[BiO BB] A question about profile database in psi-blast.

[Iddo Friedberg]

FFAS does this.

Was published in:
L. Rychlewski, L. Jaroszewski, W. Li, A. Godzik (2000), Protein Science 
9, 232-241
(Actually the article refers to an older version of FFAS. The method of 
the new one is currently in press. But they both do profile-profile 
alignments).

You can access the server at:

http://ffas.ljcrf.edu/ffas-cgi/cgi/ffas.pl

Cheers,

Iddo


Rong Chen wrote:
> Hi,
> 
> Normally, we align a profile against a sequence database in psi-blast. I
> heard that we could also cat all profiles to create a database, and align
> a sequence against this profile database. Did anyone hear anything about
> it? Is it a new program or a new option in psi-blast?
> 
> Thank you.
> 
> Rong
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> Rong Chen, Ph.D.
> Scientist
> Protein Engineering
> Accelrys Inc.
> San Diego, CA 92121
> Tel: (858)799-5304(office)
> E-mail: rong at zlab.bu.edu   http://zlab.bu.edu/~rong
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> 
> 
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-- 
Iddo Friedberg, Ph.D.
The Burnham Institute
10901 N. Torrey Pines Rd.
La Jolla, CA 92037
USA
Tel: +1 (858) 646 3100 x3516
Fax: +1 (858) 646 3171
http://ffas.ljcrf.edu/~iddo