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News & Updates Official Release PyMOL, AxPyMOL, and JyMO v1.7 have all been released] 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... Color by conservation Type Python Script Download color_by_conservation.py Author(s) Jason Vertrees License Free This code has been put under version control in the project Pymol-script-repo Overview This script reads an alignment object and colors the protein objects in the alignment by the sequence conservation found in the alignment. Example Usage reinitialize import color_by_conservation # get some kinases fetch 1opk 3dtc 3p86 2eva 3efw, async=0 # turn on the sequence viewer set seq_view # align them into the "algn" object for x in cmd.get_names(): cmd.align(x, "3efw and c. A", object="algn") # color color_by_conservation aln=algn, as_putty=1

A Random PyMOL-generated Cover. See Covers.