Re: [PyMOL] RMSD Calculations

[DeLano S. <de...@de...>]

Siddharth,

align obj1////CA, obj2////CA, cycles=0

Cheers,
Warren
 
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-----Original Message-----
From: pym...@li...
[mailto:pym...@li...] On Behalf Of
sid...@ii...
Sent: Wednesday, June 04, 2008 3:15 AM
To: pym...@li...
Subject: [PyMOL] RMSD Calculations

Hi everyone,

I needed to know how to calculate the RMSD for 2 homologous structures over
the entire structure (For C-alpha atoms). Currently, PyMol performs sequence
alignment and then gives the RMSD values for only those regions which are
matching. But, as I mentioned before, I need RMSD values for the whole
molecule.

Any help would be greatly appreciated.

Thanks a lot

Siddharth Gupta
Indian Institute of Technology, Guwahati


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