A simple method of identifying symmetric substructures of proteins
A simple method of identifying symmetric substructures of proteins
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DOI：
10.1016/j.compbiolchem.2008.07.026
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发表时间：
2009-02-01
影响因子：
3.1
通讯作者：
Xiao, Yi
中科院分区：
文献类型：
--
作者：
Chen, Hanlin;Huang, Yanzhao;Xiao, Yi
在蛋白质进化研究和蛋白质设计中，需要准确识别蛋白质的内部对称亚结构。为了克服以前的方法所遇到的困难，在这里，我们提出了一个简单的定量一个使用相似矩阵加皮尔逊相关分析。距离均方根偏差（dRMSD）用于衡量蛋白质中两个亚结构的相似性。我们将该方法应用于β-螺旋桨，果冻卷，和β-三叶家族的蛋白质，结果表明，该方法不仅可以有效地检测蛋白质中的内部重复结构。而且可以容易地识别它们的位置。(c)2008爱思唯尔有限公司保留所有权利。
Accurate identifications of internal symmetric substructures of proteins are needed in protein evolution study and protein design. To overcome the difficulties met by previous methods, here we propose a simple quantitative one by using a similarity matrix plus Pearson's correlation analysis. The distance root-mean-square deviation (dRMSD) is used to measure the similarity of two substructures in a protein. We applied this method to the proteins of the beta-propeller,jelly roll,and beta-trefoil families and the results show that this method cannot only detect the internal repetitive structures in proteins effectively. but also can identify their locations easily. (c) 2008 Elsevier Ltd. All rights reserved.