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InterPro: the integrative protein signature database

Sarah HunterGeorgetown UniversityRolf ApweilerGeorgetown UniversityTeresa K. AttwoodHeidelberg UniversityAmos BairochUniversity Hospital HeidelbergAlex BatemanSIB Swiss Institute of BioinformaticsDavid BinnsEMBL Outstation European Bioinformatics Institute (EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, 2Faculty of Life Science and School of Computer Science, The University of Manchester, Manchester, UK, 3Swiss Institute of Bioinformatics (SIB), Geneva, Switzerland, 4The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK, 5European Molecular Laboratory (EMBL), Heidelberg, Germany, 6Pole Rhone-Alpins de BioInformatique (PRABI) and Laboratoire de Biométrie et Biologie Evolutive, CNRS, INRIA, Université de Lyon, Université Lyon 1, Villeurbanne, France, 7Department of Computer Science, University of Bristol, Woodland Road, Bristol, UK, 8J. Craig Venter Institute (JCVI), Rockville, MD, 20850, USA, 9Computational Biology Unit, University of Cape Town, South Africa, 10Protein Information Resource (PIR), Georgetown University Medical Center, Washington, DC, USA, 11Department of Structural and Molecular Biology, University College London, London, UK, 12Evolutionary Systems Biology, SRI International, Menlo Park, CA, 94025-3493, USA and 13MRC Laboratory of Molecular Biology, CambridgePeer BorkEuropean Bioinformatics InstituteUjjwal DasEuropean Bioinformatics InstituteLouise C. DaughertyUniversity Hospital HeidelbergL. DuquenneEuropean Bioinformatics InstituteROBERT FINNCentre National de la Recherche ScientifiqueJulian GoughWellcome Sanger InstituteDaniel H. HaftCentre National de la Recherche ScientifiqueNicolas HuloEuropean Bioinformatics InstituteDaniel KahnCentre National de la Recherche ScientifiqueElizabeth A. KellySIB Swiss Institute of BioinformaticsAurélie LaugraudEuropean Bioinformatics InstituteIvica LetunićEMBL Outstation European Bioinformatics Institute (EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, 2Faculty of Life Science and School of Computer Science, The University of Manchester, Manchester, UK, 3Swiss Institute of Bioinformatics (SIB), Geneva, Switzerland, 4The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK, 5European Molecular Laboratory (EMBL), Heidelberg, Germany, 6Pole Rhone-Alpins de BioInformatique (PRABI) and Laboratoire de Biométrie et Biologie Evolutive, CNRS, INRIA, Université de Lyon, Université Lyon 1, Villeurbanne, France, 7Department of Computer Science, University of Bristol, Woodland Road, Bristol, UK, 8J. Craig Venter Institute (JCVI), Rockville, MD, 20850, USA, 9Computational Biology Unit, University of Cape Town, South Africa, 10Protein Information Resource (PIR), Georgetown University Medical Center, Washington, DC, USA, 11Department of Structural and Molecular Biology, University College London, London, UK, 12Evolutionary Systems Biology, SRI International, Menlo Park, CA, 94025-3493, USA and 13MRC Laboratory of Molecular Biology, CambridgeD. LonsdaleEuropean Bioinformatics InstituteRodrigo LópezEMBL Outstation European Bioinformatics Institute (EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, 2Faculty of Life Science and School of Computer Science, The University of Manchester, Manchester, UK, 3Swiss Institute of Bioinformatics (SIB), Geneva, Switzerland, 4The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK, 5European Molecular Laboratory (EMBL), Heidelberg, Germany, 6Pole Rhone-Alpins de BioInformatique (PRABI) and Laboratoire de Biométrie et Biologie Evolutive, CNRS, INRIA, Université de Lyon, Université Lyon 1, Villeurbanne, France, 7Department of Computer Science, University of Bristol, Woodland Road, Bristol, UK, 8J. Craig Venter Institute (JCVI), Rockville, MD, 20850, USA, 9Computational Biology Unit, University of Cape Town, South Africa, 10Protein Information Resource (PIR), Georgetown University Medical Center, Washington, DC, USA, 11Department of Structural and Molecular Biology, University College London, London, UK, 12Evolutionary Systems Biology, SRI International, Menlo Park, CA, 94025-3493, USA and 13MRC Laboratory of Molecular Biology, CambridgeMartin MaderaGeorgetown UniversityJohn MaslenEuropean Bioinformatics InstituteCraig McAnullaSIB Swiss Institute of BioinformaticsJ. McDowallUniversity College LondonJaina MistryUniversity Hospital HeidelbergAlex MitchellCentre National de la Recherche ScientifiqueNicola MulderSIB Swiss Institute of BioinformaticsDarren A. NataleHeidelberg UniversityC. OrengoHeidelberg UniversityA. F. QuinnUniversity Hospital HeidelbergJ. D. SelengutEuropean Bioinformatics InstituteChristian J A SigristSIB Swiss Institute of BioinformaticsManjula ThimmaEuropean Bioinformatics InstitutePaul D. ThomasWellcome Sanger InstituteF. ValentinGeorgetown UniversityDerek A. WilsonGeorgetown UniversityCathy WuSIB Swiss Institute of BioinformaticsCorin YeatsUniversity College London

2008en

ABI

Annotatsiya

The InterPro database (http://www.ebi.ac.uk/interpro/) integrates together predictive models or 'signatures' representing protein domains, families and functional sites from multiple, diverse source databases: Gene3D, PANTHER, Pfam, PIRSF, PRINTS, ProDom, PROSITE, SMART, SUPERFAMILY and TIGRFAMs. Integration is performed manually and approximately half of the total approximately 58,000 signatures available in the source databases belong to an InterPro entry. Recently, we have started to also display the remaining un-integrated signatures via our web interface. Other developments include the provision of non-signature data, such as structural data, in new XML files on our FTP site, as well as the inclusion of matchless UniProtKB proteins in the existing match XML files. The web interface has been extended and now links out to the ADAN predicted protein-protein interaction database and the SPICE and Dasty viewers. The latest public release (v18.0) covers 79.8% of UniProtKB (v14.1) and consists of 16 549 entries. InterPro data may be accessed either via the web address above, via web services, by downloading files by anonymous FTP or by using the InterProScan search software (http://www.ebi.ac.uk/Tools/InterProScan/).

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DOI: 10.1093/nar/gkn785

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