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  1. InterPro (View Publication)
    Full Name of the Resource : Integrated resource of protein families, domains and functional sites
    Resource Category : Databases -> Protein Sequence Databases -> Protein sequence motifs and active sites

    Brief Description : InterPro, an integrated documentation resource of protein families, domains and functional sites, was created in 1999 to amalgamate the major protein signature databases into one comprehensive resource. PROSITE, Pfam, PRINTS, ProDom, SMART, TIGRFAMs, PIR SuperFamily and, the structure-based SUPERFAMILY have been manually integrated and are available in InterPro for text- and sequence-based searching. CATH and PANTHER HMMs will soon be integrated. The results are provided in a single, comprehensive format, with links to the original data sources, as well as specialised functional databases. The latest release of InterPro contains over 10,000 entries, with 78% coverage of all proteins in UniProt. Each entry has annotation provided in the name, GO mapping and abstract fields, and all matches against the Swiss-Prot and TrEMBL components of UniProt are precomputed and available for viewing in different formats. Protein 3D structural information is integrated from MSD, CATH and SCOP, and this data is available in the match views to provide an at a glance comparison of sequence and structural domains. The database is available via a webserver (http://www.ebi.ac.uk/interpro) and anonymous FTP (ftp://ftp.ebi.ac.uk/pub/databases/interpro). InterProScan provides a sequence search package that can be used via a web interface or can be installed locally for bulk searches.
    Subject Area : Integrated Documentation on Protein Families


    Institute/s :
    The European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK
    Address of Institute/s :
    EMBL Outstation - The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Country : United Kingdom

    Associated Institutes :

    • EMBL Outstation - The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    • Swiss Institute for Bioinformatics, Geneva, Switzerland
    • Swiss Institute for Experimental Cancer Research, Lausanne, Switzerland
    • School of Biological Sciences, The University of Manchester, Manchester, UK
    • The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    • CNRS/INRA, Toulouse, France
    • MRC Functional Genetics Unit, Department of Human Anatomy and Genetics, University of Oxford, UK
    • Biocomputing Unit, EMBL-Heidelberg, Germany
    • The Institute for Genomic Research, Maryland, USA
    • Protein Information Resource, Georgetown University Medical Center, Washington, DC, USA
    • Genomic Sciences Centre, RIKEN Yokohama Institute, Suehiro-cho, Tsurumi-ku, Yokohama, Japan
    • MRC Laboratory of Molecular Biology, Cambridge, UK
    • Wellcome Trust Centre for Human Genetics, Oxford, UK

    Associated Country : United Kingdom; USA; Germany; Switzerland; France; Japan


    Authors/Contributors : Mulder, N.
    Contact Email : mulder@ebi.ac.uk
    Year : 2009
    Language : English

    Keywords : Amino Acid Sequence; Computational Biology / methods; Databases, Protein; Markov Chains; Proteins / classification


  2. InterPro (View Publication)
    Full Name of the Resource : Integrated documentation resource of protein families
    Resource Category : Databases -> Protein Sequence Databases -> Protein Domain Databases (Protein Classification)

    Brief Description : InterPro, an integrated documentation resource of protein families, domains and functional sites, was created in 1999 to amalgamate the major protein signature databases into one comprehensive resource. PROSITE, Pfam, PRINTS, ProDom, SMART, TIGRFAMs, PIR SuperFamily and, the structure-based SUPERFAMILY have been manually integrated and are available in InterPro for text- and sequence-based searching. CATH and PANTHER HMMs will soon be integrated. The results are provided in a single, comprehensive format, with links to the original data sources, as well as specialised functional databases. The latest release of InterPro contains over 10,000 entries, with 78% coverage of all proteins in UniProt. Each entry has annotation provided in the name, GO mapping and abstract fields, and all matches against the Swiss-Prot and TrEMBL components of UniProt are precomputed and available for viewing in different formats. Protein 3D structural information is integrated from MSD, CATH and SCOP, and this data is available in the match views to provide an at a glance comparison of sequence and structural domains. The database is available via a webserver (http://www.ebi.ac.uk/interpro) and anonymous FTP (ftp://ftp.ebi.ac.uk/pub/databases/interpro). InterProScan provides a sequence search package that can be used via a web interface or can be installed locally for bulk searches.
    Subject Area : Protein Family, Documentation Resources


    Institute/s :
    EMBL Outstation - The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Address of Institute/s :
    EMBL Outstation - The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Country : United Kingdom

    Associated Institutes :

    • EMBL Outstation - The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    • Swiss Institute for Bioinformatics, Geneva, Switzerland
    • Swiss Institute for Experimental Cancer Research, Lausanne, Switzerland
    • School of Biological Sciences, The University of Manchester, Manchester, UK
    • The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    • CNRS/INRA, Toulouse, France
    • MRC Functional Genetics Unit, Department of Human Anatomy and Genetics, University of Oxford, UK
    • Biocomputing Unit, EMBL-Heidelberg, Germany
    • The Institute for Genomic Research, Maryland, USA
    • Protein Information Resource, Georgetown University Medical Center, Washington, DC, USA
    • Genomic Sciences Centre, RIKEN Yokohama Institute, Suehiro-cho, Tsurumi-ku, Yokohama, Japan
    • MRC Laboratory of Molecular Biology, Cambridge, UK
    • Wellcome Trust Centre for Human Genetics, Oxford, UK

    Associated Country : United Kingdom; USA; Germany; Japan; France; Switzerland


    Authors/Contributors : Mulder, N.
    Contact Email : mulder@ebi.ac.uk
    Year : 2001
    Language : English

    Keywords : Amino Acid Sequence; Computational Biology / methods; Databases, Protein; Markov Chains; Proteins / classification