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The InterPro database, an integrated documentation resource for protein families, domains and functional sites

R. Apweiler
2001 Nucleic Acids Research  
InterPro is an integrated documentation resource for protein families, domains and functional sites, which amalgamates the efforts of the PROSITE, PRINTS, Pfam and ProDom database projects.  ...  Signature databases are vital tools for identifying distant relationships in novel sequences and hence for inferring protein function.  ...  ACKNOWLEDGEMENTS The InterPro project is supported by grant number BIO4-CT98-0052 of the European Commission. T.K.A. is a Royal Society University Research Fellow.  ... 
doi:10.1093/nar/29.1.37 pmid:11125043 pmcid:PMC29841 fatcat:ft4lb3l2zjhnph2ll42i3jnz3e

InterPro: An integrated documentation resource for protein families, domains and functional sites

2002 Briefings in Bioinformatics  
In recognition of this, InterPro was developed as an integrated documentation resource for protein families, domains and functional sites, to rationalise the complementary efforts of the individual protein  ...  Release 4.0 of InterPro (November 2001) contains 4,691 entries, representing 3,532 families, 1,068 domains, 74 repeats and 15 sites of posttranslational modification (PTMs) encoded by different regular  ...  Acknowledgements The InterPro project is supported by the ProFuSe grant (number QLG2-CT-2000-00517) of the European Commission.  ... 
doi:10.1093/bib/3.3.225 pmid:12230031 fatcat:2igbmarmcjbpfphuwf6l7ny4cy

InterPro--an integrated documentation resource for protein families, domains and functional sites

R. Apweiler, T. K. Attwood, A. Bairoch, A. Bateman, E. Birney, M. Biswas, P. Bucher, L. Cerutti, F. Corpet, M. D. R. Croning, R. Durbin, L. Falquet (+16 others)
2000 Bioinformatics  
Motivation: InterPro is a new integrated documentation resource for protein families, domains and functional sites, developed initially as a means of rationalising the complementary efforts of the PROSITE  ...  Availability: The database is accessible for text-and sequence-based searches at  ...  Acknowledgements The InterPro project is supported by grant number BIO4-CT98-0052 of the European Commission. TKA is a Royal Society University Research Fellow.  ... 
doi:10.1093/bioinformatics/16.12.1145 pmid:11159333 fatcat:zz6c5bhuwbhlfofasde65zj7ku

Clustering and analysis of protein families

Evgenia V Kriventseva, Margaret Biswas, Rolf Apweiler
2001 Current Opinion in Structural Biology  
Acknowledgements This work was supported, in part, by grant B104-CT97-2099 from the European Commission.  ...  .: The InterPro database, an integrated documentation resource for protein families, domains and functional sites. Nucleic Acids Res 2001, 29:37-40.  ...  The authors describe the creation of InterPro, a new integrated documentation resource for protein families, domains and functional sites that was developed as a means of rationalising the complementary  ... 
doi:10.1016/s0959-440x(00)00211-6 pmid:11406384 fatcat:pf4nkex5r5e6npnkdlnysrd6ri

InterPro in 2011: new developments in the family and domain prediction database

S. Hunter, P. Jones, A. Mitchell, R. Apweiler, T. K. Attwood, A. Bateman, T. Bernard, D. Binns, P. Bork, S. Burge, E. de Castro, P. Coggill (+45 others)
2012 Nucleic Acids Research  
InterPro (http://www.ebi.ac.uk/interpro/) is a database that integrates diverse information about protein families, domains and functional sites, and makes it freely available to the public via Web-based  ...  Herein we give an overview of new developments in the database and its associated software since 2009, including updates to  ...  protein families, domains, sites and repeats.  ... 
doi:10.1093/nar/gks456 pmcid:PMC3378909 fatcat:oqmafftblfcmdgh4a3i4nzqpzu

