Main Page

Welcome to the PyMOL Wiki!

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

To request a new account, email SBGrid at: accounts (@) sbgrid dot org

Quick Links

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

News & Updates Official Release PyMOL v1.8.4 has been released on October 4, 2016. New Script dssr_block is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons 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... ToGroup Type Python Script Download scripts/togroup.py Author(s) Jason Vertrees License - This code has been put under version control in the project Pymol-script-repo Overview toGroup will convert a multistate object into a group of single-state objects. Be warned, by default it deletes your original object (since it's extracting a copy). PyMOL does a great job at handling multistate objects and grouping them together. One thing that I found myself doing over and over again was loading a multistate object (say a PDBQT file with 100 ligand poses) splitting that object into all 100 states, with some given prefix then grouping them into their own group and then finally removing the original. This became tedious, so I automated that with this script. Examples # A multistate object (20 NMR states) fetch 1nmr # Create the group called, "nmrEnsemble" # from '1nmr' and name all the new states state1, # state2, state3, etc. toGroup nmrEnsemble, 1nmr, prefix=state The Code <source lang="python"> import ..→

A Random PyMOL-generated Cover. See Covers.