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)	GoogleSearch

News & Updates Official Release PyMOL, AxPyMOL, and JyMO v1.7 have all been released today, January 14, 2014. 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. New Plugin GROMACS_Plugin is a new plugin that ties together PyMOL and GROMACS. New Software CMPyMOL is a software that interactively visualizes 2D contact maps of proteins in PyMOL. New Script cgo_arrow draws an arrow between two picked atoms. Tips & Tricks Instructions for generating movie PDFs using .mpg movies from PyMOL. Older News See Older News.

Did you know... APBS APBS-generated electrostatic surface displayed in PyMOL APBS, the Adaptive Poisson-Boltzmann Solver, is a freely available macromolecular electrostatics calculation program released under a BSD license. PyMOL can display the results of the calculations as an electrostatic potential molecular surface. APBS Plugins for PyMOL APBS Electrostatics Plugin, included in Incentive PyMOL 2.0 APBS Tools 2.1, based on the original version by Michael Lerner. Both plugins make it possible to run APBS from within PyMOL, and then display the results as a color-coded electrostatic surface (units $K_{b}T/e_{c}$) in the molecular display window (as with the image to the right). Required Dependencies The plugins require apbs and pdb2pqr. Incentive PyMOL ships ..→

A Random PyMOL-generated Cover. See Covers.