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POSF New PyMOL fellows announced for 2018-2019
Tutorial Plugins Tutorial updated for PyQt5
Official Release PyMOL v2.2 has been released on July 24, 2018.
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...

Color by conservation

Type Python Script
Author(s) Jason Vertrees
License Free
This code has been put under version control in the project Pymol-script-repo


This script reads an alignment object and colors the protein objects in the alignment by the sequence conservation found in the alignment.


Example Usage

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.