Article

New developments in the InterPro database

EMBL Outstation-European Bioinformatics Institute Hinxton, Cambridge, UK.
Nucleic Acids Research (Impact Factor: 9.11). 02/2007; 35(Database issue):D224-8. DOI: 10.1093/nar/gkl841
Source: PubMed

ABSTRACT InterPro is an integrated resource for protein families, domains and functional sites, which integrates the following protein signature databases: PROSITE, PRINTS, ProDom, Pfam, SMART, TIGRFAMs, PIRSF, SUPERFAMILY, Gene3D and PANTHER. The latter two new member databases have been integrated since the last publication in this journal. There have been several new developments in InterPro, including an additional reading field, new database links, extensions to the web interface and additional match XML files. InterPro has always provided matches to UniProtKB proteins on the website and in the match XML file on the FTP site. Additional matches to proteins in UniParc (UniProt archive) are now available for download in the new match XML files only. The latest InterPro release (13.0) contains more than 13 000 entries, covering over 78% of all proteins in UniProtKB. The database is available for text- and sequence-based searches via a webserver (http://www.ebi.ac.uk/interpro), and for download by anonymous FTP (ftp://ftp.ebi.ac.uk/pub/databases/interpro). The InterProScan search tool is now also available via a web service at http://www.ebi.ac.uk/Tools/webservices/WSInterProScan.html.

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    • "Sequence alignments were performed using ClustalW [47] from BioEdit (http://www.mbio.ncsu.edu/BioEdit/bioedit.html). Similarity searches were performed from InterProScan v4.3 [48] against InterPro (IPR) v32.0 [49] "
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