - !!omap - id: "r_4366" - name: "ATP:L-arginine Nomega-phosphotransferase" @@ -102797,6 +104109,7 @@ - metanetx.reaction: "MNXR95943" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:22940;N(omega)-phospho-L-arginine_P Source" - !!omap - id: "r_4367" - name: "L-arginine phosphate transport in/out via proton symport" @@ -102814,6 +104127,7 @@ - metanetx.reaction: "MNXR95947" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05502;N(omega)-phospho-L-arginine_P Source" - !!omap - id: "r_4368" - name: "acid phosphatase / phosphotransferase" @@ -102830,6 +104144,7 @@ - metanetx.reaction: "MNXR104998" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:30863;O(4)-phospho-L-tyrosine_P Source" - !!omap - id: "r_4369" - name: "Tripolyphosphate transport in via proton symport" @@ -102846,6 +104161,7 @@ - metanetx.reaction: "MNXR135003" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05717;triphosphate_P Source" - !!omap - id: "r_4370" - name: "alkaline phosphatase" @@ -102863,6 +104179,7 @@ - metanetx.reaction: "MNXR118731" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37351;cytidine 2'-phosphate_P Source" - !!omap - id: "r_4371" - name: "Cytidine- 2'- Monophosphate transport in via proton symport" @@ -102879,6 +104196,7 @@ - metanetx.reaction: "MNXR135010" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05724;cytidine 2'-phosphate_P Source" - !!omap - id: "r_4372" - name: "cyclic phosphodiesterase" @@ -102897,6 +104215,7 @@ - metanetx.reaction: "MNXR117327" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37239;2',3'-cyclic UMP_P Source" - !!omap - id: "r_4373" - name: "2',3'-Cyclic UMP transport in via proton symport" @@ -102913,6 +104232,7 @@ - metanetx.reaction: "MNXR136674" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn11402;2',3'-cyclic UMP_P Source" - !!omap - id: "r_4374" - name: "3-Sulfino-L-alanine 4-carboxy-lyase" @@ -102932,6 +104252,7 @@ - metanetx.reaction: "MNXR123155" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:28278;3-sulfino-L-alanine_S Source | model.S(601,3735) curated (PR #222)" - !!omap - id: "r_4375" - name: "3-Sulfino-L-alanine transport via proton antiport" @@ -102948,6 +104269,7 @@ - metanetx.reaction: "MNXR137086" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12567;3-sulfino-L-alanine_S Source" - !!omap - id: "r_4376" - name: "adenosine 3'-phosphate phosphohydrolase" @@ -102967,6 +104289,7 @@ - metanetx.reaction: "MNXR94935" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:27898;3'-AMP_P Source" - !!omap - id: "r_4377" - name: "3AMP transport via diffusion (extracellular to periplasm)" @@ -102981,6 +104304,7 @@ - metanetx.reaction: "MNXR94857" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn07973;3'-AMP_P Source" - !!omap - id: "r_4378" - name: "alpha-glucosidase" @@ -102998,6 +104322,7 @@ - metanetx.reaction: "MNXR130717" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); sabiork:11700;6-O-alpha-D-glucopyranosyl-D-fructofuranose_C Source" - !!omap - id: "r_4379" - name: "Palatinose transport in via proton symport" @@ -103015,6 +104340,7 @@ - metanetx.reaction: "MNXR102339" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05629;6-O-alpha-D-glucopyranosyl-D-fructofuranose_C Source" - !!omap - id: "r_4380" - name: "Amino-Acid N-Acetyltransferase" @@ -103032,6 +104358,7 @@ - metanetx.reaction: "MNXR103637" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); bigg:RE2223M;N-acetyl-L-cysteine_S Source" - !!omap - id: "r_4381" - name: "Acetylcysteine transport via proton symport" @@ -103048,6 +104375,7 @@ - metanetx.reaction: "MNXR137052" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12528;N-acetyl-L-cysteine_S Source" - !!omap - id: "r_4382" - name: "thiosulfate:ferricytochrome-c oxidoreductase" @@ -103066,6 +104394,7 @@ - metanetx.reaction: "MNXR138952" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); R00029;tetrathionate_S Source | MetaNetX ID curated (PR #220) | KEGG ID curated (PR #220) | model.S(2597,3743) curated (PR #222) | model.S(2598,3743) curated (PR #222)" - !!omap - id: "r_4383" - name: "etrathionate transport via diffusion" @@ -103080,6 +104409,7 @@ - metanetx.reaction: "MNXR104796" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); bigg:TETtex;tetrathionate_S Source" - !!omap - id: "r_4384" - name: "D-Gluconate:NADP+ 5-oxidoreductase" @@ -103102,6 +104432,7 @@ - metanetx.reaction: "MNXR95065" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:23936;5-dehydro-D-gluconate_C Source" - !!omap - id: "r_4385" - name: "5-Dehydro-D-gluconate transport via proton symport" @@ -103118,6 +104449,7 @@ - metanetx.reaction: "MNXR95066" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:28819;5-dehydro-D-gluconate_C Source" - !!omap - id: "r_4386" - name: "dipeptidase" @@ -103135,6 +104467,7 @@ - metanetx.reaction: "MNXR123344" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37267;Ala-Asp_N Source" - !!omap - id: "r_4387" - name: "ala-L-asp-L transport via proton symport" @@ -103152,6 +104485,7 @@ - metanetx.reaction: "MNXR137135" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12628;Ala-Asp_N Source" - !!omap - id: "r_4388" - name: "cyclic phosphodiesterase" @@ -103170,6 +104504,7 @@ - metanetx.reaction: "MNXR117326" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:41956;cytidine 2'-phosphate_P Source" - !!omap - id: "r_4389" - name: "2',3'-Cyclic CMP transport in via proton symport" @@ -103186,6 +104521,7 @@ - metanetx.reaction: "MNXR136673" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn11401;2',3'-cyclic CMP_P Source" - !!omap - id: "r_4390" - name: "beta-glucosidase (methyl-alpha-D-glucoside)" @@ -103203,6 +104539,7 @@ - metanetx.reaction: "MNXR142673" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn09978;methyl alpha-D-glucopyranoside_C Source | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4391" - name: "Methanol diffusion" @@ -103218,6 +104555,7 @@ - metanetx.reaction: "MNXR101464" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:34871;methyl alpha-D-glucopyranoside_C Source" - !!omap - id: "r_4392" - name: "alpha-Methyl-D-glucoside transport via proton symport" @@ -103234,6 +104572,7 @@ - metanetx.reaction: "MNXR144815" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12524;methyl alpha-D-glucopyranoside_C Source | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4393" - name: "ATP:D-tagatose 6-phosphotransferase" @@ -103253,6 +104592,7 @@ - metanetx.reaction: "MNXR107830" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn02094;D-tagatose_C Source" - !!omap - id: "r_4394" - name: "D-tagatose 6-phosphate 4-epimerase" @@ -103266,6 +104606,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); D-tagatose_C Source" - !!omap - id: "r_4395" - name: "D-tagatose uptake via diffusion" @@ -103282,6 +104623,7 @@ - metanetx.reaction: "MNXR104707" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); D-tagatose_C Source" - !!omap - id: "r_4396" - name: "Acetoacetate:CoA ligase (AMP-forming)" @@ -103303,6 +104645,7 @@ - metanetx.reaction: "MNXR95136" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:16117;acetoacetate_C Source" - !!omap - id: "r_4397" - name: "N-Acyl-Aliphatic-L-Amino Acid Amidohydrolase" @@ -103321,6 +104664,7 @@ - metanetx.reaction: "MNXR103709" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); N(alpha)-acetyl-L-methionine_S Source" - !!omap - id: "r_4398" - name: "Ala-Gln transport via proton symport" @@ -103338,6 +104682,7 @@ - metanetx.reaction: "MNXR137087" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12568;Ala-Gln_N Source" - !!omap - id: "r_4399" - name: "L-alanyl-L-glutamate transport in via proton symport" @@ -103354,6 +104699,7 @@ - metanetx.reaction: "MNXR101006" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:35131;Ala-Glu_N Source" - !!omap - id: "r_4400" - name: "Maltodextrin glucosidase (maltotriose)" @@ -103374,6 +104720,7 @@ - metanetx.reaction: "MNXR101619" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05746;alpha-maltotriose_C Source" - !!omap - id: "r_4401" - name: "Ala-Thr transport via proton symport" @@ -103389,6 +104736,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); Ala-Thr_N Source" - !!omap - id: "r_4402" - name: "Ala-Thr transport via proton symport (extracellular to cytosol)" @@ -103405,6 +104753,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); Ala-Thr_N Source" - !!omap - id: "r_4403" - name: "Triphosphate phosphohydrolase" @@ -103424,6 +104773,7 @@ - metanetx.reaction: "MNXR103069" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); rhea:14157;triphosphate_P Source" - !!omap - id: "r_4404" - name: "Gly-Asn transport via proton symport (extracellular to cytosol)" @@ -103440,6 +104790,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); Gly-Asn_N Source" - !!omap - id: "r_4405" - name: "glycerol 1-phosphate transport" @@ -103453,6 +104804,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); glycerol 1-phosphate_P Source" - !!omap - id: "r_4406" - name: "D-O-Phosphoserine transport in/out via proton symport" @@ -103470,6 +104822,7 @@ - metanetx.reaction: "MNXR103244" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05639;O-phosphonatooxy-D-serine(2-)_P Source" - !!omap - id: "r_4407" - name: "D-O-Phosphoserine phosphohydrolase" @@ -103489,6 +104842,7 @@ - metanetx.reaction: "MNXR103265" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:24873;O-phosphonatooxy-D-serine(2-)_P Source" - !!omap - id: "r_4408" - name: "L-alanyl-L-glutamate transport in via proton symport" @@ -103506,6 +104860,7 @@ - metanetx.reaction: "MNXR101006" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); rhea:35131;Ala-Glu_N Source" - !!omap - id: "r_4409" - name: "L-alanyl-gamma-L-glutamate peptidase" @@ -103523,6 +104878,7 @@ - metanetx.reaction: "MNXR101011" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:29335;Ala-Glu_N Source" - !!omap - id: "r_4410" - name: "3-oxalomalate glyoxylate-lyase (oxaloacetate-forming)" @@ -103540,6 +104896,7 @@ - metanetx.reaction: "MNXR106549" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:22032;3-oxalomalate(3-)_C Source" - !!omap - id: "r_4411" - name: "L-cysteate bisulfite-lyase (deaminating)" @@ -103560,6 +104917,7 @@ - metanetx.reaction: "MNXR111236" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:13441;L-cysteate_S Source | model.S(601,3772) curated (PR #222)" - !!omap - id: "r_4412" - name: "cyclic phosphodiesterase" @@ -103578,6 +104936,7 @@ - metanetx.reaction: "MNXR117325" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37211;guanosine 2'-monophosphate_P Source" - !!omap - id: "r_4413" - name: "deoxynucleotide 3'-phosphatase" @@ -103595,6 +104954,7 @@ - metanetx.reaction: "MNXR118741" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37247;thymidine 3'-monophosphate_P Source" - !!omap - id: "r_4414" - name: "cytosol nonspecific dipeptidase" @@ -103612,6 +104972,7 @@ - metanetx.reaction: "MNXR123345" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37275;Ala-Gln_N Source" - !!omap - id: "r_4415" - name: "Cytosol non-specific dipeptidase" @@ -103629,6 +104990,7 @@ - metanetx.reaction: "MNXR123347" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37283;Ala-His_N Source" - !!omap - id: "r_4416" - name: "Cytosol non-specific dipeptidase" @@ -103646,6 +105008,7 @@ - metanetx.reaction: "MNXR123349" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37299;Ala-Thr_N Source" - !!omap - id: "r_4417" - name: "Cytosol non-specific dipeptidase" @@ -103663,6 +105026,7 @@ - metanetx.reaction: "MNXR123350" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37307;Gly-Asn_N Source" - !!omap - id: "r_4418" - name: "Cytosol non-specific dipeptidase" @@ -103680,6 +105044,7 @@ - metanetx.reaction: "MNXR123351" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37315;Gly-Gln_N Source" - !!omap - id: "r_4419" - name: "L-Cysteate transport via proton symport" @@ -103696,6 +105061,7 @@ - metanetx.reaction: "MNXR124424" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12602;L-cysteate_S Source" - !!omap - id: "r_4420" - name: "alpha-glucosidase" @@ -103714,6 +105080,7 @@ - metanetx.reaction: "MNXR130716" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); sabiork:11699;turanose_C Source" - !!omap - id: "r_4421" - name: "2-Hydroxyethanesulfonate transport via proton symport" @@ -103730,6 +105097,7 @@ - metanetx.reaction: "MNXR137058" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12535;2-hydroxyethane-1-sulfonate_S Source" - !!omap - id: "r_4422" - name: "3-Oxalomalate transport via proton symport" @@ -103746,6 +105114,7 @@ - metanetx.reaction: "MNXR137067" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12545;3-oxalomalate(3-)_C Source" - !!omap - id: "r_4423" - name: "Gly-Met transport via proton symport" @@ -103762,6 +105131,7 @@ - metanetx.reaction: "MNXR137072" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12552;Gly-Met_N Source" - !!omap - id: "r_4424" - name: "Gly-Gln transport via proton symport" @@ -103779,6 +105149,7 @@ - metanetx.reaction: "MNXR137074" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12555;Gly-Gln_N Source" - !!omap - id: "r_4425" - name: "Gly-Gln transport via proton symport" @@ -103795,6 +105166,7 @@ - metanetx.reaction: "MNXR137074" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12555;Gly-Gln_N Source" - !!omap - id: "r_4426" - name: "Ala-Gln transport via proton symport" @@ -103811,6 +105183,7 @@ - metanetx.reaction: "MNXR137087" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12568;Ala-Gln_N Source" - !!omap - id: "r_4427" - name: "N-Acetylmethionine transport via proton symport" @@ -103827,6 +105200,7 @@ - metanetx.reaction: "MNXR137089" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12570;N(alpha)-acetyl-L-methionine_S Source" - !!omap - id: "r_4428" - name: "Phosphotyrosine transport via proton symport" @@ -103843,6 +105217,7 @@ - metanetx.reaction: "MNXR137095" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12580;O(4)-phospho-L-tyrosine_P Source" - !!omap - id: "r_4429" - name: "Ala-His transport via proton symport" @@ -103860,6 +105235,7 @@ - metanetx.reaction: "MNXR137107" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12594;Ala-His_N Source" - !!omap - id: "r_4430" - name: "Ala-His transport via proton symport" @@ -103876,6 +105252,7 @@ - metanetx.reaction: "MNXR137107" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12594;Ala-His_N Source" - !!omap - id: "r_4431" - name: "ala-L-asp-L transport via proton symport" @@ -103892,6 +105269,7 @@ - metanetx.reaction: "MNXR137135" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12628;Ala-Asp_N Source" - !!omap - id: "r_4432" - name: "FMNH2-dependent alkanesulfonate monooxygenase" @@ -103914,6 +105292,7 @@ - metanetx.reaction: "MNXR99485" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:29715;2-hydroxyethane-1-sulfonate_S Source | model.S(601,3793) curated (PR #222)" - !!omap - id: "r_4433" - name: "thymidine 3-monophosphate transport" @@ -103927,6 +105306,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); thymidine 3'-monophosphate_P Source" - !!omap - id: "r_4434" - name: "thymidine 5-monophosphate transport" @@ -103940,6 +105320,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); thymidine 5'-monophosphate_P Source" - !!omap - id: "r_4435" - name: "glycerol-1-phosphate phosphohydrolase" @@ -103958,6 +105339,7 @@ - metanetx.reaction: "MNXR112173" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); glycerol 1-phosphate_P Source" - !!omap - id: "r_4436" - name: "nucleotide-specific phosphatase (thymidine 5'-monophosphate)" @@ -103973,6 +105355,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); thymidine 5'-monophosphate_P Source" - !!omap - id: "r_4437" - name: "Gly-Glu transport via proton symport (extracellular to cytosol)" @@ -103989,6 +105372,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); Gly-Glu_N Source" - !!omap - id: "r_4438" - name: "Gly-Glu transport via proton symport (cytosol to vacuole)" @@ -104004,6 +105388,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); Gly-Glu_N Source" - !!omap - id: "r_4439" - name: "cytosol nonspecific dipeptidase" @@ -104021,6 +105406,7 @@ - metanetx.reaction: "MNXR123352" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:36463;Gly-Glu_N Source" - !!omap - id: "r_4440" - name: "L-methionine transport, vacuoluar" @@ -104034,6 +105420,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); L-methionine_N Source" - !!omap - id: "r_4441" - name: "L-threonine transport, vacuoluar" @@ -104047,6 +105434,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); L-threonine_N Source" - !!omap - id: "r_4442" - name: "cysteamine exchange" @@ -104059,6 +105447,7 @@ - annotation: !!omap - bigg.reaction: "EX_cysam_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); cysteamine S-phosphate_P Source" - !!omap - id: "r_4443" - name: "23cGMP transport via diffusion (extracellular to periplasm)" @@ -104073,6 +105462,7 @@ - metanetx.reaction: "MNXR94721" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn07927;2',3'-cyclic GMP_P Source" - !!omap - id: "r_4444" - name: "D-Glycerate 2-phosphate transport in/out via proton symport" @@ -104090,6 +105480,7 @@ - metanetx.reaction: "MNXR94824" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05474;2-phospho-D-glyceric acid_P Source" - !!omap - id: "r_4445" - name: "3-Phospho-D-glycerate transport in/out via proton symport" @@ -104107,6 +105498,7 @@ - metanetx.reaction: "MNXR94973" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05479;3-phosphonato-D-glycerate(3-)_P Source" - !!omap - id: "r_4446" - name: "D-glucose 1-phosphate transport via diffusion" @@ -104121,6 +105513,7 @@ - metanetx.reaction: "MNXR99849" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn08545;D-glucose 1-phosphate_P Source" - !!omap - id: "r_4447" - name: "carbamoyl phosphate nuclear transport via diffusion" @@ -104135,6 +105528,7 @@ - metanetx.reaction: "MNXR96488" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn09823;carbamoyl phosphate_P Source" - !!omap - id: "r_4448" - name: "Met-Ala transport via proton symport (extracellular to cytosol)" @@ -104151,6 +105545,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); Met-Ala_N Source" - !!omap - id: "r_4449" - name: "Met-Ala transport via proton symport (cytosol to vacuole)" @@ -104166,6 +105561,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); Met-Ala_N Source" - !!omap - id: "r_4450" - name: "O-Phospho-L-serine transport in via proton symport" @@ -104183,6 +105579,7 @@ - metanetx.reaction: "MNXR103245" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05640;3-phospho-serine_P Source" - !!omap - id: "r_4451" - name: "GMP transport via proton symport" @@ -104200,6 +105597,7 @@ - metanetx.reaction: "MNXR100385" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05471;GMP_P Source" - !!omap - id: "r_4452" - name: "myo-inositol phosphate transport via diffusion (extracellular to periplasm)" @@ -104214,6 +105612,7 @@ - metanetx.reaction: "MNXR101585" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn08925;myo-inositol hexakisphosphate_P Source" - !!omap - id: "r_4453" - name: "D-glucose 6-phosphate transport" @@ -104228,6 +105627,7 @@ - metanetx.reaction: "MNXR99915" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); bigg:G6Ptex;D-glucose 6-phosphate_P Source | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4454" - name: "UMP transport" @@ -104242,6 +105642,7 @@ - metanetx.reaction: "MNXR105127" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:27926;UMP_P Source" - !!omap - id: "r_4455" - name: "Phosphoenolpyruvate transport in via proton symport" @@ -104259,6 +105660,7 @@ - metanetx.reaction: "MNXR102493" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05630;phosphoenolpyruvate_P Source" - !!omap - id: "r_4456" - name: "Mannose 6-phosphate transport via diffusion (extracellular to periplasm)" @@ -104273,6 +105675,7 @@ - metanetx.reaction: "MNXR101385" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn08880;D-mannose 6-phosphate_P Source" - !!omap - id: "r_4457" - name: "O-Phosphoryl-Ethanolamine transport in via proton symport" @@ -104290,6 +105693,7 @@ - metanetx.reaction: "MNXR135002" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05716;O-phosphoethanolamine_P Source" - !!omap - id: "r_4458" - name: "6-Phospho-D-gluconate transport in/out via proton symport" @@ -104307,6 +105711,7 @@ - metanetx.reaction: "MNXR95102" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05482;6-phospho-D-gluconate_P Source" - !!omap - id: "r_4459" - name: "MAN1P transport in/out via proton symport" @@ -104324,6 +105729,7 @@ - metanetx.reaction: "MNXR101377" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05609;D-mannose 1-phosphate_P Source" - !!omap - id: "r_4460" - name: "Pyrophosphate transport in via proton symport" @@ -104340,6 +105746,7 @@ - metanetx.reaction: "MNXR136667" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn11395;diphosphate_P Source" - !!omap - id: "r_4461" - name: "Choline phosphate intracellular transport" @@ -104355,6 +105762,7 @@ - metanetx.reaction: "MNXR96703" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); choline phosphate_P Source" - !!omap - id: "r_4462" - name: "thiosulfate transport" @@ -104370,6 +105778,7 @@ - metanetx.reaction: "MNXR104966" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:32807;thiosulfate_S Source" - !!omap - id: "r_4463" - name: "AMP transport in/out via proton symport" @@ -104387,6 +105796,7 @@ - metanetx.reaction: "MNXR95831" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05497;AMP_P Source" - !!omap - id: "r_4464" - name: "23cAMP transport via diffusion (extracellular to periplasm)" @@ -104401,6 +105811,7 @@ - metanetx.reaction: "MNXR94718" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn07925;2',3'-cyclic AMP_P Source" - !!omap - id: "r_4465" - name: "Adenosine- 2'-Monophosphate transport in via proton symport" @@ -104417,6 +105828,7 @@ - metanetx.reaction: "MNXR135007" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05721;CMP_P Source" - !!omap - id: "r_4466" - name: "CMP transport in/out via proton symport" @@ -104434,6 +105846,7 @@ - metanetx.reaction: "MNXR96805" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05525;CMP_P Source" - !!omap - id: "r_4467" - name: "D-glucosamine transport via diffusion (extracellular to periplasm)" @@ -104449,6 +105862,7 @@ - metanetx.reaction: "MNXR100035" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn08593;D-Glucosamine_C Source" - !!omap - id: "r_4468" - name: "2-deoxy-D-ribose transport" @@ -104464,6 +105878,7 @@ - bigg.reaction: "DRIBt" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); 2-deoxy-D-ribose_C Source" - !!omap - id: "r_4469" - name: "L-Citrulline transport in via proton symport" @@ -104482,6 +105897,7 @@ - metanetx.reaction: "MNXR96737" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05674;L-citrulline_N Source" - !!omap - id: "r_4470" - name: "Dihydroxyacetone transport via facilitated diffusion" @@ -104497,6 +105913,7 @@ - metanetx.reaction: "MNXR97367" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn05532;glycerone_C Source" - !!omap - id: "r_4471" - name: "Ala-Leu transport via proton symport (extracellular to cytosol)" @@ -104513,6 +105930,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); Ala-Leu_N Source" - !!omap - id: "r_4472" - name: "Ala-Leu transport via proton symport (cytosol to vacuole)" @@ -104528,6 +105946,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); Ala-Leu_N Source" - !!omap - id: "r_4473" - name: "L-alanylglycine transport via proton antiport" @@ -104545,6 +105964,7 @@ - metanetx.reaction: "MNXR137133" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12625;Ala-Gly_N Source" - !!omap - id: "r_4474" - name: "L-alanylglycine transport via proton antiport" @@ -104561,6 +105981,7 @@ - metanetx.reaction: "MNXR137133" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12625;Ala-Gly_N Source" - !!omap - id: "r_4475" - name: "N-acetyl-L-glutamate transport" @@ -104575,6 +105996,7 @@ - bigg.reaction: "ACGLUtd" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); N-acetyl-L-glutamate_N Source" - !!omap - id: "r_4476" - name: "N-acetyl-L-glutamate transport" @@ -104589,6 +106011,7 @@ - bigg.reaction: "ACGLUtm" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); N-acetyl-L-glutamate_N Source" - !!omap - id: "r_4477" - name: "Lipoamide transport via proton symport" @@ -104606,6 +106029,7 @@ - metanetx.reaction: "MNXR137094" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12577;lipoamide_S Source" - !!omap - id: "r_4478" - name: "L-methionine S-oxide transport via diffusion (extracellular)" @@ -104620,6 +106044,7 @@ - metanetx.reaction: "MNXR101483" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn08915;L-Methionine S-oxide_S Source" - !!omap - id: "r_4479" - name: "Gly-Asn transport via proton symport" @@ -104635,6 +106060,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); Gly-Asn_N Source" - !!omap - id: "r_4480" - name: "Cysteamine transport via proton antiport" @@ -104651,6 +106077,7 @@ - metanetx.reaction: "MNXR137130" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); seed:rxn12622;cysteamine S-phosphate_P Source" - !!omap - id: "r_4481" - name: "Hydrogen sulfide oxidation" @@ -104666,6 +106093,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); general sulfur metabolism_S Source" - !!omap - id: "r_4482" - name: "L-alanine transport in via proton symport" @@ -104682,6 +106110,7 @@ - metanetx.reaction: "MNXR95704" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:29443;L-alanine_N Source" - !!omap - id: "r_4483" - name: "Glycine transport (vacuole)" @@ -104698,6 +106127,7 @@ - metanetx.reaction: "MNXR100368" - sbo: "SBO:0000655" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:28899;L-glycine_N Source" - !!omap - id: "r_4484" - name: "O4-succinyl-L-homoserine:hydrogen sulfide S-(3-amino-3-carboxypropyl)transferase; O-succinyl-L-homoserine succinate-lyase (adding hydrogen sulfide)" @@ -104720,6 +106150,7 @@ - metanetx.reaction: "MNXR104382" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); rhea:27826;L-methionine_N Source" - !!omap - id: "r_4485" - name: "4-Hydroxyphenylpyruvate:oxygen oxidoreductase (hydroxylating,decarboxylating)" @@ -104739,6 +106170,7 @@ - metanetx.reaction: "MNXR94843" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:16189;L-tyrosine_N Source" - !!omap - id: "r_4486" - name: "Homogentisate:oxygen 1,2-oxidoreductase (decyclizing)" @@ -104758,6 +106190,7 @@ - metanetx.reaction: "MNXR100628" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:15449;L-tyrosine_N Source" - !!omap - id: "r_4487" - name: "4-Maleylacetoacetate cis-trans-isomerase" @@ -104775,6 +106208,7 @@ - metanetx.reaction: "MNXR101325" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:14817;L-tyrosine_N Source" - !!omap - id: "r_4488" - name: "4-fumarylacetoacetate fumarylhydrolase" @@ -104795,6 +106229,7 @@ - metanetx.reaction: "MNXR99706" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:10244;L-tyrosine_N Source" - !!omap - id: "r_4489" - name: "L-arabinitol:NAD+ 4-oxidoreductase (L-xylulose-forming)" @@ -104815,6 +106250,7 @@ - metanetx.reaction: "MNXR137988" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:16381;D-arabinose_C Source | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4490" - name: "Xylitol:NADP+ 4-oxidoreductase (L-xylulose-forming)" @@ -104835,6 +106271,7 @@ - metanetx.reaction: "MNXR105265" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:17025;D-arabinose_C Source" - !!omap - id: "r_4491" - name: "arabinose reductase (D-arabinose)" @@ -104851,6 +106288,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); D-arabinose_C Source" - !!omap - id: "r_4492" - name: "D-arabinitol:NAT 4-oxidoreductase" @@ -104871,6 +106309,7 @@ - metanetx.reaction: "MNXR95188" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:17921;D-arabinose_C Source" - !!omap - id: "r_4493" - name: "Acetoacetate transport via diffusion" @@ -104886,6 +106325,7 @@ - metanetx.reaction: "MNXR95208" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added after the Biolog update (PR #149); rhea:29751;acetoacetate_C Source" - !!omap - id: "r_4494" - name: "methanol exchange" @@ -104899,6 +106339,7 @@ - bigg.reaction: "EX_meoh_e" - metanetx.reaction: "MNXR101464" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); methyl alpha-D-glucopyranoside_C Source | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4495" - name: "alkaline phosphatase" @@ -104916,6 +106357,7 @@ - metanetx.reaction: "MNXR118733" - sbo: "SBO:0000176" - confidence_score: 1 + - rxnNotes: "added after the Biolog update (PR #149); rhea:37343;adenosine 2'-phosphate_P Source" - !!omap - id: "r_4496" - name: "Ala-Gly exchange" @@ -104928,6 +106370,7 @@ - annotation: !!omap - bigg.reaction: "EX_L_alagly_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Ala-Gly exchange" - !!omap - id: "r_4497" - name: "3-oxalomalate(3-) exchange" @@ -104939,6 +106382,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 3-oxalomalate(3-) exchange" - !!omap - id: "r_4498" - name: "6-O-alpha-D-glucopyranosyl-D-fructofuranose exchange" @@ -104951,6 +106395,7 @@ - annotation: !!omap - bigg.reaction: "EX_pala_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 6-O-alpha-D-glucopyranosyl-D-fructofuranose exchange" - !!omap - id: "r_4499" - name: "5-dehydro-D-gluconate exchange" @@ -104963,6 +106408,7 @@ - annotation: !!omap - bigg.reaction: "EX_5dglcn_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 5-dehydro-D-gluconate exchange" - !!omap - id: "r_4500" - name: "D-tagatose exchange" @@ -104975,6 +106421,7 @@ - annotation: !!omap - bigg.reaction: "EX_tag__D_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-tagatose exchange" - !!omap - id: "r_4501" - name: "turanose exchange" @@ -104986,6 +106433,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); turanose exchange" - !!omap - id: "r_4502" - name: "D-glucose 6-phosphate exchange" @@ -104998,6 +106446,7 @@ - annotation: !!omap - bigg.reaction: "EX_g6p_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-glucose 6-phosphate exchange" - !!omap - id: "r_4503" - name: "alpha-maltotriose exchange" @@ -105010,6 +106459,7 @@ - annotation: !!omap - bigg.reaction: "EX_malttr_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); alpha-maltotriose exchange" - !!omap - id: "r_4504" - name: "D-glucose 1-phosphate exchange" @@ -105022,6 +106472,7 @@ - annotation: !!omap - bigg.reaction: "EX_g1p_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-glucose 1-phosphate exchange" - !!omap - id: "r_4505" - name: "methyl alpha-D-glucopyranoside exchange" @@ -105034,6 +106485,7 @@ - annotation: !!omap - bigg.reaction: "EX_madg_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); methyl alpha-D-glucopyranoside exchange" - !!omap - id: "r_4506" - name: "D-Glucosamine exchange" @@ -105046,6 +106498,7 @@ - annotation: !!omap - bigg.reaction: "EX_gam_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-Glucosamine exchange" - !!omap - id: "r_4507" - name: "glycerone exchange" @@ -105058,6 +106511,7 @@ - annotation: !!omap - bigg.reaction: "EX_dha_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); glycerone exchange" - !!omap - id: "r_4508" - name: "Ala-Gln exchange" @@ -105070,6 +106524,7 @@ - annotation: !!omap - bigg.reaction: "EX_ala_L_gln__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Ala-Gln exchange" - !!omap - id: "r_4509" - name: "Ala-Leu exchange" @@ -105081,6 +106536,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Ala-Leu exchange" - !!omap - id: "r_4510" - name: "Gly-Gln exchange" @@ -105093,6 +106549,7 @@ - annotation: !!omap - bigg.reaction: "EX_gly_gln__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Gly-Gln exchange" - !!omap - id: "r_4511" - name: "Ala-His exchange" @@ -105105,6 +106562,7 @@ - annotation: !!omap - bigg.reaction: "EX_ala_L_his__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Ala-His exchange" - !!omap - id: "r_4512" - name: "Gly-Asn exchange" @@ -105117,6 +106575,7 @@ - annotation: !!omap - bigg.reaction: "EX_gly_asn__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Gly-Asn exchange" - !!omap - id: "r_4513" - name: "Ala-Glu exchange" @@ -105129,6 +106588,7 @@ - annotation: !!omap - bigg.reaction: "EX_LalaLglu_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Ala-Glu exchange" - !!omap - id: "r_4514" - name: "Gly-Met exchange" @@ -105141,6 +106601,7 @@ - annotation: !!omap - bigg.reaction: "EX_gly_met__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Gly-Met exchange" - !!omap - id: "r_4515" - name: "Ala-Asp exchange" @@ -105153,6 +106614,7 @@ - annotation: !!omap - bigg.reaction: "EX_ala_L_asp__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Ala-Asp exchange" - !!omap - id: "r_4516" - name: "Gly-Glu exchange" @@ -105165,6 +106627,7 @@ - annotation: !!omap - bigg.reaction: "EX_gly_glu__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Gly-Glu exchange" - !!omap - id: "r_4517" - name: "Ala-Thr exchange" @@ -105177,6 +106640,7 @@ - annotation: !!omap - bigg.reaction: "EX_ala_L_Thr__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Ala-Thr exchange" - !!omap - id: "r_4518" - name: "Met-Ala exchange" @@ -105189,6 +106653,7 @@ - annotation: !!omap - bigg.reaction: "EX_met_L_ala__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); Met-Ala exchange" - !!omap - id: "r_4519" - name: "L-citrulline exchange" @@ -105201,6 +106666,7 @@ - annotation: !!omap - bigg.reaction: "EX_citr__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-citrulline exchange" - !!omap - id: "r_4520" - name: "2-aminobutanoate exchange" @@ -105213,6 +106679,7 @@ - annotation: !!omap - bigg.reaction: "EX_C02356_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 2-aminobutanoate exchange" - !!omap - id: "r_4521" - name: "choline phosphate exchange" @@ -105225,6 +106692,7 @@ - annotation: !!omap - bigg.reaction: "EX_cholp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); choline phosphate exchange" - !!omap - id: "r_4522" - name: "glycerol 1-phosphate exchange" @@ -105236,6 +106704,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); glycerol 1-phosphate exchange" - !!omap - id: "r_4523" - name: "2-phospho-D-glyceric acid exchange" @@ -105248,6 +106717,7 @@ - annotation: !!omap - bigg.reaction: "EX_2pg_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 2-phospho-D-glyceric acid exchange" - !!omap - id: "r_4524" - name: "GMP exchange" @@ -105260,6 +106730,7 @@ - annotation: !!omap - bigg.reaction: "EX_gmp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); GMP exchange" - !!omap - id: "r_4525" - name: "3-phospho-serine exchange" @@ -105272,6 +106743,7 @@ - annotation: !!omap - bigg.reaction: "EX_pser__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 3-phospho-serine exchange" - !!omap - id: "r_4526" - name: "O-phosphonatooxy-D-serine(2-) exchange" @@ -105284,6 +106756,7 @@ - annotation: !!omap - bigg.reaction: "EX_pser__D_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); O-phosphonatooxy-D-serine(2-) exchange" - !!omap - id: "r_4527" - name: "diphosphate exchange" @@ -105296,6 +106769,7 @@ - annotation: !!omap - bigg.reaction: "EX_ppi_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); diphosphate exchange" - !!omap - id: "r_4528" - name: "triphosphate exchange" @@ -105307,6 +106781,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); triphosphate exchange" - !!omap - id: "r_4529" - name: "phosphoenolpyruvate exchange" @@ -105319,6 +106794,7 @@ - annotation: !!omap - bigg.reaction: "EX_pep_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); phosphoenolpyruvate exchange" - !!omap - id: "r_4530" - name: "N(omega)-phospho-L-arginine exchange" @@ -105331,6 +106807,7 @@ - annotation: !!omap - bigg.reaction: "EX_argp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); N(omega)-phospho-L-arginine exchange" - !!omap - id: "r_4531" - name: "carbamoyl phosphate exchange" @@ -105342,6 +106819,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); carbamoyl phosphate exchange" - !!omap - id: "r_4532" - name: "O-phosphoethanolamine exchange" @@ -105354,6 +106832,7 @@ - annotation: !!omap - bigg.reaction: "EX_ethamp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); O-phosphoethanolamine exchange" - !!omap - id: "r_4533" - name: "cysteamine S-phosphate exchange" @@ -105365,6 +106844,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); cysteamine S-phosphate exchange" - !!omap - id: "r_4534" - name: "guanosine 2'-monophosphate exchange" @@ -105376,6 +106856,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); guanosine 2'-monophosphate exchange" - !!omap - id: "r_4535" - name: "glycerol 2-phosphate(2-) exchange" @@ -105388,6 +106869,7 @@ - annotation: !!omap - bigg.reaction: "EX_glyc2p_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); glycerol 2-phosphate(2-) exchange" - !!omap - id: "r_4536" - name: "3'-GMP exchange" @@ -105400,6 +106882,7 @@ - annotation: !!omap - bigg.reaction: "EX_3gmp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 3'-GMP exchange" - !!omap - id: "r_4537" - name: "2-phosphoglycolate exchange" @@ -105412,6 +106895,7 @@ - annotation: !!omap - bigg.reaction: "EX_2pglyc_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 2-phosphoglycolate exchange" - !!omap - id: "r_4538" - name: "6-phospho-D-gluconate exchange" @@ -105424,6 +106908,7 @@ - annotation: !!omap - bigg.reaction: "EX_6pgc_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 6-phospho-D-gluconate exchange" - !!omap - id: "r_4539" - name: "D-mannose 6-phosphate exchange" @@ -105436,6 +106921,7 @@ - annotation: !!omap - bigg.reaction: "EX_man6p_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-mannose 6-phosphate exchange" - !!omap - id: "r_4540" - name: "2',3'-cyclic GMP exchange" @@ -105448,6 +106934,7 @@ - annotation: !!omap - bigg.reaction: "EX_23cgmp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 2',3'-cyclic GMP exchange" - !!omap - id: "r_4541" - name: "O(4)-phospho-L-tyrosine exchange" @@ -105460,6 +106947,7 @@ - annotation: !!omap - bigg.reaction: "EX_tyrp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); O(4)-phospho-L-tyrosine exchange" - !!omap - id: "r_4542" - name: "O-phospho-L-threonine exchange" @@ -105472,6 +106960,7 @@ - annotation: !!omap - bigg.reaction: "EX_thrp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); O-phospho-L-threonine exchange" - !!omap - id: "r_4543" - name: "3-phosphonato-D-glycerate(3-) exchange" @@ -105484,6 +106973,7 @@ - annotation: !!omap - bigg.reaction: "EX_3pg_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 3-phosphonato-D-glycerate(3-) exchange" - !!omap - id: "r_4544" - name: "adenosine 2'-phosphate exchange" @@ -105495,6 +106985,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); adenosine 2'-phosphate exchange" - !!omap - id: "r_4545" - name: "3'-AMP exchange" @@ -105507,6 +106998,7 @@ - annotation: !!omap - bigg.reaction: "EX_3amp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 3'-AMP exchange" - !!omap - id: "r_4546" - name: "2',3'-cyclic AMP exchange" @@ -105519,6 +107011,7 @@ - annotation: !!omap - bigg.reaction: "EX_23camp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 2',3'-cyclic AMP exchange" - !!omap - id: "r_4547" - name: "D-mannose 1-phosphate exchange" @@ -105531,6 +107024,7 @@ - annotation: !!omap - bigg.reaction: "EX_man1p_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); D-mannose 1-phosphate exchange" - !!omap - id: "r_4548" - name: "AMP exchange" @@ -105543,6 +107037,7 @@ - annotation: !!omap - bigg.reaction: "EX_amp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); AMP exchange" - !!omap - id: "r_4549" - name: "N(alpha)-acetyl-L-methionine exchange" @@ -105555,6 +107050,7 @@ - annotation: !!omap - bigg.reaction: "EX_C02712_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); N(alpha)-acetyl-L-methionine exchange" - !!omap - id: "r_4550" - name: "L-Methionine S-oxide exchange" @@ -105567,6 +107063,7 @@ - annotation: !!omap - bigg.reaction: "EX_metsox_S__L_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-Methionine S-oxide exchange" - !!omap - id: "r_4551" - name: "3-sulfino-L-alanine exchange" @@ -105578,6 +107075,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 3-sulfino-L-alanine exchange" - !!omap - id: "r_4552" - name: "N-acetyl-L-cysteine exchange" @@ -105590,6 +107088,7 @@ - annotation: !!omap - bigg.reaction: "EX_CE1310_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); N-acetyl-L-cysteine exchange" - !!omap - id: "r_4553" - name: "L-cysteate exchange" @@ -105602,6 +107101,7 @@ - annotation: !!omap - bigg.reaction: "EX_Lcyst_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); L-cysteate exchange" - !!omap - id: "r_4554" - name: "2-hydroxyethane-1-sulfonate exchange" @@ -105614,6 +107114,7 @@ - annotation: !!omap - bigg.reaction: "EX_isetac_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 2-hydroxyethane-1-sulfonate exchange" - !!omap - id: "r_4555" - name: "acetoacetate exchange" @@ -105626,6 +107127,7 @@ - annotation: !!omap - bigg.reaction: "EX_acac_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); acetoacetate exchange" - !!omap - id: "r_4556" - name: "N-acetyl-L-glutamate exchange" @@ -105638,6 +107140,7 @@ - annotation: !!omap - bigg.reaction: "EX_acglu_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); N-acetyl-L-glutamate exchange" - !!omap - id: "r_4557" - name: "UMP exchange" @@ -105650,6 +107153,7 @@ - annotation: !!omap - bigg.reaction: "EX_ump_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); UMP exchange" - !!omap - id: "r_4558" - name: "CMP exchange" @@ -105662,6 +107166,7 @@ - annotation: !!omap - bigg.reaction: "EX_cmp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); CMP exchange" - !!omap - id: "r_4559" - name: "thymidine 5'-monophosphate exchange" @@ -105673,6 +107178,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); thymidine 5'-monophosphate exchange" - !!omap - id: "r_4560" - name: "thymidine 3'-monophosphate exchange" @@ -105684,6 +107190,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); thymidine 3'-monophosphate exchange" - !!omap - id: "r_4561" - name: "cytidine 2'-phosphate exchange" @@ -105695,6 +107202,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); cytidine 2'-phosphate exchange" - !!omap - id: "r_4562" - name: "uridine 2'-phosphate exchange" @@ -105706,6 +107214,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); uridine 2'-phosphate exchange" - !!omap - id: "r_4563" - name: "3'-UMP exchange" @@ -105718,6 +107227,7 @@ - annotation: !!omap - bigg.reaction: "EX_3ump_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 3'-UMP exchange" - !!omap - id: "r_4564" - name: "2',3'-cyclic CMP exchange" @@ -105730,6 +107240,7 @@ - annotation: !!omap - bigg.reaction: "EX_23ccmp_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 2',3'-cyclic CMP exchange" - !!omap - id: "r_4565" - name: "2',3'-cyclic UMP exchange" @@ -105742,6 +107253,7 @@ - annotation: !!omap - bigg.reaction: "EX_23cump_e" - sbo: "SBO:0000627" + - rxnNotes: "added after the Biolog update (PR #149); 2',3'-cyclic UMP exchange" - !!omap - id: "r_4567" - name: "6-phosphogluconate phosphatase" @@ -105762,6 +107274,7 @@ - metanetx.reaction: "MNXR123213" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156) | model.S(610,3928) curated (PR #222)" - !!omap - id: "r_4568" - name: "R06790" @@ -105778,6 +107291,7 @@ - metanetx.reaction: "MNXR139469" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156) | MetaNetX ID curated (PR #220)" - !!omap - id: "r_4569" - name: "Carboxylic ester hydrolases" @@ -105799,6 +107313,7 @@ - metanetx.reaction: "MNXR110621" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4570" - name: "phosphoglycerate dehydrogenase" @@ -105819,6 +107334,7 @@ - metanetx.reaction: "MNXR111769" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4571" - name: "seed:rxn00681" @@ -105837,6 +107353,7 @@ - metanetx.reaction: "MNXR134240" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156) | model.S(400,3932) curated (PR #222) | model.S(601,3932) curated (PR #222) | model.S(610,3932) curated (PR #222)" - !!omap - id: "r_4572" - name: "beta-alanine:2-oxoglutarate aminotransferase" @@ -105857,6 +107374,7 @@ - metanetx.reaction: "MNXR95862" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4573" - name: "3-Oxopropanoate:NAD+ oxidoreductase (decarboxylating, CoA-acetylating)" @@ -105881,6 +107399,7 @@ - metanetx.reaction: "MNXR101665" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4574" - name: "3-Oxopropanoate:NADP+ oxidoreductase (decarboxylating, CoA-acetylating)" @@ -105903,6 +107422,7 @@ - metanetx.reaction: "MNXR106650" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4575" - name: "3-oxopropanoate carboxy-lyase" @@ -105923,6 +107443,7 @@ - metanetx.reaction: "MNXR110693" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4581" - name: "(2R,3S)-3-methylmalate:NAD+ oxidoreductase" @@ -105945,6 +107466,7 @@ - metanetx.reaction: "MNXR106779" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4582" - name: "malate/beta-methylmalate synthase" @@ -105964,6 +107486,7 @@ - metanetx.reaction: "MNXR121603" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4583" - name: "palmitoyl-CoA hydrolase" @@ -105986,6 +107509,7 @@ - metanetx.reaction: "MNXR99136" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4584" - name: "long-chain-fatty-acid---CoA ligase" @@ -106007,6 +107531,7 @@ - metanetx.reaction: "MNXR99175" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4585" - name: "a-galactosidase (stachyose)" @@ -106026,6 +107551,7 @@ - metanetx.reaction: "MNXR100010" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4586" - name: "stachyose synthase" @@ -106042,6 +107568,7 @@ - metanetx.reaction: "MNXR122225" - sbo: "SBO:0000176" - confidence_score: 0 + - rxnNotes: "metabolites observed in metabolomics data (PR #156)" - !!omap - id: "r_4587" - name: "Ca(2+) transport" @@ -106059,6 +107586,7 @@ - metanetx.reaction: "MNXR96437" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4588" - name: "chloride transport" @@ -106075,6 +107603,7 @@ - metanetx.reaction: "MNXR96797" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4589" - name: "Cu2(+) transport" @@ -106092,6 +107621,7 @@ - metanetx.reaction: "MNXR126350" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4590" - name: "Mn(2+) transport" @@ -106110,6 +107640,7 @@ - metanetx.reaction: "MNXR101669" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4591" - name: "Zn(2+) transport" @@ -106128,6 +107659,7 @@ - metanetx.reaction: "MNXR105278" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4592" - name: "Mg(2+) transport" @@ -106145,6 +107677,7 @@ - metanetx.reaction: "MNXR101553" - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4593" - name: "chloride exchange" @@ -106157,6 +107690,7 @@ - annotation: !!omap - bigg.reaction: "EX_cl_e" - sbo: "SBO:0000627" + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4594" - name: "Cu2(+) exchange" @@ -106169,6 +107703,7 @@ - annotation: !!omap - bigg.reaction: "EX_cu2_e" - sbo: "SBO:0000627" + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4595" - name: "Mn(2+) exchange" @@ -106181,6 +107716,7 @@ - annotation: !!omap - bigg.reaction: "EX_mn2_e" - sbo: "SBO:0000627" + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4596" - name: "Zn(2+) exchange" @@ -106193,6 +107729,7 @@ - annotation: !!omap - bigg.reaction: "EX_zn2_e" - sbo: "SBO:0000627" + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4597" - name: "Mg(2+) exchange" @@ -106205,20 +107742,21 @@ - annotation: !!omap - bigg.reaction: "EX_mg2_e" - sbo: "SBO:0000627" + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4598" - name: "cofactor pseudoreaction" - metabolites: !!omap - - s_0529: -0.000190000006114 - - s_0687: -9.99999974738e-06 - - s_1198: -0.00264999992214 - - s_1203: -0.000150000007125 - - s_1207: -0.000569999974687 - - s_1212: -0.00270000007004 - - s_1405: -0.000989999971353 - - s_1475: -1.20000004245e-06 - - s_1487: -6.34000025457e-05 - - s_3714: -9.99999997475e-07 + - s_0529: -0.000190000006114133 + - s_0687: -9.99999974737875e-06 + - s_1198: -0.00264999992214143 + - s_1203: -0.000150000007124618 + - s_1207: -0.000569999974686652 + - s_1212: -0.00270000007003546 + - s_1405: -0.000989999971352518 + - s_1475: -1.20000004244503e-06 + - s_1487: -6.34000025456771e-05 + - s_3714: -9.99999997475243e-07 - s_4205: 1 - lower_bound: 0 - upper_bound: 1000 @@ -106227,20 +107765,21 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4599" - name: "ion pseudoreaction" - metabolites: !!omap - - s_0924: -3.04000004689e-05 - - s_1373: -0.00362999993376 - - s_1437: -0.00396999996155 - - s_1467: -0.019999999553 - - s_3778: -0.00129000004381 - - s_3801: -0.00273000006564 - - s_3822: -0.00074799999129 - - s_3880: -0.000216999993427 - - s_4013: -0.00124254298862 - - s_4019: -0.000659000012092 + - s_0924: -3.04000004689442e-05 + - s_1373: -0.00362999993376434 + - s_1437: -0.003969999961555 + - s_1467: -0.0199999995529652 + - s_3778: -0.00129000004380941 + - s_3801: -0.00273000006563962 + - s_3822: -0.000747999991290271 + - s_3880: -0.000216999993426725 + - s_4013: -0.0012425429886207 + - s_4019: -0.000659000012092292 - s_4206: 1 - lower_bound: 0 - upper_bound: 1000 @@ -106249,6 +107788,7 @@ - annotation: !!omap - sbo: "SBO:0000395" - confidence_score: 1 + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4600" - name: "Ca(2+) exchange" @@ -106261,6 +107801,7 @@ - annotation: !!omap - bigg.reaction: "EX_ca2_e" - sbo: "SBO:0000627" + - rxnNotes: "added for BiomassUpdate (PR #174)" - !!omap - id: "r_4601" - name: "3-(4-hydroxyphenyl)pyruvate