Suppr超能文献

钾在水中溶剂化的理论研究:对比从头算、可极化和固定电荷模型

A theoretical study of aqueous solvation of K comparing ab initio, polarizable, and fixed-charge models.

作者信息

Whitfield Troy W, Varma Sameer, Harder Edward, Lamoureux Guillaume, Rempe Susan B, Roux Benoît

机构信息

Biosciences Division, Argonne National Laboratory, 9700 S. Cass Avenue, Argonne, IL 60439.

出版信息

J Chem Theory Comput. 2007;3(6):2068-2082. doi: 10.1021/ct700172b.

Abstract

The hydration of K(+) is studied using a hierarchy of theoretical approaches, including ab initio Born-Oppenheimer molecular dynamics and Car-Parrinello molecular dynamics, a polarizable force field model based on classical Drude oscillators, and a nonpolarizable fixed-charge potential based on the TIP3P water model. While models based more directly on quantum mechanics offer the possibility to account for complex electronic effects, polarizable and fixed-charges force fields allow for simulations of large systems and the calculation of thermodynamic observables with relatively modest computational costs. A particular emphasis is placed on investigating the sensitivity of the polarizable model to reproduce key aspects of aqueous K(+), such as the coordination structure, the bulk hydration free energy, and the self diffusion of K(+). It is generally found that, while the simple functional form of the polarizable Drude model imposes some restrictions on the range of properties that can simultaneously be fitted, the resulting hydration structure for aqueous K(+) agrees well with experiment and with more sophisticated computational models. A counterintuitive result, seen in Car-Parrinello molecular dynamics and in simulations with the Drude polarizable force field, is that the average induced molecular dipole of the water molecules within the first hydration shell around K(+) is slightly smaller than the corresponding value in the bulk. In final analysis, the perspective of K(+) hydration emerging from the various computational models is broadly consistent with experimental data, though at a finer level there remain a number of issues that should be resolved to further our ability in modeling ion hydration accurately.

摘要

使用一系列理论方法研究了K(+)的水合作用,这些方法包括从头算玻恩-奥本海默分子动力学和卡-帕里尼罗分子动力学、基于经典德鲁德振子的可极化力场模型以及基于TIP3P水模型的不可极化固定电荷势。虽然更直接基于量子力学的模型有可能考虑复杂的电子效应,但可极化和固定电荷力场允许对大型系统进行模拟,并以相对适中的计算成本计算热力学可观测量。特别强调研究可极化模型对重现水合K(+)的关键方面(如配位结构、体相水合自由能和K(+)的自扩散)的敏感性。一般发现,虽然可极化德鲁德模型的简单函数形式对可同时拟合的性质范围施加了一些限制,但所得的水合K(+)的水合结构与实验以及更复杂的计算模型吻合良好。在卡-帕里尼罗分子动力学和德鲁德可极化力场模拟中看到的一个违反直觉的结果是,K(+)周围第一水合层内水分子的平均诱导分子偶极略小于体相中的相应值。归根结底,各种计算模型得出的K(+)水合作用观点与实验数据大致一致,不过在更精细的层面上,仍有许多问题需要解决,以进一步提高我们准确模拟离子水合作用的能力。

相似文献

2
Global Optimization of the Lennard-Jones Parameters for the Drude Polarizable Force Field.全局优化德拜极化力场的 Lennard-Jones 参数。
J Chem Theory Comput. 2021 Nov 9;17(11):7085-7095. doi: 10.1021/acs.jctc.1c00664. Epub 2021 Oct 5.
6
Polarizable Force Field for Molecular Ions Based on the Classical Drude Oscillator.基于经典德拜振荡器的分子离子极化力场。
J Chem Inf Model. 2018 May 29;58(5):993-1004. doi: 10.1021/acs.jcim.8b00132. Epub 2018 Apr 17.

引用本文的文献

10
Classical electrostatics for biomolecular simulations.用于生物分子模拟的经典静电学。
Chem Rev. 2014 Jan 8;114(1):779-814. doi: 10.1021/cr300461d. Epub 2013 Aug 27.

本文引用的文献

3
Water revisited.水的再思考。
Science. 1980 Jul 25;209(4455):451-7. doi: 10.1126/science.209.4455.451.
4
Tuning ion coordination architectures to enable selective partitioning.调整离子配位结构以实现选择性分配。
Biophys J. 2007 Aug 15;93(4):1093-9. doi: 10.1529/biophysj.107.107482. Epub 2007 May 18.
5
Coordination numbers of alkali metal ions in aqueous solutions.碱金属离子在水溶液中的配位数。
Biophys Chem. 2006 Dec 1;124(3):192-9. doi: 10.1016/j.bpc.2006.07.002. Epub 2006 Jul 27.
6
Ion solvation and water structure in potassium halide aqueous solutions.卤化钾水溶液中的离子溶剂化与水结构
Biophys Chem. 2006 Dec 1;124(3):180-91. doi: 10.1016/j.bpc.2006.04.009. Epub 2006 May 15.

文献检索

告别复杂PubMed语法,用中文像聊天一样搜索,搜遍4000万医学文献。AI智能推荐,让科研检索更轻松。

立即免费搜索

文件翻译

保留排版,准确专业,支持PDF/Word/PPT等文件格式,支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述,25分钟生成高质量综述,智能提取关键信息,辅助科研写作。

立即免费体验