[ccp4bb] multiple sequence alignment from multiple pairwise structural alignments

- Protein crystallography

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- Protein purification
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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

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Subject: Diamond and ESRF future.
From: "Moody, Dr P {- dot -} C {- dot -} E {- dot -} " pcem1 {- at -} LEICESTER {- dot -} AC {- dot -} UK
Date: 2008-03-04

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From: James Stroud jstroud {- at -} MBI {- dot -} UCLA {- dot -} EDU
Date: 2008-03-04

Subject: multiple sequence alignment from multiple pairwise structural alignments
From: Stephen Graham stepheng {- at -} STRUBI {- dot -} OX {- dot -} AC {- dot -} UK
Date: 2008-03-04

Hi all,

I would like to generate a structure-based multiple sequence alignment
using 4 structures. I have already generated pairwise alignments for
each 'pair' of structures (6 alignments in all). Is there a program
out there that can take a number of aligned structures (or even just a
number of pairwise sequence alignments) and calculate the 'best'
multiple sequence alignment? Please note that there is absolutely no
sequence conservation between these structures, making standard
sequence-based alignment tools pretty useless.

Thanks,

Stephen

--
Dr Stephen Graham
Nuffield Medical Fellow
Division of Structural Biology
Wellcome Trust Centre for Human Genetics
Roosevelt Drive
Oxford OX3 7BN
United Kingdom
Phone: +44 1865 287 549

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Diamond and ESRF future.
From: "Moody, Dr P {- dot -} C {- dot -} E {- dot -} " pcem1 {- at -} LEICESTER {- dot -} AC {- dot -} UK
Date: 2008-03-04

Next message:
Subject: Re: WM DELETE WINDOW
From: James Stroud jstroud {- at -} MBI {- dot -} UCLA {- dot -} EDU
Date: 2008-03-04