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 POSF PyMOL Open-Source Fellowship program accepting applications for 2018-2019 New Plugin ProBiS H2O is a new plugin for identification of conserved waters in protein structures. Official Release PyMOL v2.1 has been released on March 13, 2018. 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 New Plugin LiSiCA is a new plugin for 2D and 3D ligand based virtual screening using a fast maximum clique algorithm. 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... Forster distance calculator Type Python Script Download forster_distance_calculator.py Author(s) Troels E. Linnet License BSD This code has been put under version control in the project Pymol-script-repo Introduction This script can be handsome, if one is working with Förster resonance energy transfer in proteins. The script calculates the Förster distance: R0, from two dyes excitation/emission spectres. This script is very handsome, if one want's to pick two dyes from different companies, and the Förster distance is not provided in a table. This script does no calculation of proteins in pymol, but is made as a "hack/shortcut" for a python script. We use the python part of pymol to do the calculations, so a student would not need to install python at home, but simply pymol. Spectre input There should be provided the path to four datafiles: Excitation and Emission spectre for the Donor dye: D_Exi="path.txt" D_Emi="path.txt Excitation and Emission spectre ..→

A Random PyMOL-generated Cover. See Covers.