Release Notes

Release 15.1, Wednesday May 30th 2007

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), 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, PRABI, 69622 Villeurbanne Cedex, 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.

Background Information

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.

Current Release

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 15.1 contains 14978 entries, representing 4605 domains, 10066 families, 234 repeats, 34 active sites, 21 binding sites and 18 post-translational modification sites. Overall, there are 18458109 InterPro hits from 3559140 UniProtKB protein sequences. A complete list is available from the ftp site.

Signature database Version Signatures* Integrated signatures**
GENE3D 3.3.0 2386 1441
HAMAP 201207.04 1749 1738
PANTHER 7.2 71246 2845
PIRSF 2.82 3147 3147
PRINTS 42.0 2106 2051
PROSITE patterns 20.83 1308 1291
PROSITE profiles 20.83 1035 1010
Pfam 26.0 13672 13064
PfamB 26.0 20000 0
ProDom 2006.1 1894 1108
SMART 6.2 1008 1001
SUPERFAMILY 1.73 1774 1207
TIGRFAMs 12.0 4203 4180
PANTHER 6.1 30128 Pfam 21.0 8957 PIRSF 2.68 1748 PRINTS 38.0 1900 ProDom 2005.1 1522 PROSITE 20.0 2006 SMART 5.0 706 TIGRFAMs 6.0 2946 GENE3D 3.0.0 2147 SUPERFAMILY 1.69 1538 UniProt/Swiss-Prot 52.5 267354 UniProt/TrEMBL 35.5 4361897 InterPro 15.1 14978 GO Classification N/A 23937

92.5% of UniProtKB/Swiss-Prot - 247187 of 267354 proteins

75.9% of UniProtKB/TrEMBL - 3311953 of 4361897 proteins

76.9% of UniProtKB - 3559140 of 4629251 proteins

Last entry: IPR015873

24669 publications in PUBMED are referenced from InterPro.

Lists of InterPro entries by type and mappings to GO terms

Forthcoming changes

The next release of InterPro is scheduled for July 2007.