[Chimera-users] Script for getting the map values of fitted residues.

Tom Goddard goddard at sonic.net
Tue Mar 29 10:53:23 PDT 2011

Hi Robert,

   This is pretty easy to do in Chimera using the "Values at Atom 
Positions" and "Render by Attribute" dialogs.  Here's a video showing how.


This and more videos are on the Chimera video tutorial web page



>  I was wondering if there was a script available that  would get the 
> map density values of amino aid residues  in a model fitted to an EM 
> or X-ray density map and then write the data to a text file?
> Essentially what I need is something that does something like this 
> (but not laboriously by hand)
> e.g. in command line mode
> select #1:1.B
> then I use Tools>Volume Data>Fit in Map and click 'Update' to get the 
> average map density value for the atoms in amino acid residue number 1 
> in chain B of model 1.
> Many thanks for your help
> Bob Ford,
> Manchester Interdisciplinary Biocentre, Faculty of Life Sciences,
> 131 Princess St.,
> The University of Manchester
> Manchester   M1 7DN, UK.
> Tel: +44(0)161 2004187
> Fax: +44 (0)161 3068918
> bob.ford at manchester.ac.uk
> www.ls.manchester.ac.uk
> _______________________________________________
> Chimera-users mailing list
> Chimera-users at cgl.ucsf.edu
> http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users

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