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一种理解复杂分子系统结构的方法:以下属脂肪醇为例。

An approach towards understanding the structure of complex molecular systems: the case of lower aliphatic alcohols.

机构信息

Research Institute for Solid State Physics and Optics, Hungarian Academy of Sciences, H-1525 Budapest, PO Box 49, Hungary.

出版信息

J Phys Condens Matter. 2010 Oct 13;22(40):404214. doi: 10.1088/0953-8984/22/40/404214. Epub 2010 Sep 22.

Abstract

An extensive study of liquid aliphatic alcohols methanol, ethanol, and propanol, applying reverse Monte Carlo modelling as a method of interpretation of diffraction data, is presented. The emphasis is on the evaluation of several computational strategies in view of their suitability to obtain high quality molecular models via the reverse Monte Carlo procedure. A consistent set of distances of closest approach and fixed neighbour constraints applicable to all three investigated systems was developed. An all-atom description is compared with a united-atom approach. The potentialities of employment of neutron diffraction data of completely deuterated and isotopically substituted samples, x-ray diffraction data, and results of either molecular dynamics or Monte Carlo calculations were investigated. Results show that parallel application of x-ray and neutron diffraction data, the latter being from completely deuterated samples, within an all-atom reverse Monte Carlo procedure is the most successful strategy towards attaining reliable, detailed, and well-structured molecular models, especially if the models are subsequently refined with the results of molecular dynamics simulations.

摘要

应用反蒙特卡罗建模作为解释衍射数据的方法,对液态脂肪醇甲醇、乙醇和丙醇进行了广泛的研究。重点是评估几种计算策略,以考察它们通过反蒙特卡罗程序获得高质量分子模型的适用性。针对所有三种被研究的体系,开发了一套一致的最近邻距离和固定邻接约束。比较了全原子描述和统一原子方法。还研究了利用完全氘代和同位素取代样品的中子衍射数据、X 射线衍射数据以及分子动力学或蒙特卡罗计算结果的可能性。结果表明,在全原子反蒙特卡罗程序中,同时应用 X 射线和中子衍射数据,后者来自完全氘代样品,是获得可靠、详细和结构良好的分子模型的最成功策略,特别是如果随后使用分子动力学模拟的结果对模型进行细化。

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