This plugin identifies ligands and highlights them, including the binding residues
Written by: Elmar Krieger
License: GNU GPL
Last modified: 2017/03/04
GIF/MPEG Movie Clip Encoder
This plugin creates an MPEG movie or animated GIF of the rotating scene, click File > Save as > Animated GIF.
Written by: Emmanuel Bettler & Ahmet Sacan
License: GNU GPL
Last modified: 2015/10/08
This plugin colors the residues in the selected molecules by conservation scores assigned by the ConSurf webserver at consurf.tau.ac.il. If the object name is a valid PDB ID, the plugin will download the preassigned conservation scores, caching them for quick reuse later. If the object name is not a valid PDB ID, the plugin assumes that this is a private structure which you submitted manually to the server before, so that the B-factors already represent the conservation scores and coloring can start immediately. Coloring can be done in two ways. First by conservation gradient only: cyan is variable, gray is average and purple is conserved. Second by amino acid property and conservation blended together: polars are green, hydrophobics are yellow, negatives are red and positives are blue. Darker colors mean higher conservation, lighter colours mean lower conservation. With the second color option, two thresholds can be given for assigning high and low conservation. Defaults are 80% for upper and 60% for lower threshold. E.g. with an upper threshold of 80%, this means that all residues with a conservation score higher than 80% of the maximum conservation score are considered highly conserved. If the lower threshold is 60%, residues with a score between 60% of max and 80% of max are considered no so conserved. All other residues below the lower threshold are coloured in gray (means variable).
Written by: Joost Van Durme & Sebastian Maurer-Stroh. SWITCH Lab, VIB, Brussels, Belgium
License: GPL (www.gnu.org)
Last modified: 2012/12/31