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My fave program for this is Indonesia. It also does the superimposition for
you (choice of 3 algorithms, including the LSQMAN brute force method). It's
based on Java (hence the pun)., and available from the good folks at
Uppsala:
http://alpha2.bmc.uu.se/dennis/
From: "Yoder, Marilyn" <[EMAIL PROTECTED]>
To: "CCP4 Bulletin Board" <[email protected]>
Subject: [ccp4bb]: structure alignment
Date: Tue, 11 Apr 2006 14:13:48 -0500
Hi all,
Is there a program that will output an alignment of multiply
superimposed structures? i.e. the output alignment is not based on
primary sequence alignment, but based on tertiary structure alignment?
This is quite tedious by hand, I'm assuming many have done this before
(?).
Thanks,
Marilyn
Marilyn D. Yoder
Division of Cell Biology & Biophysics
School of Biological Sciences
University of Missouri-Kansas City
5007 Rockhill Rd.
Kansas City, MO 64110-2499
phone 816-235-1503
fax 816-235-1503
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