New developments in the InterPro database

被引：358

作者：

Mulder, Nicola J. ^{[1
]}

Apweiler, Rolf

Attwood, Teresa K.

Bairoch, Amos

Bateman, Alex

Binns, David

Bork, Peer

Buillard, Virginie

Cerutti, Lorenzo

Copley, Richard

Courcelle, Emmanuel

Das, Ujjwal

Daugherty, Louise

Dibley, Mark

Finn, Robert

Fleischmann, Wolfgang

Gough, Julian

Haft, Daniel

Hulo, Nicolas

Hunter, Sarah

Kahn, Daniel

Kanapin, Alexander

Kejariwal, Anish

Labarga, Alberto

Langendijk-Genevaux, Petra S.

Lonsdale, David

Lopez, Rodrigo

Letunic, Ivica

Madera, Martin

Maslen, John

McAnulla, Craig

McDowall, Jennifer

Mistry, Jaina

Mitchell, Alex

Nikolskaya, Anastasia N.

Orchard, Sandra

Orengo, Christine

Petryszak, Robert

Selengut, Jeremy D.

Sigrist, Christian J. A.

Thomas, Paul D.

Valentin, Franck

Wilson, Derek

Wu, Cathy H.

Yeats, Corin

机构：

[1] EMBL Outstn European Bioinformat Inst, Wellcome Trust Genome Campus, Cambridge, England

[2] Wellcome Trust Sanger Inst, Cambridge, England

[3] Univ Manchester, Fac Life Sci, Manchester, Lancs, England

[4] Univ Manchester, Sch Comp Sci, Manchester, Lancs, England

[5] Swiss Inst Bioinformat, Geneva, Switzerland

[6] Univ Geneva, Dept Struct Biol & Bioinformat, CH-1211 Geneva 4, Switzerland

[7] Biocomputing Unit EMBL, Heidelberg, Germany

[8] Wellcome Trust Ctr Human Genet, Oxford, England

[9] CNRS, INRA, Toulouse, France

[10] Univ London, Biochem & Mol Biol Dept, Univ Coll London, London WC1E 6BT, England

[11] RIKEN, Yokohama Inst, Genom Sci Ctr, Tsurumi Ku, Yokohama, Kanagawa, Japan

[12] Inst Genom Res, Rockville, MD USA

[13] Univ Lyon 1, Lab Biometr & Biol Evolut, F-69622 Villeurbanne, France

[14] Univ Lyon 1, INRIA, HELIX Project, F-69622 Villeurbanne, France

[15] SRI Int, Evolut Syst Biol Grp, Menlo Pk, CA USA

[16] MRC Lab Mol Biol, Cambridge, England

[17] Georgetown Univ, Med Ctr, Prot Informat Resource, Washington, DC 20007 USA

来源：

NUCLEIC ACIDS RESEARCH | 2007年 / 35卷

基金：

英国医学研究理事会;

关键词：

D O I：

10.1093/nar/gkl841

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

InterPro is an integrated resource for protein families, domains and functional sites, which integrates the following protein signature databases: PROSITE, PRINTS, ProDom, Pfam, SMART, TIGRFAMs, PIRSF, SUPERFAMILY, Gene3D and PANTHER. The latter two new member databases have been integrated since the last publication in this journal. There have been several new developments in InterPro, including an additional reading field, new database links, extensions to the web interface and additional match XML files. InterPro has always provided matches to UniProtKB proteins on the website and in the match XML file on the FTP site. Additional matches to proteins in UniParc (UniProt archive) are now available for download in the new match XML files only. The latest InterPro release (13.0) contains more than 13 000 entries, covering over 78% of all proteins in UniProtKB.

