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Nucleic Acids Research 2005 33(Web Server Issue):W277-W280; doi:10.1093/nar/gki371
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© The Author 2005. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oupjournals.org

Article

ProTeus: identifying signatures in protein termini

Iris Bahir and Michal Linial*

Department of Biological Chemistry, Institute of Life Sciences, Hebrew University Jerusalem 91904, Israel

*To whom correspondence should be addressed. Tel: +972 2 6585425; Fax: +972 2 6586448; Email: michall{at}cc.huji.ac.il, michal.linial{at}huji.ac.il

Received January 28, 2005. Revised March 7, 2005. Accepted March 7, 2005.

ProTeus (PROtein TErminUS) is a web-based tool for the identification of short linear signatures in protein termini. It is based on a position-based search method for revealing short signatures in termini of all proteins. The initial step in ProTeus development was to collect all signature groups (SIGs) based on their relative positions at the termini. The initial set of SIGs went through a sequential process of inspection and removal of SIGs, which did not meet the attributed statistical thresholds. The SIGs that were found significant represent protein sets with minimal or no overall sequence similarity besides the similarity found at the termini. These SIGs were archived and are presented at ProTeus. The SIGs are sorted by their strong correspondence to functional annotation from external databases such as GO. ProTeus provides rich search and visualization tools for evaluating the quality of different SIGs. A search option allows the identification of terminal signatures in new sequences. ProTeus (ver 1.2) is available at http://www.proteus.cs.huji.ac.il.

Present address: Michal Linial, Department of Computer Science and Engineering, University of Washington, Seattle, WA 98195, USA


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