transport" @@ -106277,6 +107818,7 @@ - metanetx.reaction: "MNXR94845" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn09802; unknown transporter" - !!omap - id: "r_4602" - name: "acetate transport" @@ -106291,6 +107833,7 @@ - metanetx.reaction: "MNXR95431" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); rhea:27814; unknown transporter" - !!omap - id: "r_4603" - name: "ADP-ribose transport" @@ -106306,6 +107849,7 @@ - metanetx.reaction: "MNXR95481" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); unknown transporter" - !!omap - id: "r_4604" - name: "farnesyl diphosphate transport" @@ -106320,6 +107864,7 @@ - metanetx.reaction: "MNXR99646" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn13290; unknown transporter" - !!omap - id: "r_4605" - name: "nicotinate transport" @@ -106336,6 +107881,7 @@ - metanetx.reaction: "MNXR101858" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn12806; unknown transporter" - !!omap - id: "r_4606" - name: "O-phosphoethanolamine transport" @@ -106352,6 +107898,7 @@ - metanetx.reaction: "MNXR135002" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn05716; unknown transporter" - !!omap - id: "r_4607" - name: "phosphate transport" @@ -106367,6 +107914,7 @@ - metanetx.reaction: "MNXR102871" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); rhea:32823; unknown transporter" - !!omap - id: "r_4608" - name: "propionyl-CoA transport" @@ -106387,6 +107935,7 @@ - metanetx.reaction: "MNXR106312" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); unknown transporter" - !!omap - id: "r_4609" - name: "UDP transport" @@ -106402,6 +107951,7 @@ - metanetx.reaction: "MNXR105076" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); unknown transporter" - !!omap - id: "r_4610" - name: "UDP transport" @@ -106417,6 +107967,7 @@ - metanetx.reaction: "MNXR105076" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); unknown transporter" - !!omap - id: "r_4611" - name: "UMP transport" @@ -106431,6 +107982,7 @@ - metanetx.reaction: "MNXR105127" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); rhea:27926; unknown transporter" - !!omap - id: "r_4612" - name: "TRX1 disulphide transport" @@ -106445,6 +107997,7 @@ - metanetx.reaction: "MNXR104921" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn13406; unknown transporter" - !!omap - id: "r_4613" - name: "oleate transport" @@ -106459,6 +108012,7 @@ - metanetx.reaction: "MNXR99110" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); rhea:33655; unknown transporter" - !!omap - id: "r_4614" - name: "(R)-acetoin transport" @@ -106476,6 +108030,7 @@ - metanetx.reaction: "MNXR95426" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); unknown transporter" - !!omap - id: "r_4615" - name: "L-glutamine transport" @@ -106491,6 +108046,7 @@ - metanetx.reaction: "MNXR100259" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn08625; unknown transporter" - !!omap - id: "r_4616" - name: "UMP transport" @@ -106505,6 +108061,7 @@ - metanetx.reaction: "MNXR105127" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); rhea:27926; unknown transporter" - !!omap - id: "r_4617" - name: "S-adenosyl-L-methionine transport" @@ -106520,6 +108077,7 @@ - metanetx.reaction: "MNXR95809" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn09784;unknown transporter" - !!omap - id: "r_4618" - name: "glutathione transport" @@ -106534,6 +108092,7 @@ - metanetx.reaction: "MNXR100449" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn08677; unknown transporter" - !!omap - id: "r_4619" - name: "ATP transport" @@ -106551,6 +108110,7 @@ - metanetx.reaction: "MNXR96123" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); rhea:34999; unknown transporter" - !!omap - id: "r_4620" - name: "D-mannose 6-phosphate transport" @@ -106565,6 +108125,7 @@ - metanetx.reaction: "MNXR101385" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn08880; unknown transporter" - !!omap - id: "r_4621" - name: "O-acetyl-L-serine transport" @@ -106580,6 +108141,7 @@ - metanetx.reaction: "MNXR95416" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); rhea:29659;unknown transporter" - !!omap - id: "r_4622" - name: "hydrogen sulfide transport" @@ -106594,6 +108156,7 @@ - metanetx.reaction: "MNXR100494" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn08689; unknown transporter" - !!omap - id: "r_4623" - name: "L-cysteinylglycine transport" @@ -106610,6 +108173,7 @@ - metanetx.reaction: "MNXR97002" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn05529; unknown transporter" - !!omap - id: "r_4624" - name: "ATP transport" @@ -106627,6 +108191,7 @@ - metanetx.reaction: "MNXR96123" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); rhea:34999; unknown transporter" - !!omap - id: "r_4625" - name: "thiosulfate transport" @@ -106641,6 +108206,7 @@ - metanetx.reaction: "MNXR104966" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); rhea:32807; unknown transporter" - !!omap - id: "r_4626" - name: "sulphite transport" @@ -106655,6 +108221,7 @@ - metanetx.reaction: "MNXR104460" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn09260; unknown transporter" - !!omap - id: "r_4627" - name: "UDP-D-glucose transport" @@ -106669,6 +108236,7 @@ - metanetx.reaction: "MNXR105071" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn09353; unknown transporter" - !!omap - id: "r_4628" - name: "UDP-N-acetyl-alpha-D-glucosamine transport" @@ -106683,6 +108251,7 @@ - metanetx.reaction: "MNXR105021" - sbo: "SBO:0000655" - confidence_score: 0 + - rxnNotes: "added after Gapfilling (PR #185); seed:rxn09342; unknown transporter" - !!omap - id: "r_4629" - name: "alcohol acyltransferase (hexanoyl-CoA)" @@ -106701,6 +108270,7 @@ - kegg.reaction: "R00627" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4630" - name: "alcohol acyltransferase (octanoyl-CoA)" @@ -106719,6 +108289,7 @@ - kegg.reaction: "R00627" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4631" - name: "alcohol acyltransferase (butyryl-CoA)" @@ -106737,6 +108308,7 @@ - kegg.reaction: "R00627" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4632" - name: "alcohol acetyltransferase (hexanol)" @@ -106755,6 +108327,7 @@ - kegg.reaction: "R00627" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4633" - name: "alcohol acyltransferase (decanoyl-CoA)" @@ -106773,6 +108346,7 @@ - kegg.reaction: "R00627" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4634" - name: "ethyl hexanoate transport, mitochondrial" @@ -106786,6 +108360,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4635" - name: "ethyl octanoate transport, mitochondrial" @@ -106799,6 +108374,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4636" - name: "ethyl butanoate transport, mitochondrial" @@ -106812,6 +108388,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4637" - name: "hexyl acetate transport, mitochondrial" @@ -106825,6 +108402,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4638" - name: "ethyl decanoate transport, mitochondrial" @@ -106838,6 +108416,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4639" - name: "ethyl hexanoate transport" @@ -106851,6 +108430,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4640" - name: "ethyl octanoate transport" @@ -106864,6 +108444,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4641" - name: "ethyl butanoate transport" @@ -106877,6 +108458,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4642" - name: "hexyl acetate transport" @@ -106890,6 +108472,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4643" - name: "ethyl decanoate transport" @@ -106903,6 +108486,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4644" - name: "ethyl hexanoate exchange" @@ -106915,6 +108499,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4645" - name: "ethyl octanoate exchange" @@ -106927,6 +108512,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4646" - name: "ethyl butanoate exchange" @@ -106939,6 +108525,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4647" - name: "hexyl acetate exchange" @@ -106951,6 +108538,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4648" - name: "ethyl decanoate exchange" @@ -106963,6 +108551,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4649" - name: "mitochondrial ethanol O-acetyltransferase" @@ -106981,6 +108570,7 @@ - kegg.reaction: "R11957" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4650" - name: "ethyl acetate transport, mitochondrial" @@ -106994,6 +108584,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4651" - name: "pyruvate decarboxylase (aldedyde-forming)" @@ -107012,6 +108603,7 @@ - kegg.reaction: "R00636" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4652" - name: "aldehyde dehydrogenase (1-propanol, NAD)" @@ -107040,6 +108632,7 @@ - kegg.reaction: "R00754" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4653" - name: "aldehyde dehydrogenase (1-propanol, NAD)" @@ -107064,6 +108657,7 @@ - "sce01130" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4654" - name: "aldehyde dehydrogenase (1-propanol, NADP)" @@ -107090,6 +108684,7 @@ - "sce01130" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4655" - name: "1-propyl alcohol transport, mitochondrial" @@ -107103,6 +108698,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4656" - name: "propanal transport, cytosol" @@ -107116,6 +108712,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4657" - name: "1-propyl alcohol transport, cytosol" @@ -107129,6 +108726,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4658" - name: "propanal exchange" @@ -107141,6 +108739,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4659" - name: "propanol exchange" @@ -107153,6 +108752,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4660" - name: "2-oxo acid decarboxylase" @@ -107171,6 +108771,7 @@ - kegg.reaction: "R00636" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4661" - name: "aldehyde dehydrogenase (methionol, NAD)" @@ -107199,6 +108800,7 @@ - kegg.reaction: "R00754" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4662" - name: "aldehyde dehydrogenase (methionol, NAD)" @@ -107223,6 +108825,7 @@ - "sce01130" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4663" - name: "aldehyde dehydrogenase (methionol, NADP)" @@ -107249,6 +108852,7 @@ - "sce01130" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4664" - name: "methionol transport, mitochondrial" @@ -107262,6 +108866,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4665" - name: "methional transport, cytosol" @@ -107275,6 +108880,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4666" - name: "methionol transport, cytosol" @@ -107288,6 +108894,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4667" - name: "methional exchange" @@ -107300,6 +108907,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4668" - name: "methionol exchange" @@ -107312,6 +108920,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4669" - name: "pyruvate decarboxylase (hydroxy-phenyl)" @@ -107329,6 +108938,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4670" - name: "aldehyde dehydrogenase (tyrosol, NAD)" @@ -107356,6 +108966,7 @@ - "sce01130" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4671" - name: "aldehyde dehydrogenase (tyrosol, NAD)" @@ -107380,6 +108991,7 @@ - "sce01130" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4672" - name: "aldehyde dehydrogenase (tyrosol, NADP)" @@ -107406,6 +109018,7 @@ - "sce01130" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4673" - name: "tyrosol transport, mitochondrial" @@ -107419,6 +109032,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4674" - name: "(4-hydroxyphenyl)acetaldehyde transport, cytosol" @@ -107432,6 +109046,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4675" - name: "tyrosol transport, cytosol" @@ -107445,6 +109060,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4676" - name: "(4-hydroxyphenyl)acetaldehyde exchange" @@ -107457,6 +109073,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4677" - name: "tyrosol exchange" @@ -107469,6 +109086,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4678" - name: "aldehyde dehydrogenase" @@ -107494,6 +109112,7 @@ - "sce01130" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4679" - name: "short-chain-fatty-acid-CoA ligase (propionate)" @@ -107518,6 +109137,7 @@ - "sce04146" - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4680" - name: "alcohol acyltransferase (propionyl-CoA)" @@ -107535,6 +109155,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4681" - name: "propionyl-CoA transport, mitochondrial" @@ -107548,6 +109169,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4682" - name: "butyryl-CoA transport, mitochondrial" @@ -107561,6 +109183,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4683" - name: "hexanoyl-CoA transport, mitochondrial" @@ -107574,6 +109197,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4684" - name: "octanoyl-CoA transport, mitochondrial" @@ -107587,6 +109211,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4685" - name: "decanoyl-CoA transport, mitochondrial" @@ -107600,6 +109225,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4686" - name: "propionate transport, cytosol" @@ -107613,6 +109239,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4687" - name: "alcohol acetyltransferase (tyrosol)" @@ -107630,6 +109257,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4688" - name: "tyrosyl acetate transport" @@ -107643,6 +109271,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4689" - name: "tyrosyl acetate exchange" @@ -107655,6 +109284,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4690" - name: "alcohol acetyltransferase (methionol)" @@ -107672,6 +109302,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4691" - name: "methionyl acetate transport" @@ -107685,6 +109316,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4692" - name: "methionyl acetate exchange" @@ -107697,6 +109329,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4693" - name: "alcohol acetyltransferase (propanol)" @@ -107714,6 +109347,7 @@ - annotation: !!omap - sbo: "SBO:0000176" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4694" - name: "propyl acetate transport" @@ -107727,6 +109361,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4695" - name: "propyl acetate exchange" @@ -107739,6 +109374,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4697" - name: "ethyl propionate transport, mitochondrial" @@ -107752,6 +109388,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4698" - name: "ethyl propionate transport" @@ -107766,6 +109403,7 @@ - annotation: !!omap - sbo: "SBO:0000655" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4699" - name: "ethyl propionate exchange" @@ -107778,6 +109416,7 @@ - annotation: !!omap - sbo: "SBO:0000627" - confidence_score: 2 + - rxnNotes: "added for FA ester pathways (PR #190)" - !!omap - id: "r_4700" - name: "hydrogen sulfide transport" @@ -107792,6 +109431,7 @@ - "Transport[c, e]" - annotation: !!omap - sbo: "SBO:0000655" + - rxnNotes: "Sulfur volatiles curation (PR #296)" - !!omap - id: "r_4701" - name: "L-cysteine hydrogen-sulfide-lyase (deaminating; pyruvate-forming)" @@ -107812,6 +109452,7 @@ - kegg.pathway: "sce00280" - kegg.reaction: "R00782" - sbo: "SBO:0000176" + - rxnNotes: "Sulfur volatiles curation (PR #296)" - !!omap - id: "r_4702" - name: "L-cysteine:2-oxoglutarate aminotransferase" @@ -107830,6 +109471,7 @@ - kegg.pathway: "sce00280" - kegg.reaction: "R00896" - sbo: "SBO:0000176" + - rxnNotes: "Sulfur volatiles curation (PR #296)" - !!omap - id: "r_4703" - name: "3-mercaptopyruvate sulfurtransferase" @@ -107849,6 +109491,7 @@ - annotation: !!omap - kegg.reaction: "R03105" - sbo: "SBO:0000176" + - rxnNotes: "Sulfur volatiles curation (PR #296)" - !!omap - id: "r_4704" - name: "alkanesulfonate transport" @@ -107863,6 +109506,7 @@ - "Transport[c, e]" - annotation: !!omap - sbo: "SBO:0000655" + - rxnNotes: "Sulfur volatiles curation (PR #296)" - !!omap - id: "r_4705" - name: "taurocholate transport" @@ -107877,6 +109521,7 @@ - "Transport[c, e]" - annotation: !!omap - sbo: "SBO:0000655" + - rxnNotes: "Sulfur volatiles curation (PR #296)" - !!omap - id: "r_4706" - name: "alkanesulfonate dioxygenase" @@ -107896,6 +109541,7 @@ - "Sulfur metabolism" - annotation: !!omap - sbo: "SBO:0000176" + - rxnNotes: "Sulfur volatiles curation (PR #296)" - !!omap - id: "r_4707" - name: "trithionate thiosulfohydrolase" @@ -107913,6 +109559,7 @@ - annotation: !!omap - kegg.reaction: "R01930" - sbo: "SBO:0000176" + - rxnNotes: "Sulfur volatiles curation (PR #296)" - !!omap - id: "r_4708" - name: "hydrogen sulfide exchange" @@ -107925,6 +109572,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "Sulfur volatiles curation (PR #296)" - !!omap - id: "r_4709" - name: "alkanesulfonate exchange" @@ -107937,6 +109585,7 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "Sulfur volatiles curation (PR #296)" - !!omap - id: "r_4710" - name: "taurocholate exchange" @@ -107949,6 +109598,609 @@ - "Exchange reaction" - annotation: !!omap - sbo: "SBO:0000627" + - rxnNotes: "Sulfur volatiles curation (PR #296)" + - !!omap + - id: "r_4711" + - name: "ethyl-(2S)-lactate esterase, c" + - metabolites: !!omap + - s_0063: -1 + - s_0680: -1 + - s_0794: -1 + - s_0803: 1 + - s_4271: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR126C" + - eccodes: "3.1.-.-" + - references: "10.1006/fmic.1999.0272; 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4712" + - name: "ethyl-(2R)-lactate esterase, c" + - metabolites: !!omap + - s_0025: -1 + - s_0680: -1 + - s_0794: -1 + - s_0803: 1 + - s_4273: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR126C" + - eccodes: "3.1.-.-" + - references: "10.1006/fmic.1999.0272; 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4713" + - name: "diethyl-succinate esterase, c" + - metabolites: !!omap + - s_0680: -2 + - s_0794: -2 + - s_0803: 2 + - s_1458: -1 + - s_4274: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR126C" + - eccodes: "3.1.-.-" + - references: "10.1016/S0889-1575(03)00021-8; 10.1006/fmic.1999.0272; 10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4714" + - name: "monoethyl-succinate esterase, c" + - metabolites: !!omap + - s_0680: -1 + - s_0794: -1 + - s_0803: 1 + - s_1458: -1 + - s_4276: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR126C" + - eccodes: "3.1.-.-" + - references: "10.1016/S0889-1575(03)00021-8; 10.1038/s41598-022-16554-z" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4715" + - name: "ethyl-benzoate esterase, c" + - metabolites: !!omap + - s_0680: -1 + - s_0794: -1 + - s_0803: 1 + - s_3874: -1 + - s_4278: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR126C" + - eccodes: "3.1.-.-" + - references: "10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4716" + - name: "ethyl-pyruvate esterase, c" + - metabolites: !!omap + - s_0680: -1 + - s_0794: -1 + - s_0803: 1 + - s_1399: -1 + - s_4280: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR126C" + - eccodes: "3.1.-.-" + - references: "10.1006/fmic.1999.0272; 10.1038/s41598-022-16554-z" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4717" + - name: "benzyl-acetate esterase, c" + - metabolites: !!omap + - s_0362: -1 + - s_0794: -1 + - s_0803: 1 + - s_3799: -1 + - s_4288: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR126C" + - eccodes: "3.1.-.