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Nucleic Acids Research 2006 34(Database Issue):D181-D186; doi:10.1093/nar/gkj001
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Nucleic Acids Research, 2006, Vol. 34, Database issue D181-D186
© The Author 2006. 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}oxfordjournals.org

Article

TCDB: the Transporter Classification Database for membrane transport protein analyses and information

Milton H. Saier, Jr*, Can V. Tran and Ravi D. Barabote

Division of Biological Sciences, University of California at San Diego La Jolla, CA 92093-0116, USA

*To whom correspondence should be addressed. Tel. +1 858 534 4084; Fax: +1 858 534 7108; Email: msaier{at}ucsd.edu

Received April 8, 2005. Revised July 7, 2005. Accepted July 18, 2005.

The Transporter Classification Database (TCDB) is a web accessible, curated, relational database containing sequence, classification, structural, functional and evolutionary information about transport systems from a variety of living organisms. TCDB is a curated repository for factual information compiled from >10 000 references, encompassing ~3000 representative transporters and putative transporters, classified into >400 families. The transporter classification (TC) system is an International Union of Biochemistry and Molecular Biology approved system of nomenclature for transport protein classification. TCDB is freely accessible at http://www.tcdb.org. The web interface provides several different methods for accessing the data, including step-by-step access to hierarchical classification, direct search by sequence or TC number and full-text searching. The functional ontology that underlies the database structure facilitates powerful query searches that yield valuable data in a quick and easy way. The TCDB website also offers several tools specifically designed for analyzing the unique characteristics of transport proteins. TCDB not only provides curated information and a tool for classifying newly identified membrane proteins, but also serves as a genome transporter-annotation tool.


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