引用

页码：D224 / D228

页数：5

共 22 条

[1] PRINTS and its automatic supplement, prePRINTS
Attwood, TK
Bradley, P
Flower, DR
Gaulton, A
Maudling, N
Mitchell, AL
Moulton, G
Nordle, A
Paine, K
Taylor, P
Uddin, A
Zygouri, C
[J]. NUCLEIC ACIDS RESEARCH, 2003, 31 (01) : 400 - 402
[2] The ProDom database of protein domain families: more emphasis on 3D
Bru, C
Courcelle, E
Carrre, S
Beausse, Y
Dalmar, S
Kahn, D
[J]. NUCLEIC ACIDS RESEARCH, 2005, 33 : D212 - D215
[3] Pfam:: clans, web tools and services
Finn, Robert D.
Mistry, Jaina
Schuster-Bockler, Benjamin
Griffiths-Jones, Sam
Hollich, Volker
Lassmann, Timo
Moxon, Simon
Marshall, Mhairi
Khanna, Ajay
Durbin, Richard
Eddy, Sean R.
Sonnhammer, Erik L. L.
Bateman, Alex
[J]. NUCLEIC ACIDS RESEARCH, 2006, 34 : D247 - D251
[4] Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure
Gough, J
Karplus, K
Hughey, R
Chothia, C
[J]. JOURNAL OF MOLECULAR BIOLOGY, 2001, 313 (04) : 903 - 919
[5] The TIGRFAMs database of protein families
Haft, DH
Selengut, JD
White, O
[J]. NUCLEIC ACIDS RESEARCH, 2003, 31 (01) : 371 - 373
[6] The Gene Ontology (GO) database and informatics resource
Harris, MA
Clark, J
Ireland, A
Lomax, J
Ashburner, M
Foulger, R
Eilbeck, K
Lewis, S
Marshall, B
Mungall, C
Richter, J
Rubin, GM
Blake, JA
Bult, C
Dolan, M
Drabkin, H
Eppig, JT
Hill, DP
Ni, L
Ringwald, M
Balakrishnan, R
Cherry, JM
Christie, KR
Costanzo, MC
Dwight, SS
Engel, S
Fisk, DG
Hirschman, JE
Hong, EL
Nash, RS
Sethuraman, A
Theesfeld, CL
Botstein, D
Dolinski, K
Feierbach, B
Berardini, T
Mundodi, S
Rhee, SY
Apweiler, R
Barrell, D
Camon, E
Dimmer, E
Lee, V
Chisholm, R
Gaudet, P
Kibbe, W
Kishore, R
Schwarz, EM
Sternberg, P
Gwinn, M
[J]. NUCLEIC ACIDS RESEARCH, 2004, 32 : D258 - D261
[7] IntAct: an open source molecular interaction database
Hermjakob, H
Montecchi-Palazzi, L
Lewington, C
Mudali, S
Kerrien, S
Orchard, S
Vingron, M
Roechert, B
Roepstorff, P
Valencia, A
Margalit, H
Armstrong, J
Bairoch, A
Cesareni, G
Sherman, D
Apweller, R
[J]. NUCLEIC ACIDS RESEARCH, 2004, 32 : D452 - D455
[8] The PROSITE database
Hulo, Nicolas
Bairoch, Amos
Bulliard, Virginie
Cerutti, Lorenzo
De Castro, Edouard
Langendijk-Genevaux, Petra S.
Pagni, Marco
Sigrist, Christian J. A.
[J]. NUCLEIC ACIDS RESEARCH, 2006, 34 : D227 - D230
[9] Exploration of novel motifs derived from mouse cDNA sequences
Kawaji, H
Schönbach, C
Matsuo, Y
Kawai, J
Okazaki, Y
Hayashizaki, Y
Matsuda, H
[J]. GENOME RESEARCH, 2002, 12 (03) : 367 - 378
[10] The SWISS-MODEL repository: new features and functionalities
Kopp, Juergen
Schwede, Torsten
[J]. NUCLEIC ACIDS RESEARCH, 2006, 34 : D315 - D318

← 1 2 3 →