Not so long ago someone posted this link in this bord:
http://www.charite.de/bioinf/strap/
It convinced me.
Maybe that should also be included in the CCP4wiki a collection of what
program do I use when I want to make X Y or Z
Juergen
Ashley Buckle wrote:
I can recommend MUSTANG: http://p2p.cs.mu.oz.au/mustang/
Web server version is http://p2p.cs.mu.oz.au/mustang/php/
paper is here:
http://www.ncbi.nlm.nih.gov/pubmed/16736488?ordinalpos=5&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum
Ashley
On 05/03/2008, at 6:13 AM, Stephen Graham wrote:
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
Ashley Buckle Ph.D
NHMRC Senior Research Fellow
The Department of Biochemistry and Molecular Biology
School of Biomedical Sciences, Faculty of Medicine &
Victorian Bioinformatics Consortium (VBC)
Monash University, Clayton, Vic 3800
Australia
http://www.med.monash.edu.au/biochem/staff/abuckle.html
iChat/AIM: blindcaptaincat
skype: ashley.buckle
Tel: (613) 9902 0269 (office)
Tel: (613) 9905 1653 (lab)
Fax : (613) 9905 4699
--
Jürgen Bosch
University of Washington
Dept. of Biochemistry, K-426
1705 NE Pacific Street
Seattle, WA 98195
Box 357742
Phone: +1-206-616-4510
FAX: +1-206-685-7002
Web: http://faculty.washington.edu/jbosch
