Hi Robert,you can set the distance between each atom and the center as b-factor, and then use spectrum (or spectrumany [1]) for coloring.
I wrote a small python script that will do that, see attachment. Example (in PyMOL command line): run distancecoloring.py centerdistance2b (all) spectrum b, blue_white_red, (all) Cheers, Thomas [1] http://pymolwiki.org/index.php/Spectrumany On 07/28/2011 04:29 PM, Muench, Robert wrote:
Dear community, I was searching the internet for several days now to find out how to perform a distance dependent coloring in pymol. The idea is to color the surface of a viral (spherical) structure. I would like to define the xyz-coordinates of the center of the viral structure an color all residues with a gradient depending on the distance from these xyz coordinates. Can anyone please help me out? All the best Robert *Robert Münch*** --------------------------------------------------------- Dipl. Biologist / PhD-Student *Paul-Ehrlich-Institut* Federal Institute for Vaccines and Biomedicines Division of Medical Biotechnology Section 6/5 - Viral Gene Transfer Medicinal Products 63225 Langen, Germany Phone: +49-6103-77-4222 Fax: +49-6103-77-1255
-- Thomas Holder MPI for Developmental Biology
distancecoloring.py
Description: application/chimera
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