SNPΔomain: A web resource of single nucleotide polymorphisms (SNPs) within protein domain structures and sequences

Abstract

The single nucleotide polymorphisms (SNPs) in conserved protein regions have been thought to be strong candidates that alter protein functions. Thus, we have developed SNPΔomain, 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 SNPΔomain is freely available at http://snpnavigator.net/ and from http://bioportal.net/. © The Author 2006. Published by Oxford University Press. All rights reserved.