动力学障碍以及拓扑结构在蛋白质和RNA折叠中的作用。
Kinetic barriers and the role of topology in protein and RNA folding.
作者信息
Sosnick Tobin R
机构信息
University of Chicago, 929 East 57th Street, GCIS W107E, Chicago, IL 60637, USA.
出版信息
Protein Sci. 2008 Aug;17(8):1308-18. doi: 10.1110/ps.036319.108. Epub 2008 May 23.
Abstract
This review compares the folding behavior of proteins and RNAs. Topics covered include the role of topology in the determination of folding rates, major folding events including collapse, properties of denatured states, pathway heterogeneity, and the influence of the mode of initiation on the folding pathway.
摘要
本综述比较了蛋白质和RNA的折叠行为。涵盖的主题包括拓扑结构在折叠速率测定中的作用、主要折叠事件（包括折叠塌陷）、变性状态的性质、折叠途径的异质性以及起始方式对折叠途径的影响。
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1
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J Mol Biol. 2008 Apr 11;377(5):1576-92. doi: 10.1016/j.jmb.2008.02.009. Epub 2008 Feb 14.
2
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J Mol Biol. 2008 Jan 11;375(2):572-80. doi: 10.1016/j.jmb.2007.10.052. Epub 2007 Oct 24.
3
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Proc Natl Acad Sci U S A. 2007 Nov 13;104(46):17995-8000. doi: 10.1073/pnas.0705038104. Epub 2007 Nov 6.
4
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