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基于完整能量景观建模的单聚合物分子构象转变:连续两态模型

Conformational transitions in single polymer molecules modeled with a complete energy landscape: continuous two-state model.

作者信息

Hanke F, Kreuzer H J

机构信息

Department of Physics and Atmospheric Science, Dalhousie University, B3H 3J5 Halifax, NS, Canada.

出版信息

Eur Phys J E Soft Matter. 2007 Feb;22(2):163-9. doi: 10.1140/epje/e2007-00027-8. Epub 2007 Mar 22.

DOI:10.1140/epje/e2007-00027-8
PMID:17377753
Abstract

An extension of the two-state Freely Jointed Chain model is presented in which the discrete energies of the two conformers are replaced by continuous functions of the conformer length. The statistical mechanics is initially developed in the Gibbs ensemble and leads to a conformational multi-state model. This is used to fit the equilibrium force-extension curve for Dextran. The continuous model also allows the use of Transfer Matrix methods to calculate all statistical properties in the Helmholtz ensemble, including thermal fluctuations. The latter are obtained with near perfect agreement to experiment.

摘要

提出了双态自由连接链模型的一种扩展,其中两个构象异构体的离散能量被构象异构体长度的连续函数所取代。统计力学最初是在吉布斯系综中发展起来的,并导致了一种构象多态模型。这被用于拟合葡聚糖的平衡力-伸长曲线。连续模型还允许使用转移矩阵方法来计算亥姆霍兹系综中的所有统计性质,包括热涨落。后者与实验结果几乎完全吻合。

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本文引用的文献

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Sub-angstrom conformational changes of a single molecule captured by AFM variance analysis.通过原子力显微镜方差分析捕获的单分子亚埃级构象变化。
Biophys J. 2006 May 15;90(10):3806-12. doi: 10.1529/biophysj.105.076224. Epub 2006 Feb 24.
2
Nonequilibrium theory of polymer stretching based on the master equation.
Phys Rev E Stat Nonlin Soft Matter Phys. 2005 Sep;72(3 Pt 1):031805. doi: 10.1103/PhysRevE.72.031805. Epub 2005 Sep 15.
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Reversible protein adsorption and bioadhesion on monolayers terminated with mixtures of oligo(ethylene glycol) and methyl groups.在以聚乙二醇和甲基混合物封端的单分子层上的可逆蛋白质吸附和生物粘附。
J Am Chem Soc. 2005 Oct 26;127(42):14548-9. doi: 10.1021/ja054156g.
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Highly stretched single polymers: atomic-force-microscope experiments versus ab-initio theory.高度拉伸的单聚合物:原子力显微镜实验与从头算理论
Phys Rev Lett. 2005 Feb 4;94(4):048301. doi: 10.1103/PhysRevLett.94.048301. Epub 2005 Jan 31.
5
Molecular dynamics simulations of forced conformational transitions in 1,6-linked polysaccharides.1,6-连接多糖中强制构象转变的分子动力学模拟
Biophys J. 2004 Sep;87(3):1456-65. doi: 10.1529/biophysj.104.042879.
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Relating single-molecule measurements to thermodynamics.将单分子测量与热力学联系起来。
Biophys J. 2003 Feb;84(2 Pt 1):733-8. doi: 10.1016/S0006-3495(03)74892-9.
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Chair-boat transitions in single polysaccharide molecules observed with force-ramp AFM.通过力斜坡原子力显微镜观察单个多糖分子中的椅式-船式转变。
Proc Natl Acad Sci U S A. 2002 Apr 2;99(7):4278-83. doi: 10.1073/pnas.072435699. Epub 2002 Mar 26.
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Nat Biotechnol. 2001 Mar;19(3):258-62. doi: 10.1038/85712.