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anford Burnham Prebys Medical Discovery Institute
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All databases were updated in May 2016. PDB database is updated every Wednesday; Pfam database is updated monthly.

1).   Please paste one amino-acid sequence in fasta format (please sign in to submit more sequences and to store a list of your results)
2).   Sequences longer than 1000 aa should be split into (putative) domains.
3).   Examples of ffas server input and resulting ouput.

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4).   Option: upload psi-blast result in text format to calculate the profile (otherwise psi-blast is run on the server)
 (can only be used for a single query sequence which provided in the text field above)

5).   Option: upload multiple sequence alignment in fasta format(with <=100 sequences) instead of submiting a single query sequence. Please wait for your job to finish before submitting another set of sequences.

6).   Option: instead of submitting one protein sequence, please login to upload a protein sequence file in fasta format(<=1000 sequences). Providing an email at login is required. creating a separated account for this job is highly recommended.

7).   Option: check this box to include additional metagenomic data in the database used to calculate protein profile.

Select database(s) to be searched, and click Search (to select multiple databases click while holding down the CTRL key):
Databases of profiles:
(New: you can select some database(s) at first and search other databases within the same job later)
FFAS is supported by the NIH grant R01-GM087218-01
1 1 7 8 9 6   jobs submitted since Jan 1, 2011
Comments and questions to: webmaster

Selected papers from Godzik Lab
Ying Zhang, Ines Thiele, Dana Weekes, Zhanwen Li, Lukasz Jaroszewski, Krzysztof Ginalski, Ashley Deacon, John Wooley, Scott Lesley, Ian Wilson, Bernhard Palsson, Andrei Osterman, Adam Godzik. Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima. Science. 2009 Sep 18;325(5947):1544-9.

Alexey M. Eroshkin, Andrew LeBlanc, Dana Weekes, Kai Post, Zhanwen Li, Akhil Rajput, Sal T. Butera, Dennis R. Burton, Adam Godzik. bNAber: database of broadly neutralizing HIV antibodies. Nucl. Acids Res. 2013; published on November 7, 2013.

Zhang B, Jaroszewski L, Rychlewski L, Godzik A. Similarities and differences between nonhomologous proteins with similar folds: evaluation of threading strategies. Fold Des. 1997;2(5):307-17.