Classification and nomenclature of the superfamily of short-chain dehydrogenases/reductases (SDRs)

被引：129

作者：

Persson, Bengt ^{[1
,2
,3
]}

Kallberg, Yvonne ^{[4
]}

机构：

[1] Linkoping Univ, IFM Bioinformat, S-58183 Linkoping, Sweden

[2] Linkoping Univ, SeRC Swedish E Sci Res Ctr, S-58183 Linkoping, Sweden

[3] Karolinska Inst, Dept Cell & Mol Biol CMB, Sci Life Lab, S-17177 Stockholm, Sweden

[4] Karolinska Inst, Ctr Mol Med, BILS, S-17177 Stockholm, Sweden

来源：

CHEMICO-BIOLOGICAL INTERACTIONS | 2013年 / 202卷 / 1-3期

关键词：

Short-chain dehydrogenases/reductases; Hidden Markov models; Functional assignment; Nomenclature; Classification; Bioinformatics; ALCOHOL;

D O I：

10.1016/j.cbi.2012.11.009

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The short-chain dehydrogenases/reductases (SDRs) constitute one of the largest protein superfamilies known today. The members are distantly related with typically 20-30% residue identity in pair-wise comparisons. Still, all hitherto structurally known SDRs present a common three-dimensional structure consisting of a Rossmann fold with a parallel beta sheet flanked by three helices on each side. Using hidden Markov models (HMMs), we have developed a semi-automated subclassification system for this huge family. Currently, 75% of all SDR forms have been assigned to one of the 464 families totalling 122,940 proteins. There are 47 human SDR families, corresponding to 75 genes. Most human SDR families (35 families) have only one gene, while 12 have between 2 and 8 genes. For more than half of the human SDR families, the three-dimensional fold is known. The number of SDR members increases considerably every year, but the number of SDR families now starts to converge. The classification method has paved the ground for a sustainable and expandable nomenclature system. Information on the SDR superfamily is continuously updated at http://sdr-enzymes.org/. (C) 2012 Elsevier Ireland Ltd. All rights reserved.

引用

页码：111 / 115

页数：5

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