[chimerax-users] [Chimera-users] color by zone in chimeraX

[Elaine Meng]

Hi Pranav,
I believe you need to use "copies true" in the sym command to make the full assembly using "real" atomic copies rather than graphical clones.  Color zone and other commands only recognize the real atomic copies.

<http://rbvi.ucsf.edu/chimerax/docs/user/commands/sym.html#copies>

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Nov 20, 2020, at 10:21 AM, Pranav Shah <p.shah.lab at gmail.com> wrote:
> 
> Hi Elaine,
> 
> Further to this query, I have a virus.pdb and virus.mrc. I symmetry
> expanded the virus.pdb using
> sym #1 assembly 1
> and then ran color by zone
> color  zone  #2 near  #3  distance 5
> 
> Where
> #1 = virus asym unit
> #2 = virus.mrc
> #3 =  symmetrised #1
> 
> however this results in only the surface in the asymmetric unit
> inheriting the model colors. How do I propagate the colors of all the
> chains to the entire surface of the capsid?
> 
> Best,
> Pranav