用于高效模拟甘油及其水性混合物的短程联合原子模型

IF 2.9 2区 化学 Q3 CHEMISTRY, PHYSICAL
The Journal of Physical Chemistry B Pub Date : 2025-03-06 Epub Date: 2025-02-26 DOI:10.1021/acs.jpcb.4c08680
Prabir Khatua, Alberto Zaragoza, Valeria Molinero
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引用次数: 0

摘要

甘油是一种多功能的冷冻保护剂,具有由分子内和分子间氢键控制的复杂构象结构。由于核磁共振、中子散射实验和全原子(AA)模拟之间的差异,在液体和玻璃状态下捕获其结构和热力学性质仍然具有挑战性。虽然AA模拟被广泛使用,但它们高估了α-构象,并产生了巨大的计算成本。粗粒度(CG)模型提供了一个有效的替代方案,但尚未准确描述甘油的构象分布和热力学行为。在这里,我们引入了SR-UA甘油,这是一个短程联合原子模型,参数化再现了实验密度、蒸发焓、核磁共振构象分布和中子散射数据的径向分布函数。受单原子水(mW)模型的启发,SR-UA甘油采用短程各向异性相互作用来模拟氢键,实现了比AA模型快100倍的计算速度。该模型捕获了甘油从气相到液相的构象从γγ到αα的转变,强调了分子间氢键在稳定开放构象中的作用。当与毫瓦水结合时,SR-UA甘油成功再现了甘油-水混合物的关键特征,包括最大密度温度的降低和动态交叉,这与AA模拟在一系列温度和浓度下的结果一致。这项工作建立了一个强大而有效的模型来研究甘油在水混合物中的行为,开启了用分子模拟来解决在低温保存相关条件下玻璃化和结晶之间竞争的可能性。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Short-Ranged United-Atom Model for Efficient Simulations of Glycerol and Its Aqueous Mixtures.

Glycerol, a versatile cryoprotectant, exhibits a complex conformational landscape governed by intra- and intermolecular hydrogen bonds. Capturing its structural and thermodynamic properties in liquid and glass states remains challenging due to discrepancies between NMR, neutron scattering experiments, and all-atom (AA) simulations. While AA simulations are widely used, they overestimate the α-conformation and incur significant computational costs. Coarse-grained (CG) models provide an efficient alternative but have yet to accurately describe glycerol's conformational distribution and thermodynamic behavior. Here, we introduce SR-UA glycerol, a short-ranged united-atom model parametrized to reproduce experimental density, enthalpy of vaporization, conformational distributions from NMR, and radial distribution functions from neutron scattering data. Inspired by the monatomic water (mW) model, SR-UA glycerol employs short-range anisotropic interactions to mimic hydrogen bonding, achieving about 100-fold computational speedup over AA models. The model captures the conformational shift from γγ to αα as glycerol transitions from gas to the liquid phase, emphasizing the role of intermolecular hydrogen bonds in stabilizing open conformations. When combined with mW water, SR-UA glycerol successfully reproduces key features of glycerol-water mixtures, including the decrease in the temperature of maximum density and the dynamical crossover, in agreement with AA simulations across a range of temperatures and concentrations. This work establishes a robust and efficient model to investigate glycerol's behavior in aqueous mixtures, opening the possibility of addressing with molecular simulations the competition between vitrification and crystallization at cryopreservation-relevant conditions.

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来源期刊
CiteScore
5.80
自引率
9.10%
发文量
965
审稿时长
1.6 months
期刊介绍: An essential criterion for acceptance of research articles in the journal is that they provide new physical insight. Please refer to the New Physical Insights virtual issue on what constitutes new physical insight. Manuscripts that are essentially reporting data or applications of data are, in general, not suitable for publication in JPC B.
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