Release Notes

Release 14.0, Friday December 8th 2006

http://www.ebi.ac.uk/interpro/
ftp://ftp.ebi.ac.uk/pub/databases/interpro/

Acknowledgements

R.Apweiler (1), T.K.Attwood (4), A.Bairoch (2), A.Bateman (5), D.Binns (1), P.Bork (8), P.Bucher (3), L.Cerutti (3), R.Copley (13), E.Courcelle (6), U.Das (1), L.Daugherty (1), M.Dibley (7), R.Finn (5), W.Fleischmann (1), J.Gough (11), D.Haft (9), N.Hulo (2), S.Hunter (1), D.Kahn (6), A.Kanapin (1), A. Kejariwal (14), D.Lonsdale (1), R.Lopez (1), I.Letunic (8), M.Madera (12), J.Maslen (1), C.McAnulla (1), J.McDowall (1), J.Mistry (5), A.Mitchell (1,4), N.Mulder (1), A.N.Nikolskaya (10), S.Orchard (1), C.Orengo (7), M.Pagni (3), R. Petryszak (1), C.Sigrist (2), P.D.Thomas (14), D.Wilson (12), C.H.Wu (10), C.Yates (7).

(1) EMBL Outstation European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK;
(2) Swiss Institute for Bioinformatics, Geneva, Switzerland;
(3) Swiss Institute for Experimental Cancer Research, Lausanne, Switzerland;
(4) School of Biological Sciences, The University of Manchester, Manchester, UK;
(5) The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK;
(6) CNRS/INRA, Toulouse, France;
(7) Biochemistry and Molecular Biology Department, University College London, University of London, UK;
(8) Biocomputing Unit, EMBL-Heidelberg, Germany;
(9) The Institute for Genomic Research, Maryland, USA;
(10) Protein Information Resource, Georgetown University Medical Center, Washington, D.C., USA;
(11) Unite de Bioinformatique Structurale, Institut Pasteur, Paris, France;
(12) MRC Laboratory of Molecular Biology, Cambridge, UK;
(13) Wellcome Trust Centre for Human Genetics, Oxford, UK;
(14) Computational Biology, SRI International, 333 Ravenswood Ave., Menlo Park, CA 94025, USA.

Current Release

Introduction

The databases Swiss-Prot and TrEMBL (now part of UniProtKB), PROSITE, PRINTS, Pfam and ProDom joined forces to launch an Integrated Documentation Resource of Protein Families, Domains and Functional Sites, abbreviated InterPro. Since then SMART, TIGRFAMs, PIRSF, SUPERFAMILY and more recently PANTHER and Gene3D, have joined InterPro. A detailed description of the project can be found in the user manual.

Changes since last release

Contents and coverage of the current release

InterPro protein matches are now calculated for all UniProtKB and UniParc proteins. The following statistics are for all UniProtkB proteins:

InterPro release 14.0 contains 13828 entries, representing 3905 domains, 9614 families, 232 repeats, 34 active sites, 22 binding sites and 21 post-translational modification sites. Overall, there are 14689258 InterPro hits from 2798632 UniProtKB protein sequences. A complete list is available from the ftp site.

DATABASE VERSION ENTRIES
PANTHER 6.1 30128
Pfam 20.0 8296
PIRSF 2.68 1748
PRINTS 38.0 1900
ProDom 2005.1 1522
PROSITE patterns 19.30 1968
SMART 5.0 706
TIGRFAMs 6.0 2946
GENE3D 3.0.0 2147
SUPERFAMILY 1.65 1160
UniProtKB/Swiss-Prot 51.0 241365
UniProtKB/TrEMBL 34.0 3368793
InterPro 14.0 13828
GO Classification N/A 22878

92.4% of UniProtKB/Swiss-Prot - 222974 of 241365 proteins

76.5% of UniProtKB/TrEMBL - 2575658 of 3368793 proteins

77.5% of UniProtKB - 2798632 of 3610158 proteins

Last entry: IPR014734

23454 publications in PUBMED are referenced from InterPro.

Lists of InterPro entries by type and to GO

  • Family - Domain - Repeat - PTM - Binding Site - Active Site
  • List of InterPro to GO mappings. These are also available through the EBI GO browser QuickGO
  • Forthcoming changes

    The next release of InterPro will be scheduled for March 2007.