[chimerax-users] color zone colors by atom type

[Tom Goddard]

Hi Vincent,

  Check that your map is model #2 and your atomic structure is model #1 by looking at the id numbers in the Models panel.  Also if you hover the mouse over an atom you can check that your atomic structure as chain A.

  I see that If you get the model numbers wrong the command does not warn you that nothing was colored.  I will fix that so it gives a warning.

	Tom


> On Sep 20, 2021, at 2:45 AM, vincent Chaptal via ChimeraX-users <chimerax-users at cgl.ucsf.edu> wrote:
> 
> Dear ChimeraX users, 
> 
> I just subscribed so apologies if this has been asked before. 
> 
> When is type the command: color zone #2 near #1/A distance 5 sharpEdges false farColor blue
> 
> I have the volume #2 in blue with chain A colored by atom type: i.e. with carbons in sand, oxygens in red, nitrogens in blue. 
> 
> I tried to follow the tutorial on youtube, downloading the model and emdb like in the tutorial, and it does work like the tutorial, meaning colored by chain. 
> 
> I am wodering what is going on and how to fix it? I've seen this behavior for my protein, on a PDB refined from Phenix, or from a download from the rcsb. 
> I don't see anything special on the PDB, all the atoms are listed normally. 
> 
> 
> Is it possible to assign a specific color per chain using this command? 
> 
> 
> Thank you for your help. 
> best
> Vincent
> 
> 
> 
> -- 
> Vincent Chaptal, PhD
> Director of GdR APPICOM
> Drug Resistance and Membrane Proteins Lab
> 
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