InterPro, progress and status in 2005.
InterPro, an integrated documentation resource of protein families, domains and functional sites, was created to integrate the major protein signature databases. Currently, it includes PROSITE, Pfam, PRINTS, ProDom, SMART, TIGRFAMs, PIRSF and SUPERFAMILY. Signatures are manually integrated into InterPro entries that are curated to provide biological and functional information. Annotation is provided in an abstract, Gene Ontology mapping and links to specialized databases. New features of InterPro include extended protein match views, taxonomic range information and protein 3D structure data. One of the new match views is the InterPro Domain Architecture view, which shows the domain composition of protein matches. Two new entry types were introduced to better describe InterPro entries: these are active site and binding site. PIRSF and the structure-based SUPERFAMILY are the latest member databases to join InterPro, and CATH and PANTHER are soon to be integrated. InterPro release 8.0 contains 11 007 entries, representing 2573 domains, 8166 families, 201 repeats, 26 active sites, 21 binding sites and 20 post-translational modification sites. InterPro covers over 78% of all proteins in the Swiss-Prot and TrEMBL components of UniProt. 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).
Mulder
Nicola J
NJ
EMBL Outstation-European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK. mulder@ebi.ac.uk
Apweiler
Rolf
R
Attwood
Teresa K
TK
Bairoch
Amos
A
Bateman
Alex
A
Binns
David
D
Bradley
Paul
P
Bork
Peer
P
Bucher
Phillip
P
Cerutti
Lorenzo
L
Copley
Richard
R
Courcelle
Emmanuel
E
Das
Ujjwal
U
Durbin
Richard
R
Fleischmann
Wolfgang
W
Gough
Julian
J
Haft
Daniel
D
Harte
Nicola
N
Hulo
Nicolas
N
Kahn
Daniel
D
Kanapin
Alexander
A
Krestyaninova
Maria
M
Lonsdale
David
D
Lopez
Rodrigo
R
Letunic
Ivica
I
Madera
Martin
M
Maslen
John
J
McDowall
Jennifer
J
Mitchell
Alex
A
Nikolskaya
Anastasia N
AN
Orchard
Sandra
S
Pagni
Marco
M
Ponting
Chris P
CP
Quevillon
Emmanuel
E
Selengut
Jeremy
J
Sigrist
Christian J A
CJ
Silventoinen
Ville
V
Studholme
David J
DJ
Vaughan
Robert
R
Wu
Cathy H
CH
D030562:Databases, Protein / Q000639:trends; D006801:Humans; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry* / Q000145:classification*; D016415:Sequence Alignment; D020539:Sequence Analysis, Protein; D018511:Systems Integration
D011506:Proteins