[ccp4bb]: rmsd calculation

["cheom-gil cheong" <cheomgilcheong@hotmail.com>]

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Dear all :

I have a probably trivial question.
I have two structures where one is apo and the other bound the inhibitor. 
This protein is composed of three domains. I superimposed these two 
structures using whole protein and I know rmsd of whole protein. I want to 
calculate rmsd of only one domain without fitting this domain further 
because the two structures were superimposed already. Does anyone know how 
to calculate rmsd with already-fitted coordinates?

Many thanks in advance.


Cheomgil Cheong, Ph.D.
Research Associate
Department of Molecular Biology
The Scripps Research Institute
cheomgilcheong@hotmail.com
cheong@scripps.edu




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