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 Plugin Update MOLE 2.5 is an updated version of channel analysis software in PyMOL Official Release PyMOL v1.8.6 has been released on March 9, 2017. 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... Renumber Type Python Module Download renumber.py Author(s) Thomas Holder License BSD-2-Clause This code has been put under version control in the project Pymol-script-repo renumber sets new residue numbers (resi) for a polymer based on connectivity. Example This examples takes a pdb structure with insertion codes and sets a new, linear numbering based on Q8N2U3_HUMAN. fetch 1h4w, async=0 # move everything which is not polymer to another chain alter not polymer, chain="B" # renumber polymer, first 27 residues of Q8N2U3_HUMAN missing. renumber chain A, 28 This example fixes numbering after concatenating two chains with fuse. Note that the cartoon representation and the sequence viewer need sorting to display correctly. fab ACDEFG, chain1 fab HIKLMN, chain2 disable chain1 as cartoon fuse last (chain1 and name C), first (chain2 and name N) renumber chain2 sort chain2 == ..→

A Random PyMOL-generated Cover. See Covers.