Statistical correlation between protein secondary structure and messenger RNA stem-loop structure
Statistical correlation between protein secondary structure and messenger RNA stem-loop structure
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DOI：
10.1002/bip.10496
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发表时间：
2004-01-01
期刊：
影响因子：
2.9
通讯作者：
Liu, CQ
中科院分区：
文献类型：
--
作者：
Jia, MW;Luo, LF;Liu, CQ
构建了新的整合mRNA序列、氨基酸序列和蛋白质二级结构数据的集成序列结构数据库IADE （integrated ASTRAL-DSSP-EMBL）。它包括648个蛋白质结构域。基于IADE数据库，我们研究了RNA茎环频率与蛋白质二级结构之间的关系。研究发现，蛋白质上的α -螺旋和β -链更倾向于被mRNA茎区“编码”，而蛋白质上的线圈更倾向于被mRNA环区“编码”。这种趋势在结构词中表现得更为明显。SW是由具有明显二级结构（螺旋或链）倾向的四个氨基酸片段定义的。结果表明，推导出的蛋白质和mRNA结构之间的相关性很难用随机波动效应来解释。(C) 2003 Wiley期刊有限公司
Anew integrated sequence-structure database, called IADE (Integrated ASTRAL-DSSP-EMBL), incorporating matching mRNA sequence, amino acid sequence, and protein secondary structural data, is constructed. It includes 648 protein domains. Based on the IADE database, we studied the relation between RNA stem-loop frequencies and protein secondary structure. It was found that the alpha-helices and beta-strands on proteins tend to be preferably "coded" by mRNA stem region, while the coils on proteins tend to be preferably "coded" by mRNA loop region. These tendencies are more obvious if we observe the structural words (SWs). An SW is defined by a four-amino-acid-fragment that shows the pronounced secondary structural (alpha-helix or beta-strand) propensity. It is demonstrated that the deduced correlation between protein and mRNA structure can hardly be explained as the stochastic fluctuation effect. (C) 2003 Wiley Periodicals, Inc.