fleishman_pymol

a repository for fleishman pymol scripts and stuff

please add your functions here: if you're not sure how, it's the same as the rosetta wiki (markdown).

structure analysis functions:

interface_analyse

input: object name, and distance (pido), with 10A as default
action: turns all to cartoon, and interface to lines. shows interface h.bonds, and cavities.
location: pymol_stuff/pymol_scripts/pymol_interface_analyser.py

interface_analyser_with_surface

inut object name, distance cutoff and chosen chain
same as interface_analyse just that the chosen chain (default A) is showen as surface, and no cavities

interface_analyse_multi

input: distance (pido), default 10A
perfmorms interface_analyse on all loaded objects. hides all but the first object and its h.bonds
location: pymol_stuff/pymol_scripts/pymol_interface_analyser.py

show hot-spot

shows spheres for adjacent atoms. selection without transperancy, surrounding atoms with
input: dist cutoff for 'around', default is 4 and selection (default sele)
output: shows selection in spheres, and sourrounding in transperant spheres
hot-key: ALT H
hot-key to turn off: ALT G

sequence related functions

get_chain_sequence

inout the selected object in pymol
output fasta sequence for the selection's chain

get_object_sequence

inout: the selected object in pymol
output:the object's sequence