InterPro: The integrative protein signature database

Sarah Hunter; Rolf Apweiler; Teresa K. Attwood; Amos Bairoch; Alex Bateman; David Binns; Peer Bork; Ujjwal Das; Louise Daugherty; Lauranne Duquenne; Robert D. Finn; Julian Gough; Daniel Haft; Nicolas Hulo; Daniel Kahn; Elizabeth Kelly; Aurélie Laugraud; Ivica Letunic; David Lonsdale; Rodrigo Lopez; Martin Madera; John Maslen; Craig Mcanulla; Jennifer McDowall; Jaina Mistry; Alex Mitchell; Nicola Mulder; Darren Natale; Christine Orengo; Antony F. Quinn; Jeremy D. Selengut; Christian J.A. Sigrist; Manjula Thimma; Paul D. Thomas; Franck Valentin; Derek Wilson; Cathy H. Wu; Corin Yeats

doi:10.1093/nar/gkn785

InterPro: The integrative protein signature database

Sarah Hunter^*, Rolf Apweiler, Teresa K. Attwood, Amos Bairoch, Alex Bateman, David Binns, Peer Bork, Ujjwal Das, Louise Daugherty, Lauranne Duquenne, Robert D. Finn, Julian Gough, Daniel Haft, Nicolas Hulo, Daniel Kahn, Elizabeth Kelly, Aurélie Laugraud, Ivica Letunic, David Lonsdale, Rodrigo LopezMartin Madera, John Maslen, Craig Mcanulla, Jennifer McDowall, Jaina Mistry, Alex Mitchell, Nicola Mulder, Darren Natale, Christine Orengo, Antony F. Quinn, Jeremy D. Selengut, Christian J.A. Sigrist, Manjula Thimma, Paul D. Thomas, Franck Valentin, Derek Wilson, Cathy H. Wu, Corin Yeats

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

1564 Scopus citations

Abstract

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 ∼ 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/).

Original language	English (US)
Pages (from-to)	D211-D215
Journal	NUCLEIC ACIDS RESEARCH
Volume	37
Issue number	SUPPL. 1
DOIs	https://doi.org/10.1093/nar/gkn785
State	Published - 2009
Externally published	Yes

ASJC Scopus subject areas

Genetics

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10.1093/nar/gkn785

Cite this

Hunter, S., Apweiler, R., Attwood, T. K., Bairoch, A., Bateman, A., Binns, D., Bork, P., Das, U., Daugherty, L., Duquenne, L., Finn, R. D., Gough, J., Haft, D., Hulo, N., Kahn, D., Kelly, E., Laugraud, A., Letunic, I., Lonsdale, D., ... Yeats, C. (2009). InterPro: The integrative protein signature database. NUCLEIC ACIDS RESEARCH, 37(SUPPL. 1), D211-D215. https://doi.org/10.1093/nar/gkn785

@article{fa35ea5a00a743df91efb002e09b8a30,

title = "InterPro: The integrative protein signature database",

abstract = "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 ∼ 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/).",

author = "Sarah Hunter and Rolf Apweiler and Attwood, {Teresa K.} and Amos Bairoch and Alex Bateman and David Binns and Peer Bork and Ujjwal Das and Louise Daugherty and Lauranne Duquenne and Finn, {Robert D.} and Julian Gough and Daniel Haft and Nicolas Hulo and Daniel Kahn and Elizabeth Kelly and Aur{\'e}lie Laugraud and Ivica Letunic and David Lonsdale and Rodrigo Lopez and Martin Madera and John Maslen and Craig Mcanulla and Jennifer McDowall and Jaina Mistry and Alex Mitchell and Nicola Mulder and Darren Natale and Christine Orengo and Quinn, {Antony F.} and Selengut, {Jeremy D.} and Sigrist, {Christian J.A.} and Manjula Thimma and Thomas, {Paul D.} and Franck Valentin and Derek Wilson and Wu, {Cathy H.} and Corin Yeats",

note = "Funding Information: European Union (213037); Biotechnology and Biological Sciences Research Council (BB/F010508/1); National Institute of Health (GM081084); Wellcome Trust (to AB., R.D.F. and J.M.). Funding for open access charge: European Bioinformatics Institute.",

year = "2009",

doi = "10.1093/nar/gkn785",

language = "English (US)",

volume = "37",

pages = "D211--D215",

journal = "NUCLEIC ACIDS RESEARCH",

issn = "0305-1048",

publisher = "OXFORD UNIV PRESS",

number = "SUPPL. 1",

}

Hunter, S, Apweiler, R, Attwood, TK, Bairoch, A, Bateman, A, Binns, D, Bork, P, Das, U, Daugherty, L, Duquenne, L, Finn, RD, Gough, J, Haft, D, Hulo, N, Kahn, D, Kelly, E, Laugraud, A, Letunic, I, Lonsdale, D, Lopez, R, Madera, M, Maslen, J, Mcanulla, C, McDowall, J, Mistry, J, Mitchell, A, Mulder, N, Natale, D, Orengo, C, Quinn, AF, Selengut, JD, Sigrist, CJA, Thimma, M, Thomas, PD, Valentin, F, Wilson, D, Wu, CH & Yeats, C 2009, 'InterPro: The integrative protein signature database', NUCLEIC ACIDS RESEARCH, vol. 37, no. SUPPL. 1, pp. D211-D215. https://doi.org/10.1093/nar/gkn785

TY - JOUR

T1 - InterPro

T2 - The integrative protein signature database

AU - Hunter, Sarah

AU - Apweiler, Rolf

AU - Attwood, Teresa K.

AU - Bairoch, Amos

AU - Bateman, Alex

AU - Binns, David

AU - Bork, Peer

AU - Das, Ujjwal

AU - Daugherty, Louise

AU - Duquenne, Lauranne

AU - Finn, Robert D.

AU - Gough, Julian

AU - Haft, Daniel

AU - Hulo, Nicolas

AU - Kahn, Daniel

AU - Kelly, Elizabeth

AU - Laugraud, Aurélie

AU - Letunic, Ivica

AU - Lonsdale, David

AU - Lopez, Rodrigo

AU - Madera, Martin

AU - Maslen, John

AU - Mcanulla, Craig

AU - McDowall, Jennifer

AU - Mistry, Jaina

AU - Mitchell, Alex

AU - Mulder, Nicola

AU - Natale, Darren

AU - Orengo, Christine

AU - Quinn, Antony F.

AU - Selengut, Jeremy D.

AU - Sigrist, Christian J.A.

AU - Thimma, Manjula

AU - Thomas, Paul D.

AU - Valentin, Franck

AU - Wilson, Derek

AU - Wu, Cathy H.

AU - Yeats, Corin

N1 - Funding Information: European Union (213037); Biotechnology and Biological Sciences Research Council (BB/F010508/1); National Institute of Health (GM081084); Wellcome Trust (to AB., R.D.F. and J.M.). Funding for open access charge: European Bioinformatics Institute.

PY - 2009

Y1 - 2009

N2 - 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 ∼ 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/).

AB - 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 ∼ 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/).

UR - http://www.scopus.com/inward/record.url?scp=58149203231&partnerID=8YFLogxK

U2 - 10.1093/nar/gkn785

DO - 10.1093/nar/gkn785

M3 - Article

C2 - 18940856

AN - SCOPUS:58149203231

SN - 0305-1048

VL - 37

SP - D211-D215

JO - NUCLEIC ACIDS RESEARCH

JF - NUCLEIC ACIDS RESEARCH

IS - SUPPL. 1

ER -

InterPro: The integrative protein signature database

Abstract

ASJC Scopus subject areas

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