[Chimera-users] SEPARATING A SUBUNIT

[Thomas Goddard]

Hi Sudheer,

   If you have a monomer PDB model fit into the map you could display a 
zone around it

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

and save that part of the map to a file with volume dialog File / Save 
Map As....

   Or you could use volume eraser to erase everything but one monomer

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

   Or you could trace loops plane by plane, join them to form a surface 
using volume tracer

http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/volumepathtracer/framevolpath.html

then use the mask command to extract the region within the surface

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

   Just knowing the 7-fold symmetry doesn't tell you the boundaries of 
the monomers.  There is currently no tool to simply extract a 1/7 wedge.

	Tom



skmolugu at miners.utep.edu wrote:
> Hi,
> I have a CryoEM density map with 14 subunits with seven fold symmetry. Is there a way in chimera to separate only one subunit from the entire map.
> thanks,
> sudheer
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