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iPfam: visualization of protein-protein interactions in PDB at domain and amino acid resolutions.
The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK. rdf@sanger.ac.uk
SUMMARY: There are many resources that contain information about binary interactions between proteins. However, protein interactions are defined by only a subset of residues in any protein. We have implemented a web resource that allows the investigation of protein interactions in the Protein Data Bank structures at the level of Pfam domains and amino acid residues. This detailed knowledge relies on the fact that there are a large number of multidomain proteins and protein complexes being deposited in the structure databases. The resource called iPfam is hosted within the Pfam UK website. Most resources focus on the interactions between proteins; iPfam includes these as well as interactions between domains in a single protein. AVAILABILITY: iPfam is available on the Web for browsing at http://www.sanger.ac.uk/Software/Pfam/iPfam/; the source-data for iPfam is freely available in relational tables via the ftp site ftp://ftp.sanger.ac.uk/pub/databases/Pfam/database_files/.
PMID: 15353450 [PubMed - indexed for MEDLINE]
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Cited by 45 PubMed Central articles
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DASMIweb: online integration, analysis and assessment of distributed protein interaction data.
Blankenburg H, Ramírez F, Büch J, Albrecht M.
Nucleic Acids Res. 2009 Jul 1; 37(Web Server issue):W122-8. Epub 2009 Jun 5.
[Nucleic Acids Res. 2009]
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DASMI: exchanging, annotating and assessing molecular interaction data.
Blankenburg H, Finn RD, Prlić A, Jenkinson AM, Ramírez F, Emig D, Schelhorn SE, Büch J, Lengauer T, Albrecht M.
Bioinformatics. 2009 May 15; 25(10):1321-8.
[Bioinformatics. 2009]
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A top-down approach to infer and compare domain-domain interactions across eight model organisms.
Guda C, King BR, Pal LR, Guda P.
PLoS One. 2009; 4(3):e5096. Epub 2009 Mar 31.
[PLoS One. 2009]
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