Hydration of Phosphate Ion in Polarizable Water: Effect of Temperature and Concentration

IF 16.4 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY
S. Verma, A. K. Pathak
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引用次数: 0

Abstract

The hydration of phosphate ions, an essential component of many biological molecules, is studied using all-atom molecular dynamics (MD) simulation and quantum chemical methods. MD simulations are carried out by employing a mean-field polarizable water model. A good linear correlation between the self-diffusion coefficient and phosphate anion concentration is ascertained from the computed mean-square displacement (MSD) profiles. The HB dynamics of the hydration of the phosphate anion is evaluated from the time-dependent autocorrelation function CHB(t) and is determined to be slightly faster for the phosphate–anion system as compared to that of the water–water system at room temperature. The coordination number (CN) of the phosphate ion is found to be 15.9 at 298 K with 0.05 M phosphate ion concentration. The average CN is also calculated to be 15.6 for the same system by employing non-equilibrium MD simulation, namely, the well-tempered meta-dynamics method. A full geometry optimization of the PO43−·16H2O cluster is investigated at the ωB97X-D/aug-cc-pVTZ level of theory, and the hydration of the phosphate anion is observed to have both singly and doubly bonded anion–water hydrogen bonds and inter-water hydrogen bonds in a range between 0.169–0.201 nm and 0.192–0.215 nm, respectively. Modified Stokes–Einstein relation is used to calculate the conductivity of the phosphate ion and is found to be in good agreement with the experimentally observed value.
磷酸盐离子在极化水中的水化作用:温度和浓度的影响
磷酸盐离子是许多生物分子的重要组成部分,利用全原子分子动力学(MD)模拟和量子化学方法研究了磷酸盐离子的水合作用。采用平均场极化水模型进行了MD模拟。从计算的均方位移(MSD)曲线可以确定自扩散系数与磷酸阴离子浓度之间有良好的线性关系。从时间相关的自相关函数CHB(t)来评估磷酸盐阴离子水化的HB动力学,并确定在室温下,与水-水体系相比,磷酸盐-阴离子体系的HB动力学略快。在298 K和0.05 M的磷酸盐离子浓度下,磷酸盐离子的配位数(CN)为15.9。采用非平衡MD模拟,即均匀回火元动力学方法,计算出同一系统的平均CN为15.6。在ωB97X-D/奥格-cc- pvtz理论水平上对PO43−·16H2O簇进行了全面的几何优化,发现磷酸阴离子的水化作用在0.169 ~ 0.201 nm和0.192 ~ 0.215 nm范围内分别存在单键和双键阴离子-水氢键和水间氢键。用修正的Stokes-Einstein关系式计算了磷酸盐离子的电导率,结果与实验观测值吻合较好。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Accounts of Chemical Research
Accounts of Chemical Research 化学-化学综合
CiteScore
31.40
自引率
1.10%
发文量
312
审稿时长
2 months
期刊介绍: Accounts of Chemical Research presents short, concise and critical articles offering easy-to-read overviews of basic research and applications in all areas of chemistry and biochemistry. These short reviews focus on research from the author’s own laboratory and are designed to teach the reader about a research project. In addition, Accounts of Chemical Research publishes commentaries that give an informed opinion on a current research problem. Special Issues online are devoted to a single topic of unusual activity and significance. Accounts of Chemical Research replaces the traditional article abstract with an article "Conspectus." These entries synopsize the research affording the reader a closer look at the content and significance of an article. Through this provision of a more detailed description of the article contents, the Conspectus enhances the article's discoverability by search engines and the exposure for the research.
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