蛋白质：结构与功能。
Proteins: form and function.
作者信息
Sleator Roy D
机构信息
Department of Biological Sciences, Cork Institute of Technology, Cork, Ireland.
出版信息
Bioeng Bugs. 2012 Mar-Apr;3(2):80-5. doi: 10.4161/bbug.18303. Epub 2012 Mar 1.
Abstract
An overwhelming array of structural variants has evolved from a comparatively small number of protein structural domains; which has in turn facilitated an expanse of functional derivatives. Herein, I review the primary mechanisms which have contributed to the vastness of our existing, and expanding, protein repertoires. Protein function prediction strategies, both sequence and structure based, are also discussed and their associated strengths and weaknesses assessed.
摘要
数量庞大的结构变异体由相对少数的蛋白质结构域演变而来；这反过来又促进了功能衍生物的广泛产生。在此，我回顾了促成我们现有且不断扩展的蛋白质库如此庞大的主要机制。还讨论了基于序列和结构的蛋白质功能预测策略，并评估了它们各自的优缺点。
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2
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3
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