Pre-calculated protein structure alignments at the RCSB PDB website

被引：155

作者：

Prlic, Andreas ^{[1
]}

Bliven, Spencer ^{[2
]}

Rose, Peter W. ^{[1
]}

Bluhm, Wolfgang F. ^{[1
]}

Bizon, Chris ^{[3
]}

Godzik, Adam ^{[4
]}

Bourne, Philip E. ^{[5
]}

机构：

[1] Univ Calif San Diego, San Diego Supercomp Ctr, La Jolla, CA 92093 USA

[2] Univ Calif San Diego, Bioinformat Program, La Jolla, CA 92093 USA

[3] Univ N Carolina, Renaissance Comp Inst, Chapel Hill, NC 27517 USA

[4] Univ Calif San Diego, Joint Ctr Struct Genom, La Jolla, CA 92093 USA

[5] Univ Calif San Diego, Skaggs Sch Pharm & Pharmaceut Sci, La Jolla, CA 92093 USA

来源：

BIOINFORMATICS | 2010年 / 26卷 / 23期

基金：

美国国家科学基金会;

关键词：

FOLD SPACE; SIMILARITY; SEQUENCE; DISTANCE;

D O I：

10.1093/bioinformatics/btq572

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

With the continuous growth of the RCSB Protein Data Bank ( PDB), providing an up-to-date systematic structure comparison of all protein structures poses an ever growing challenge. Here, we present a comparison tool for calculating both 1D protein sequence and 3D protein structure alignments. This tool supports various applications at the RCSB PDB website. First, a structure alignment web service calculates pairwise alignments. Second, a stand-alone application runs alignments locally and visualizes the results. Third, pre-calculated 3D structure comparisons for the whole PDB are provided and updated on a weekly basis. These three applications allow users to discover novel relationships between proteins available either at the RCSB PDB or provided by the user.

引用

页码：2983 / 2985

页数：3

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