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 v2.4 has been released on May 20, 2020. Python 3 New Python 3 compatibility guide for scripts and plugins Official Release PyMOL v2.3 has been released on February 11, 2019. POSF New PyMOL fellows announced for 2018-2019 Tutorial Plugins Tutorial updated for PyQt5 New Plugin ProBiS H2O is a new plugin for identification of conserved waters in protein structures. Selection keywords New polymer.protein and polymer.nucleic selection keywords. Thanks everyone who participated in the poll! Plugin Update MOLE 2.5 is an updated version of channel analysis software in PyMOL New Script dssr_block is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons Older News See Older News.

Did you know... Pairwise distances Introduction Given any two selections, this script calculates and returns the pairwise distances between all atoms that fall within a defined distance. Can be used to measure distances within the same chain, between different chains or different objects. Distances can be restricted to sidechain atoms only and the outputs either displayed on screen or printed on file. Usage pairwise_dist sel1, sel2, max_dist, [output=S/P/N, [sidechain=N/Y, [show=Y/N]]] Required Arguments sel1 = first selection sel2 = second selection max_dist = max distance in Angstroms Optional Arguments output = accepts Screen/Print/None (default N) sidechain = limits (Y) results to sidechain atoms (default N) show = shows (Y) individual ..→

A Random PyMOL-generated Cover. See Covers.