[Chimera-users] Chimera: Display map around atoms

[Elaine Meng]

Hi Greg,
That "bv" shortcut creates a new, larger map (periodically extended as  
needed to cover the atoms), which sounds like the opposite of what you  
want.

You can limit the density display to a zone around selected atoms.   
Choose "Zone" from the "Features" menu in the Volume Viewer dialog to  
add the relevant controls to the dialog.  The zone feature is  
described here:
<http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/volumeviewer/volumeviewer.html#zone 
 >

For future questions, it's better to send Chimera questions to the chimera-users at cgl.ucsf.edu 
  list rather than to me directly.  That way it won't fall through the  
cracks if I'm on vacation, or sick, or don't know the answer.

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

On Mar 12, 2010, at 1:24 PM, Greg Friedland wrote:

> Hi Elaine,
> Thanks for your earlier help with Chimera. I'm currently have  
> difficulty displaying a density map. I'd like to only display the  
> density around protein atoms, not the full symmetry density. I tried  
> the shortcut 'bv' according to http://www.cgl.ucsf.edu/pipermail/chimera-users/2008-August/003002.html 
>  but the new map still contains lots of the symmetric molecule  
> density. Is there another way?
> Thanks,
> Greg
>
> Greg Friedland
> Postdoc
> Sandia National Lab
> Joint BioEnergy Institute