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