InterPro in 2011: new developments in the family and domain prediction database

S. Hunter, P. Jones, A. Mitchell, R. Apweiler, T. K. Attwood, A. Bateman, T. Bernard, D. Binns, P. Bork, S. Burge, E. de Castro, P. Coggill (+38 others)
2011 Nucleic Acids Research  
protein families, domains, sites and repeats.  ...  The aim of InterPro is to combine their individual strengths to provide a single resource through which scientists can access comprehensive information about protein families, domains and functional sites  ... 
doi:10.1093/nar/gkr948 pmid:22096229 pmcid:PMC3245097 fatcat:awtdl7qobjhnveofe7jxno6ju4

InterPro, progress and status in 2005

N. J. Mulder
2004 Nucleic Acids Research  
InterPro, an integrated documentation resource of protein families, domains and functional sites, was created to integrate the major protein signature databases.  ...  InterPro covers over 78% of all proteins in the Swiss-Prot and TrEMBL components of UniProt. The database is available for text-and sequencebased searches via a webserver (  ...  ACKNOWLEDGEMENTS The InterPro project is supported by the ProFuSe grant (number QLG2-CT-2000-00517) and the Integr8 grant (number QLRI-CT-2001000015) of the European Commission.  ... 
doi:10.1093/nar/gki106 pmid:15608177 pmcid:PMC540060 fatcat:ykhpocbakfck3elxzhjb7z34rm

Website Review: InterPro (The Integrated Resource of Protein Domains and Functional Sites). http://www.ebi.ac.uk/interpro/

Christopher Southan
2000 Yeast  
The family and motif databases, PROSITE, PRINTS, Pfam and ProDom, have been integrated into a powerful resource for protein secondary annotation.  ...  Because the contributing databases have different clustering principles and scoring sensitivities, the combined assignments compliment each other for grouping protein families and delineating domains.  ...  Other members of the project team are listed on the website at http://www.ebi.ac.uk/interpro/release_notes.html. Source databases  ... 
doi:10.1002/1097-0061(200012)17:4<327::aid-yea45>3.3.co;2-b pmid:11119311 pmcid:PMC2448387 fatcat:37anj5oo5ra65lnckr6vvsmvye

InterPro (The Integrated Resource of Protein Domains and Functional Sites)

Christopher Southan
2000 Yeast  
The family and motif databases, PROSITE, PRINTS, Pfam and ProDom, have been integrated into a powerful resource for protein secondary annotation.  ...  Because the contributing databases have different clustering principles and scoring sensitivities, the combined assignments compliment each other for grouping protein families and delineating domains.  ...  Other members of the project team are listed on the website at http://www.ebi.ac.uk/interpro/release_notes.html. Source databases  ... 
doi:10.1002/1097-0061(200012)17:4<327::aid-yea45>3.0.co;2-k fatcat:y52i3tf7fjavbfcvgvaefvudsq

The InterPro Database, 2003 brings increased coverage and new features

N. J. Mulder
2003 Nucleic Acids Research  
InterPro, an integrated documentation resource of protein families, domains and functional sites, was created in 1999 as a means of amalgamating the major protein signature databases into one comprehensive  ...  resource.  ...  This integration will enhance the capability of the database in the field of protein classification and characterisation and make the database, a true integrated resource for complete protein sequence  ... 
doi:10.1093/nar/gkg046 pmid:12520011 pmcid:PMC165493 fatcat:fy5hcc4yxvgtpgniyqtsnwmqvm

The InterPro protein families database: the classification resource after 15 years