-" + - references: "10.1016/j.aca.2009.09.040; 10.1038/s41598-022-16554-z" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4718" + - name: "isobutyraldehyde dehydrogenase, c" + - metabolites: !!omap + - s_0794: 2 + - s_0803: -1 + - s_0937: -1 + - s_1198: -1 + - s_1203: 1 + - s_4285: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR374W or YPL061W" + - eccodes: "1.2.1.3" + - references: "10.1042/BSR20160529" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - kegg.reaction: "R00538" + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4719" + - name: "2-methylbutanal dehydrogenase, c" + - metabolites: !!omap + - s_0166: -1 + - s_0794: 2 + - s_0803: -1 + - s_1198: -1 + - s_1203: 1 + - s_4282: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR374W or YPL061W" + - eccodes: "1.2.1.3" + - references: "10.1042/BSR20160529" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - kegg.reaction: "R00538" + - sbo: "SBO:0000176" + - confidence_score: 1 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4720" + - name: "ethyl-isobutyrate esterase, c" + - metabolites: !!omap + - s_0680: -1 + - s_0794: -1 + - s_0803: 1 + - s_4285: -1 + - s_4286: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR126C" + - eccodes: "3.1.-.-" + - references: "10.1038/s41598-022-16554-z" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4721" + - name: "ethyl-2-methylbutyrate esterase, c" + - metabolites: !!omap + - s_0680: -1 + - s_0794: -1 + - s_0803: 1 + - s_4282: -1 + - s_4283: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YOR126C" + - eccodes: "3.1.-.-" + - references: "10.1038/s41598-022-16554-z" + - subsystem: + - "Fatty acid ester pathway" + - annotation: !!omap + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4722" + - name: "polyphosphate polymerase, c" + - metabolites: !!omap + - s_0434: -2 + - s_0794: 1 + - s_0803: -1 + - s_4290: 1 + - lower_bound: 0 + - upper_bound: 1000 + - gene_reaction_rule: "YJL012C" + - eccodes: "2.7.4.1" + - references: "10.1126/science.1168120; 10.3390/biology10060487" + - subsystem: + - "Oxidative phosphorylation" + - annotation: !!omap + - kegg.reaction: "R02184" + - sbo: "SBO:0000176" + - confidence_score: 3 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4723" + - name: "polyphosphate phosphohydrolase, v" + - metabolites: !!omap + - s_0802: 1 + - s_0810: -1 + - s_1329: 2 + - s_4290: -1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YHR201C or YDR452W" + - eccodes: + - "3.6.1.10" + - "3.6.1.11" + - references: "10.1007/s10540-006-9003-2" + - subsystem: + - "Oxidative phosphorylation" + - annotation: !!omap + - kegg.reaction: "R03042" + - metanetx.reaction: "MNXR107906" + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4724" + - name: "polyphosphate phosphohydrolase, m" + - metabolites: !!omap + - s_0799: 1 + - s_0807: -1 + - s_1326: 2 + - s_4291: -1 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YHR201C or YDR452W" + - eccodes: + - "3.6.1.10" + - "3.6.1.11" + - references: "10.1016/0014-5793(89)80882-8; 10.1023/a:1023648509241" + - subsystem: + - "Oxidative phosphorylation" + - annotation: !!omap + - kegg.reaction: "R03042" + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4725" + - name: "polyphosphate phosphohydrolase, n" + - metabolites: !!omap + - s_0800: 1 + - s_0808: -1 + - s_4292: -1 + - s_4293: 2 + - lower_bound: -1000 + - upper_bound: 1000 + - gene_reaction_rule: "YHR201C or YDR452W" + - eccodes: + - "3.6.1.10" + - "3.6.1.11" + - references: "10.1002/yea.1391; 10.1007/s10540-006-9003-2" + - subsystem: + - "Oxidative phosphorylation" + - annotation: !!omap + - kegg.reaction: "R03042" + - sbo: "SBO:0000176" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4726" + - name: "ethyl-(2S)-lactate transport" + - metabolites: !!omap + - s_4270: 1 + - s_4271: -1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, e]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4727" + - name: "ethyl-(2S)-lactate exchange" + - metabolites: !!omap + - s_4270: -1 + - lower_bound: 0 + - upper_bound: 1000 + - subsystem: + - "Exchange reaction" + - annotation: !!omap + - sbo: "SBO:0000627" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4728" + - name: "ethyl-(2R)-lactate transport" + - metabolites: !!omap + - s_4272: 1 + - s_4273: -1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, e]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4729" + - name: "ethyl-(2R)-lactate exchange" + - metabolites: !!omap + - s_4272: -1 + - lower_bound: 0 + - upper_bound: 1000 + - subsystem: + - "Exchange reaction" + - annotation: !!omap + - sbo: "SBO:0000627" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4730" + - name: "diethyl-succinate transport" + - metabolites: !!omap + - s_4274: -1 + - s_4275: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, e]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4731" + - name: "diethyl-succinate exchange" + - metabolites: !!omap + - s_4275: -1 + - lower_bound: 0 + - upper_bound: 1000 + - subsystem: + - "Exchange reaction" + - annotation: !!omap + - sbo: "SBO:0000627" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4732" + - name: "monoethyl-succinate transport" + - metabolites: !!omap + - s_4276: -1 + - s_4277: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, e]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4733" + - name: "monoethyl-succinate exchange" + - metabolites: !!omap + - s_4277: -1 + - lower_bound: 0 + - upper_bound: 1000 + - subsystem: + - "Exchange reaction" + - annotation: !!omap + - sbo: "SBO:0000627" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4734" + - name: "ethyl-benzoate transport" + - metabolites: !!omap + - s_4278: -1 + - s_4279: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, e]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4735" + - name: "ethyl-benzoate exchange" + - metabolites: !!omap + - s_4279: -1 + - lower_bound: 0 + - upper_bound: 1000 + - subsystem: + - "Exchange reaction" + - annotation: !!omap + - sbo: "SBO:0000627" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4736" + - name: "ethyl-pyruvate transport" + - metabolites: !!omap + - s_4280: -1 + - s_4281: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, e]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4737" + - name: "ethyl-pyruvate exchange" + - metabolites: !!omap + - s_4281: -1 + - lower_bound: 0 + - upper_bound: 1000 + - subsystem: + - "Exchange reaction" + - annotation: !!omap + - sbo: "SBO:0000627" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4738" + - name: "benzyl-acetate transport" + - metabolites: !!omap + - s_4288: -1 + - s_4289: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, e]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4739" + - name: "benzyl-acetate exchange" + - metabolites: !!omap + - s_4289: -1 + - lower_bound: 0 + - upper_bound: 1000 + - subsystem: + - "Exchange reaction" + - annotation: !!omap + - sbo: "SBO:0000627" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4740" + - name: "ethyl-isobutyrate transport" + - metabolites: !!omap + - s_4286: -1 + - s_4287: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, e]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4741" + - name: "ethyl-isobutyrate exchange" + - metabolites: !!omap + - s_4287: -1 + - lower_bound: 0 + - upper_bound: 1000 + - subsystem: + - "Exchange reaction" + - annotation: !!omap + - sbo: "SBO:0000627" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4742" + - name: "ethyl-2-methylbutyrate transport" + - metabolites: !!omap + - s_4283: -1 + - s_4284: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, e]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4743" + - name: "ethyl-2-methylbutyrate exchange" + - metabolites: !!omap + - s_4284: -1 + - lower_bound: 0 + - upper_bound: 1000 + - subsystem: + - "Exchange reaction" + - annotation: !!omap + - sbo: "SBO:0000627" + - confidence_score: 2 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4744" + - name: "polyphosphate transport, v-c" + - metabolites: !!omap + - s_0794: 1 + - s_0802: -1 + - s_4018: 1 + - s_4290: -1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, v]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 1 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4745" + - name: "polyphosphate transport, c-m" + - metabolites: !!omap + - s_0794: -1 + - s_0799: 1 + - s_4018: -1 + - s_4291: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, m]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 1 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" + - !!omap + - id: "r_4746" + - name: "polyphosphate transport, c-n" + - metabolites: !!omap + - s_0794: -1 + - s_0800: 1 + - s_4018: -1 + - s_4292: 1 + - lower_bound: -1000 + - upper_bound: 1000 + - subsystem: + - "Transport [c, n]" + - annotation: !!omap + - sbo: "SBO:0000655" + - confidence_score: 1 + - rxnNotes: "Volatile esters and polyphosphate curation (PR #337)" - genes: - !!omap - id: "Q0045" @@ -108181,7 +110433,7 @@ - annotation: !!omap - kegg.genes: "sce:YBR128C" - ncbigene: "852425" - - ncbiprotein: "NP_009686 " + - ncbiprotein: "NP_009686" - refseq: "NM_001178476" - uniprot: "P38270" - !!omap @@ -109294,7 +111546,7 @@ - annotation: !!omap - kegg.genes: "sce:YGR038W" - ncbigene: "852926" - - ncbiprotein: "NP_011552 " + - ncbiprotein: "NP_011552" - refseq: "NM_001181167" - uniprot: "P53224" - !!omap @@ -109753,6 +112005,15 @@ - !!omap - id: "YJL005W" - name: "CYR1" + - !!omap + - id: "YJL012C" + - name: "VTC4" + - annotation: !!omap + - kegg.genes: "sce:YJL012C" + - ncbigene: "853441" + - ncbiprotein: "NP_012522" + - refseq: "NM_001181446" + - uniprot: "P47075" - !!omap - id: "YJL026W" - name: "RNR2" @@ -110332,7 +112593,7 @@ - annotation: !!omap - kegg.genes: "sce:YLR211C" - ncbigene: "850908" - - ncbiprotein: "NP_013312 " + - ncbiprotein: "NP_013312" - refseq: "NM_001182098" - uniprot: "Q05789" - !!omap @@ -110413,7 +112674,7 @@ - annotation: !!omap - kegg.genes: "sce:YLR350W" - ncbigene: "851064" - - ncbiprotein: "NP_013454 " + - ncbiprotein: "NP_013454" - refseq: "NM_001182239" - uniprot: "Q06144" - !!omap @@ -111158,7 +113419,7 @@ - ecogene: "2.3.1.258" - kegg.genes: "sce:YOR253W" - ncbigene: "854427" - - ncbiprotein: "NP_014896 " + - ncbiprotein: "NP_014896" - refseq: "NM_001183672" - uniprot: "Q08689" - !!omap diff --git a/version.txt b/version.txt deleted file mode 100644 index 0431022f..00000000 --- a/version.txt +++ /dev/null @@ -1 +0,0 @@ -8.6.2 \ No newline at end of file