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Nucleic Acids Research 2006 34(Web Server issue):W642-W644; doi:10.1093/nar/gkl323
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© 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@oxfordjournals.org

Article

SNP@Domain: a web resource of single nucleotide polymorphisms (SNPs) within protein domain structures and sequences

Areum Han, Hyo Jin Kang, Yoobok Cho1, Sunghoon Lee, Young Joo Kim and Sungsam Gong*

National Genome Information Center (NGIC), Korea Research Institute of Bioscience and Biotechnology 52 Eoeun-dong, Yuseong-guDaejeon 305-333, Korea 1 Object Interaction Technologies, Inc. Daejeon, Korea

*To whom correspondence should be addressed. Tel: +82 42 879 8549; Fax: +82 42 879 8519; Email: ssgong{at}kribb.re.kr

Received February 14, 2006. Revised March 1, 2006. Accepted April 13, 2006.

The single nucleotide polymorphisms (SNPs) in conserved protein regions have been thought to be strong candidates that alter protein functions. Thus, we have developed SNP@Domain, a web resource, to identify SNPs within human protein domains. We annotated SNPs from dbSNP with protein structure-based as well as sequence-based domains: (i) structure-based using SCOP and (ii) sequence-based using Pfam to avoid conflicts from two domain assignment methodologies. Users can investigate SNPs within protein domains with 2D and 3D maps. We expect this visual annotation of SNPs within protein domains will help scientists select and interpret SNPs associated with diseases. A web interface for the SNP@Domain is freely available at http://snpnavigator.net/ and from http://bioportal.net/.


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