Assessing the impact of secondary structure and solvent accessibility on protein evolution.
Assessing the impact of secondary structure and solvent accessibility on protein evolution.
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DOI：
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发表时间：
1998-05
期刊：
影响因子：
3.3
通讯作者：
N. Goldman;J. Thorne;David C. Jones
中科院分区：
文献类型：
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作者：
N. Goldman;J. Thorne;David C. Jones
采用经验推导的氨基酸替代模型来研究蛋白质的各种物理特征与进化之间的关联。通过将蛋白质进化模型应用于 11 组不同的蛋白质序列，对这些关联的强度进行了统计评估。参数引导测试表明，一个位点的溶剂可及性状态与其经历的氨基酸替换过程有特别强的关联。还观察到二级结构环境与氨基酸置换过程之间存在显着关联。仔细描述二级结构元素的长度分布以及二级结构的组织和沿蛋白质的溶剂可及性并不总是显着改善进化模型与所分析的数据集的拟合度。正如溶剂可及性和二级结构与氨基酸取代的关联强度所表明的，在影响蛋白质进化的物理限制被识别和表征之前，蛋白质进化的过程（无论是在物种水平之上还是在物种水平之下）都不会被很好地理解。
Empirically derived models of amino acid replacement are employed to study the association between various physical features of proteins and evolution. The strengths of these associations are statistically evaluated by applying the models of protein evolution to 11 diverse sets of protein sequences. Parametric bootstrap tests indicate that the solvent accessibility status of a site has a particularly strong association with the process of amino acid replacement that it experiences. Significant association between secondary structure environment and the amino acid replacement process is also observed. Careful description of the length distribution of secondary structure elements and of the organization of secondary structure and solvent accessibility along a protein did not always significantly improve the fit of the evolutionary models to the data sets that were analyzed. As indicated by the strength of the association of both solvent accessibility and secondary structure with amino acid replacement, the process of protein evolution-both above and below the species level-will not be well understood until the physical constraints that affect protein evolution are identified and characterized.