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InterPro数据库的新进展。

New developments in the InterPro database.

作者信息

Mulder Nicola J, 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

机构信息

EMBL Outstation-European Bioinformatics Institute Hinxton, Cambridge, UK.

出版信息

Nucleic Acids Res. 2007 Jan;35(Database issue):D224-8. doi: 10.1093/nar/gkl841.

DOI:10.1093/nar/gkl841
PMID:17202162
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC1899100/
Abstract

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. 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). The InterProScan search tool is now also available via a web service at http://www.ebi.ac.uk/Tools/webservices/WSInterProScan.html.

摘要

InterPro是一个关于蛋白质家族、结构域和功能位点的综合资源库，它整合了以下蛋白质特征数据库：PROSITE、PRINTS、ProDom、Pfam、SMART、TIGRFAMs、PIRSF、SUPERFAMILY、Gene3D和PANTHER。自本期刊上次发表以来，后两个新成员数据库已被整合。InterPro有多项新进展，包括一个额外的阅读字段、新的数据库链接、网页界面扩展以及更多匹配XML文件。InterPro一直在网站上以及FTP站点的匹配XML文件中提供与UniProtKB蛋白质的匹配信息。现在，仅在新的匹配XML文件中提供与UniParc（UniProt存档）中蛋白质的额外匹配信息以供下载。InterPro的最新版本（13.0）包含超过13000个条目，覆盖了UniProtKB中所有蛋白质的78%以上。该数据库可通过网络服务器（http://www.ebi.ac.uk/interpro）进行基于文本和序列的搜索，并可通过匿名FTP（ftp://ftp.ebi.ac.uk/pub/databases/interpro）进行下载。InterProScan搜索工具现在也可通过网络服务在http://www.ebi.ac.uk/Tools/webservices/WSInterProScan.html获取。

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本文引用的文献

1
The SWISS-MODEL Repository: new features and functionalities.
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D315-8. doi: 10.1093/nar/gkj056.
2
Gene3D: modelling protein structure, function and evolution.
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D281-4. doi: 10.1093/nar/gkj057.
3
SMART 5: domains in the context of genomes and networks.
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D257-60. doi: 10.1093/nar/gkj079.
4
Pfam: clans, web tools and services.
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D247-51. doi: 10.1093/nar/gkj149.
5
The PROSITE database.
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D227-30. doi: 10.1093/nar/gkj063.
6
The Universal Protein Resource (UniProt): an expanding universe of protein information.
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D187-91. doi: 10.1093/nar/gkj161.
7
InterProScan: protein domains identifier.
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W116-20. doi: 10.1093/nar/gki442.
8
The predictive power of the CluSTr database.
Bioinformatics. 2005 Sep 15;21(18):3604-9. doi: 10.1093/bioinformatics/bti542. Epub 2005 Jun 16.
9
The PANTHER database of protein families, subfamilies, functions and pathways.
Nucleic Acids Res. 2005 Jan 1;33(Database issue):D284-8. doi: 10.1093/nar/gki078.
10
The ProDom database of protein domain families: more emphasis on 3D.
Nucleic Acids Res. 2005 Jan 1;33(Database issue):D212-5. doi: 10.1093/nar/gki034.

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