Main Page

hosted by

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... Sst Included in psico This command or function is available from psico, which is a PyMOL extension. Module psico.editing sst is a wrapper for the SST secondary structural assignment web service. The command updates PyMOL's ss atom property. SST does minimum message length inference of secondary structure based on C-alpha atom positions. Usage sst [ selection [, raw [, state ]]] Arguments selection = str: atom selection {default: all} raw = str: atom property to assign the sst secondary structure type to. This type will also be translated to PyMOL's H/S/L types and assiged to the ss property {default: } state = int: object state {default: -1 (current state)} Example import psico.editing fetch 1ubq, async=0 sst all, raw=custom as cartoon color gray spectrum custom, selection=guide set cartoon_discrete_colors, 1 label guide, custom See Also dssp dss

A Random PyMOL-generated Cover. See Covers.