[Chimera-users] coloring by element

Elaine Meng meng at cgl.ucsf.edu
Thu Oct 9 10:46:36 PDT 2014


Hi Jane,
I think you just wanted to apply the "heteroatom" color-coding to that residue.  For example, select it and use 

menu: Actions… Color.. by heteroatom
or
command: color byhet sel

That will keep the carbons as their current color but use the element color-coding for the others.  Or, you could use "by element"  instead, which will also color the carbons by element (gray). 
<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/colortables.html#byelement>

If I misunderstood your question, you could try asking it again.  I hope this helps,
Elaine 
----------
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Oct 9, 2014, at 4:40 AM, Jane Norman <Jane.Norman at bristol.ac.uk> wrote:

> Hello
> 
> I am new to using chimera and I have been struggling with one aspect. I'm trying to mutate one residue in my protein, by using the command swapaa leu :310, this seems to work nicely, 
> 
> To show the amino acid I then go in to "tools" then "sequence" and select this mutated residue and then go to "actions" then "atoms/bond" and "show" and the residue is displayed, however it is displayed as a block colour which I can't seem to change the colour scheme of the amino acid to match other residues which I've displayed nearby (e.g showing different colours (white/blue/red for different groups on the amino acid). i can easily change the block coulr of the whole reside but not to match the helpful scheme of he other displayed residues.
> 
> However If I just pick an unmutated residue to display it shows it in the same style as the other residues (which is what I want for my mutated one)
> 
> I hope that makes sense I couldn't find the answer in the help section
> 
> Thank you very much for your time
> 
> Jane 




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