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Re: [ccp4bb]: protein alignment



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On Thursday, October 10, 2002, at 03:54 PM, Lesa J. Beamer wrote:

> Can someone point me to a program that will output a list of rmsd's
> between two aligned structures by residue number?  My favorite alignment
> program is TOP, but it doesn't produce this info (or I haven't figured
> out how to get it).  I also tried the ccp4 program "compar" but it
> seems to only work if each protein has the same number (& type) of 
> residues.

Try ProFit: http://www.rubic.rdg.ac.uk/~andrew/bioinf.org/software/profit/
index.html

-Luca
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Luca Jovine, Ph.D.
Department of Molecular, Cell & Developmental Biology
Mount Sinai School of Medicine
Annenberg Building, Room 25-18
One Gustave L. Levy Place, New York, NY 10029-6574, USA
Voice: +1.212.241-8620  FAX: +1.509.356-2832
E-Mail: lucajovine@mac.com
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