Alex Mitchell, Hsin-Yu Chang, Louise Daugherty, Matthew Fraser, Sarah Hunter, Rodrigo Lopez, Craig McAnulla, Conor McMenamin, Gift Nuka, Sebastien Pesseat, Amaia Sangrador-Vegas, Maxim Scheremetjew (+24 others)
2014 Nucleic Acids Research  
Here, we report on the status of InterPro Figure 1. InterPro matches for UniProtKB entry Q3JCG5 showing predicted protein family membership, domains and sites.  ...  The InterPro database (http://www.ebi.ac.uk/ interpro/) is a freely available resource that can be used to classify sequences into protein families and to predict the presence of important domains and  ...  The aim of InterPro is to combine their individual strengths to provide a single resource, through which scientists can access comprehensive information about protein families, domains and functional sites  ... 
doi:10.1093/nar/gku1243 pmid:25428371 pmcid:PMC4383996 fatcat:4asvzb32obgwhlvdkrfhiokvme

The InterPro protein families and domains database: 20 years on

Matthias Blum, Hsin-Yu Chang, Sara Chuguransky, Tiago Grego, Swaathi Kandasaamy, Alex Mitchell, Gift Nuka, Typhaine Paysan-Lafosse, Matloob Qureshi, Shriya Raj, Lorna Richardson, Gustavo A Salazar (+21 others)
2020 Nucleic Acids Research  
The InterPro database (https://www.ebi.ac.uk/interpro/) provides an integrative classification of protein sequences into families, and identifies functionally important domains and conserved sites.  ...  Founded in 1999, InterPro has become one of the most widely used resources for protein family annotation.  ...  and Siew-Yit Yong.  ... 
doi:10.1093/nar/gkaa977 pmid:33156333 pmcid:PMC7778928 fatcat:vfs7k3dxr5bcpbpvxbptj6r46m

Proteome Analysis Database: online application of InterPro and CluSTr for the functional classification of proteins in whole genomes

R. Apweiler
2001 Nucleic Acids Research  
The two main projects used, InterPro and CluSTr, give a new perspective on families, domains and sites and cover 31-67% (InterPro statistics) of the proteins from each of the complete genomes.  ...  The SWISS-PROT group at EBI has developed the Proteome Analysis Database utilising existing resources and providing comparative analysis of the predicted protein coding sequences of the complete genomes  ...  InterPro InterPro (http://www.ebi.ac.uk/interpro/) (9) is an integrated documentation resource of protein families, domains and functional sites that has been developed initially as a means of rationalising  ... 
doi:10.1093/nar/29.1.44 pmid:11125045 pmcid:PMC29822 fatcat:ug42g6zpf5bsfoam7zavbsvlki

Tools and resources for identifying protein families, domains and motifs

Nicola J Mulder, Rolf Apweiler
2001 Genome Biology  
The most useful tools use various methods for identifying motifs or domains found in previously characterized protein families.  ...  This article reviews the tools and resources available on the web for identifying signatures within proteins and discusses how they may be used in the analysis of new or unknown protein sequences.  ...  documentation resource for protein families, domains http://www.ebi.ac.uk/interpro/ [49] and functional sites IProClass Integrated protein classification database http://pir.georgetown.edu/iproclass  ... 
pmid:11806833 pmcid:PMC150457 fatcat:jqx7k7zk5jbe7pp3nrg22lo32e

Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation

S. Burge, E. Kelly, D. Lonsdale, P. Mutowo-Muellenet, C. McAnulla, A. Mitchell, A. Sangrador-Vegas, S.-Y. Yong, N. Mulder, S. Hunter
2012 Database: The Journal of Biological Databases and Curation  
We describe a revised protocol for GO mapping that enables us to assign GO terms to domains based on the function of the individual domain, rather than the function of the families in which the domain  ...  The InterPro2GO mappings are comprised of the cross-references between these two resources and are the largest source of GO annotation predictions for proteins.  ...  Acknowledgements We thank Emily Dimmer and Claire O'Donovan for their critical reading of this manuscript and Tony Sawford for assistance with protein match counts. Conflict of interest.  ... 
doi:10.1093/database/bar068 pmid:22301074 pmcid:PMC3270475 fatcat:mczeyk6qqrhxpn2aysoyqgocde
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