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一种仿生弹性蛋白模型的逆温度转变:折叠/去折叠的反应通量分析及其与溶剂介电弛豫的耦合

Inverse temperature transition of a biomimetic elastin model: reactive flux analysis of folding/unfolding and its coupling to solvent dielectric relaxation.

作者信息

Baer Marcel, Schreiner Eduard, Kohlmeyer Axel, Rousseau Roger, Marx Dominik

机构信息

Lehrstuhl für Theoretische Chemie, Ruhr-Universität Bochum, 44780 Bochum, Germany.

出版信息

J Phys Chem B. 2006 Mar 2;110(8):3576-87. doi: 10.1021/jp054805a.

Abstract

The inverse temperature transition (ITT) of a biomimetic model for elastin, capped GVG(VPGVG) in liquid water, is investigated by a comprehensive classical molecular dynamics study. The temperature dependence of the solvation structure and dynamics of the octapeptide are compared using three common force fields, CHARMM, GROMOS, and OPLS. While these force fields differ in quantitative detail, they all predict this octapeptide to undergo a "folding transition" to closed conformations upon heating and a subsequent "unfolding transition" to open conformations at still higher temperatures, thus reproducing the ITT scenario. The peptide kinetics is analyzed within the reactive flux formalism applied to the largest-amplitude mode extracted from principal component analysis, and the solvent's dielectric fluctuations are obtained from the total water dipole autocorrelations. Most importantly, preliminary evidence for an intimate coupling of peptide folding/unfolding dynamics, and thus the ITT, and dielectric relaxation of bulk water is given, possibly being consistent with a "slave mode" picture.

摘要

通过全面的经典分子动力学研究,对液态水中一种用于弹性蛋白的仿生模型——封端的GVG(VPGVG)的逆温度转变(ITT)进行了研究。使用三种常用的力场CHARMM、GROMOS和OPLS,比较了八肽的溶剂化结构和动力学对温度的依赖性。虽然这些力场在定量细节上有所不同,但它们都预测这种八肽在加热时会经历“折叠转变”形成封闭构象,并在更高温度下随后经历“展开转变”形成开放构象,从而再现了ITT情景。在应用于从主成分分析中提取的最大振幅模式的反应通量形式体系内分析肽动力学,并从总水偶极自相关中获得溶剂的介电涨落。最重要的是,给出了肽折叠/展开动力学以及因此的ITT与 bulk 水的介电弛豫紧密耦合的初步证据,这可能与“从属模式”图景一致。

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