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News & Updates Official Release http://pymol.org today, January 14, 2014. 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... Contact map visualizer Type PyMOL Plugin Download plugins/contact_map_visualizer.py Author(s) Venkatramanan Krishnamani License - This code has been put under version control in the project Pymol-script-repo Enhanced version of this plugin is now available at CMPyMOL The contact map visualizer plugin can link contact map images to the residues in PyMOL in a interactive way. Contact maps are pixel graphics where each protein residue corresponds to one line and one row of pixels. Thus for a 100 residue protein, such a image has 100x100 pixels. A common tool to generate such images is g_mdmat from the gromacs package. Usage contact_map_visualizer [ image_file [, selection ]] Required Dependencies pygame Tkinter (optional and usually included with PyMOL) PIL (optional, for automatically converting XPM images) Example for installing all dependencies on a Ubuntu like system: <source lang="bash"> sudo apt-get ..→

A Random PyMOL-generated Cover. See Covers.