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News & Updates New Plugin Bondpack is a 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. New Plugin GROMACS_Plugin is a new plugin that ties together PyMOL and GROMACS. New Software CMPyMOL is a software that interactively visualizes 2D contact maps of proteins in PyMOL. New Script cgo_arrow draws an arrow between two picked atoms. Tips & Tricks Instructions for generating movie PDFs using .mpg movies from PyMOL. Older News See Older News.

Did you know... Colorbydisplacement Type Python Script Download colorbydisplacement.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 allows you to color two structures by distance displacement between an Open and Closed form of a protein, as calculated by PyMol's internal distance command. The pairwise distance is calculated between all-atoms. The distance displacement values are stored as B-factors of these residues, which are colored by a rainbow color spectrum, with blue specifying minimum and red indicating maximum. Do keep in mind, all original B-factors values are overwritten! There exist one version. ColorByDisplacementAll is between All atoms in residues and is quite slow => 3-5 mins for a run. Ideal for sticks representation. You have to specify which residues should be used in the alignment procedure, or it will take all residues as standard V.2 is implemented the 2011.01.06 - Due to a bug in coloring. Bug in code A bug in the boolean operator of ..→

A Random PyMOL-generated Cover. See Covers.