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as_domain_profiles.sql
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CREATE TABLE antismash.as_domain_profiles (
as_domain_profile_id serial NOT NULL,
name text NOT NULL,
description text NOT NULL,
database text NOT NULL,
type text,
CONSTRAINT as_domain_profiles_pkey PRIMARY KEY (as_domain_profile_id)
);
COMMENT ON TABLE antismash.as_domain_profiles IS
'A functional secondary metabolite domain profile predicted by antiSMASH';
INSERT INTO antismash.as_domain_profiles (name, description, database, type)
VALUES
('Beta_elim_lyase', 'Beta-eliminating lyase', 'nrpspksdomains.hmm', NULL),
('Condensation', 'Condensation domain', 'nrpspksdomains.hmm', 'condensation'),
('Condensation_DCL', 'Condensation domain that links L-amino acid to peptide ending with D-amino acid', 'nrpspksdomains.hmm', 'condensation'),
('Condensation_LCL', 'Condensation domain that links L-amino acid to peptide ending with L-amino acid', 'nrpspksdomains.hmm', 'condensation'),
('Condensation_Dual', 'Dual condensation/epimerization domain', 'nrpspksdomains.hmm', 'condensation'),
('Condensation_Starter', 'Starter condensation domain', 'nrpspksdomains.hmm', 'condensation'),
('X', 'Glycopeptide-specific NRPS domain responsible for oxygenase recruitment', 'nrpspksdomains.hmm', NULL),
('Cglyc', 'Glycopeptide condensation domain', 'nrpspksdomains.hmm', 'condensation'),
('Heterocyclization', 'Heterocyclization domain', 'nrpspksdomains.hmm', NULL),
('Epimerization', 'Epimerization domain', 'nrpspksdomains.hmm', NULL),
('ACPS', '4''-phosphopantetheinyl transferase', 'nrpspksdomains.hmm', NULL),
('MT', 'methyl transferase', 'nrpspksdomains.hmm', 'methyl transferase'),
('cMT', 'C-methyl transferase', 'nrpspksdomains.hmm', 'methyl transferase'),
('oMT', 'O-methyl transferase', 'nrpspksdomains.hmm', 'methyl transferase'),
('nMT', 'N-methyl transferase', 'nrpspksdomains.hmm', 'methyl transferase'),
('AMP-binding', 'Adenylation domain', 'nrpspksdomains.hmm', 'adenylation'),
('A-OX', 'Adenylation domain with integrated oxidase', 'nrpspksdomains.hmm', 'adenylation'),
('TauD', 'Taurine catabolism dioxygenase TauD, TfdA family', 'nrpspksdomains.hmm', NULL),
('cAT', 'Cyclising acyltransferase, similar function to a thioesterase', 'nrpspksdomains.hmm', NULL),
('Thioesterase', 'Thioesterase domain', 'nrpspksdomains.hmm', NULL),
('TD', 'Terminal reductase domain', 'nrpspksdomains.hmm', NULL),
('Aminotran_1_2', 'Aminotransferase class I + II', 'nrpspksdomains.hmm', 'aminotransferase'),
('Aminotran_3', 'Aminotransferase class III', 'nrpspksdomains.hmm', 'aminotransferase'),
('Aminotran_4', 'Aminotransferase class IV', 'nrpspksdomains.hmm', 'aminotransferase'),
('Aminotran_5', 'Aminotransferase class V', 'nrpspksdomains.hmm', 'aminotransferase'),
('PKS_KS', 'Ketosynthase domain', 'nrpspksdomains.hmm', NULL),
('PKS_KR', 'Ketoreductase domain', 'nrpspksdomains.hmm', NULL),
('PKS_ER', 'Enoylreductase domain', 'nrpspksdomains.hmm', NULL),
('PKS_DH', 'Dehydrogenase domain', 'nrpspksdomains.hmm', NULL),
('PKS_DH2', 'Dehydrogenase-2 domain', 'nrpspksdomains.hmm', NULL),
('PKS_DHt', 'Dehydrogenase domain more commonly found in Trans-AT clusters', 'nrpspksdomains.hmm', NULL),
('PKS_AT', 'Acyltransferase domain', 'nrpspksdomains.hmm', NULL),
('NRPS-COM_Nterm', 'NRPS COM domain N-terminal', 'nrpspksdomains.hmm', NULL),
('NRPS-COM_Cterm', 'NRPS COM domain C-terminal', 'nrpspksdomains.hmm', NULL),
('Polyketide_cyc', 'Polyketide cyclase', 'nrpspksdomains.hmm', NULL),
('Polyketide_cyc2', 'Polyketide cyclase/dehydratase', 'nrpspksdomains.hmm', NULL),
('PKS_Docking_Nterm', 'PKS N-terminal docking domain', 'nrpspksdomains.hmm', NULL),
('PKS_Docking_Cterm', 'PKS C-terminal docking domain', 'nrpspksdomains.hmm', NULL),
('CAL_domain', 'Co-enzyme A ligase domain', 'nrpspksdomains.hmm', NULL),
('SAT', 'Starter unit ACP transacylase domain', 'nrpspksdomains.hmm', NULL),
('Trans-AT_docking', 'Trans-acyltransferase docking domain', 'nrpspksdomains.hmm', NULL),
('ACP', 'Acyl-carrier protein domain', 'nrpspksdomains.hmm', 'transporter'),
('PCP', 'Peptidyl-carrier protein domain', 'nrpspksdomains.hmm', 'transporter'),
('PP-binding', 'Phosphopantetheine attachment site, thiolation domain', 'nrpspksdomains.hmm', 'transporter'),
('PKS_PP', 'Phosphopantetheine acyl carrier protein group', 'nrpspksdomains.hmm', 'transporter'),
('NAD_binding_4', 'Male sterility protein', 'nrpspksdomains.hmm', NULL),
('ACP_beta', 'beta-branching acyl-carrier protein domain', 'nrpspksdomains.hmm', 'transporter'),
('B', 'branching domain', 'nrpspksdomains.hmm', NULL),
('F', 'Formylation domain', 'nrpspksdomains.hmm', NULL),
('FkbH', 'FkbH-like domain', 'nrpspksdomains.hmm', NULL),
('GNAT', 'GNAT domain', 'nrpspksdomains.hmm', NULL),
('Hal', 'Halogenase domain', 'nrpspksdomains.hmm', NULL),
('PS', 'Pyran synthase domain', 'nrpspksdomains.hmm', NULL),
('PT', 'Fungal nonreducing product template domain', 'nrpspksdomains.hmm', NULL),
('TIGR01720', 'NRPS_para261: non-ribosomal peptide synthase domain', 'nrpspksdomains.hmm', NULL),
('ECH', 'Enoyl-CoA hydratase/isomerase', 'nrpspksdomains.hmm', NULL),
('LPG_synthase_C', 'Phosphatidylglycerol lysyltransferase, C-terminal', 'nrpspksdomains.hmm', NULL),
('TIGR02353', 'NRPS terminal domain of unknown function', 'nrpspksdomains.hmm', NULL);