[Chimera-users] Volume information

[Thomas Goddard]

Hi Vamsee,

   Chimera can report the volume enclosed in any surface using menu entry

	Tools / Volume Data / Measure Volume and Area

The hard part is getting a surface for your situation.  I don't know how 
you plan on defining the part that is just nucleic acid and water.  For 
icosahedral viruses you could fit an icosahedral/spherical inside the 
density map creating it with the Icosahedron Surface dialog (Tools / 
Higher-Order Structure) and moving it to the right place using the Model 
Panel "active" buttons.

	http://www.cgl.ucsf.edu/chimera/tutorials/volumetour/volumetour.html#icosfit

http://www.cgl.ucsf.edu/chimera/tutorials/volumetour/volumetour.html#measurevolume


    Tom




vamsee wrote:
> Hello All,
>  
>  
> I am working on a virus and I am trying to figure out its volume.
> I would want to find out the volume of the nucleic acid and the water 
> inside the virus capsid. That way, if I am thinking right, that should 
> give me the total internal volume of the virus. This volume would be a 
> constant even with the movement of water in and out. Is it possible to 
> use chimera to calculate any of such data, with no prior information 
> about how the nucleic acid is packed inside?
>  
>  
> Thanks in advance,
>  
> Vamsee
> Graduate Student
> Dept of Chemistry and Biochemistry
> Montana State University
> Bozeman, MT - 59715
> 
> 
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