Main Page

Welcome to the PyMOL Wiki!

The community-run support site for the PyMOL molecular viewer.

New accounts: email jason (dot) vertrees (@) gmail dot com

Quick Links

Tutorials	Table of Contents	Commands
Script Library	Plugins	FAQ
Gallery | Covers	PyMOL Cheat Sheet (PDF)	Getting Help

News & Updates New Plugin LiSiCA is a new plugin for 2D and 3D ligand based virtual screening using a fast maximum clique algorithm. Official Release PyMOL v1.8.0 has been released on Nov 18, 2015. PyMOL Open-Source Fellowship Schrödinger is now accepting applications for the PyMOL Open-Source Fellowship program! Details on http://pymol.org/fellowship Official Release PyMOL, AxPyMOL, and JyMOL v1.7.6 have all been released on May 4, 2015. New Plugin PyANM is a new plugin for easier Anisotropic Network Model (ANM) building and visualising in PyMOL. New Plugin Bondpack is a collection of PyMOL plugins for easy visualization of atomic bonds. New Plugin MOLE 2.0 is a new plugin for rapid analysis of biomacromolecular channels in PyMOL. 3D using Geforce PyMOL can now be visualized in 3D using Nvidia GeForce video cards (series 400+) with 120Hz monitors and Nvidia 3D Vision, this was previously only possible with Quadro video cards. Older News See Older News.

Did you know... AutoMultiFit = OVERVIEW = AutoMultiFit will fit all given chain(s) in all given state(s) to any other given chain(s) in any other given state(s) for some given selection within a homo-oligomer. So, if you have an MD trajectory or NMR ensemble of a tertramer, for example, over 20 states this program could calculate the RMS values for residues 10-30 in chain A's state 17, against all of chain C. Or all states in all chains against each other. See the notes in the code for usage. The Code <source lang="python"> autoMultiFit.py -- Given a homo-oligomer in N-states, fit any combination of chains across states AUTHOR: Jason Vertrees DATE  : 2009-11-02 import pymol from pymol import cmd def autoMultiFit(sel, fromChain="*", fromState="*", toChain="*", toState="*", verbose=None): """ FUNCTION Given a homo-oligomer in N-states (say from MD), fit any combination of chains/selections across states. See Usage, Examples and Notes. USAGE autoMultiFit sel, ..→

A Random PyMOL-generated Cover. See Covers.