[Chimera-users] Specifying colour of surface cap when surface coloured by electrostatic potential

Tom Goddard goddard at sonic.net
Fri Sep 28 09:34:08 PDT 2012

Hi Ashley,

   You can get a single color clipped cap by doing the electrostatic 
surface coloring with a command

     scolor #0 volume #1 cmap -10,red:0,white:10,blue  autoUpdate false

where #0 is the molecular surface and #1 is the electrostatic map (*.dx 
file).  The key here is the "autoUpdate false" option.  That means the 
coloring on the clip surface won't be updated as the clip plane is 
moved.  The above command will still color the current clip surface and 
you'll have to move the clip plane to make it a single color.  The 
Surface Color dialog does not offer control over the "autoUpdate" option 
so it can only be done with a command.


> Hi -- Can't find answer to this question in manual. Is it possible to 
> assign a uniform solid colour to a surface cap when the (clipped) 
> surface is coloured by electrostatic potential (using external .dx 
> file)? I know such capping can be done when the surface is coloured by 
> some other attribute but have not found a way to specify in the above 
> case.
> Any hints gratefully received.
> Many thanks,
> Ashley
> --
> Dr. Ashley Pike
> Membrane Protein Crystallography | Structural Genomics Consortium | 
> University of Oxford
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> Chimera-users at cgl.ucsf.edu
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