Skip Navigation


Bioinformatics Advance Access originally published online on August 9, 2005
Bioinformatics 2005 21(21):4060-4066; doi:10.1093/bioinformatics/bti614
This Article
Right arrow Full Text Freely available
Right arrow FREE Full Text (Print PDF) Freely available
Right arrow All Versions of this Article:
21/21/4060    most recent
bti614v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (7)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Sigrist, C. J. A.
Right arrow Articles by Hulo, N.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Sigrist, C. J. A.
Right arrow Articles by Hulo, N.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oxfordjournals.org

ProRule: a new database containing functional and structural information on PROSITE profiles

Christian J. A. Sigrist *, Edouard De Castro , Petra S. Langendijk-Genevaux , Virginie Le Saux , Amos Bairoch 1 and Nicolas Hulo

Swiss Institute of Bioinformatics (SIB) 1 rue Michel Servet CH-1211 Geneva 4 Switzerland
1Structural Biology and Bioinformatics Department, University of Geneva Geneva, Switzerland

*To whom correspondence should be addressed.

Motivation: Increase the discriminatory power of PROSITE profiles to facilitate function determination and provide biologically relevant information about domains detected by profiles for the annotation of proteins.

Summary: We have created a new database, ProRule, which contains additional information about PROSITE profiles. ProRule contains notably the position of structurally and/or functionally critical amino acids, as well as the condition they must fulfill to play their biological role. These supplementary data should help function determination and annotation of the UniProt Swiss-Prot knowledgebase. ProRule also contains information about the domain detected by the profile in the Swiss-Prot line format. Hence, ProRule can be used to make Swiss-Prot annotation more homogeneous and consistent. The format of ProRule can be extended to provide information about combination of domains.

Availability: ProRule can be accessed through ScanProsite at http://www.expasy.org/tools/scanprosite. A file containing the rules will be made available under the PROSITE copyright conditions on our ftp site (ftp://www.expasy.org/databases/prosite/) by the next PROSITE release.

Contact: christian.sigrist{at}isb-sib.ch

Received on May 18, 2005; revised on July 8, 2005; accepted on August 3, 2005

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 Nucleic Acids ResHome page
N. Hulo, A. Bairoch, V. Bulliard, L. Cerutti, B. A. Cuche, E. de Castro, C. Lachaize, P. S. Langendijk-Genevaux, and C. J. A. Sigrist
The 20 years of PROSITE
Nucleic Acids Res., January 11, 2008; 36(suppl_1): D245 - D249.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
E. de Castro, C. J. A. Sigrist, A. Gattiker, V. Bulliard, P. S. Langendijk-Genevaux, E. Gasteiger, A. Bairoch, and N. Hulo
ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins.
Nucleic Acids Res., July 1, 2006; 34(Web Server issue): W362 - W365.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
N. Hulo, A. Bairoch, V. Bulliard, L. Cerutti, E. De Castro, P. S. Langendijk-Genevaux, M. Pagni, and C. J. A. Sigrist
The PROSITE database
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D227 - D230.
[Abstract] [Full Text] [PDF]


Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.