[Chimera-users] accessible surface area for electron density maps

Elaine Meng meng at cgl.ucsf.edu
Fri Mar 27 08:14:28 PDT 2009

Hi Murali,
If I understand correctly, you want to get the area of a contour  
surface of the density shown using the Volume Viewer tool.  If you  
want the total surface area, even of multiple separate blobs, use  
"Measure Volume and Area."  If you want to measure the area of  
different blobs individually, use "Measure and Color Blobs."

These can be started from the Tools menu of the Volume Viewer dialog,  
and also from the main Chimera Tools menu (Tools... Volume Data...  
[name of tool]).

For more details on how to use a tool, press the Help button on the  
dialog.  That opens the documentation included with your download.   
Our web site also has copies of the documentation:

I hope this helps,
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Mar 27, 2009, at 7:42 AM, Murali Ayaluru wrote:

> Dear Chimera users,
> I want to calculate the accessible surface area for an electron  
> density map (mrc format) that I am working on.  Can anyone, who  
> knows how to do this, tell me how to do this?
> Thanks in advance for your reply,
> Regards,
> Murali

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