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/volume...
For future questions, it's better to send Chimera questions to the chimera-users@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