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基于模拟的液态水的结构与动力学:将明尼苏达密度泛函添加到雅各布天梯中

Structure and dynamics of liquid water from simulations: adding Minnesota density functionals to Jacob's ladder.

作者信息

Villard Justin, Bircher Martin P, Rothlisberger Ursula

机构信息

Laboratory of Computational Chemistry and Biochemistry, Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne (EPFL) Lausanne CH-1015 Switzerland

Computational and Soft Matter Physics, Universität Wien Wien A-1090 Austria.

出版信息

Chem Sci. 2024 Feb 15;15(12):4434-4451. doi: 10.1039/d3sc05828j. eCollection 2024 Mar 20.

DOI:10.1039/d3sc05828j
PMID:38516095
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10952088/
Abstract

The accurate representation of the structural and dynamical properties of water is essential for simulating the unique behavior of this ubiquitous solvent. Here we assess the current status of describing liquid water using molecular dynamics, with a special focus on the performance of all the later generation Minnesota functionals. Findings are contextualized within the current knowledge on DFT for describing bulk water under ambient conditions and compared to experimental data. We find that, contrary to the prevalent idea that local and semilocal functionals overstructure water and underestimate dynamical properties, M06-L, revM06-L, and M11-L understructure water, while MN12-L and MN15-L overdistance water molecules due to weak cohesive effects. This can be attributed to a weakening of the hydrogen bond network, which leads to dynamical fingerprints that are over fast. While most of the hybrid Minnesota functionals (M06, M08-HX, M08-SO, M11, MN12-SX, and MN15) also yield understructured water, their dynamical properties generally improve over their semilocal counterparts. It emerges that exact exchange is a crucial component for accurately describing hydrogen bonds, which ultimately leads to corrections in both the dynamical and structural properties. However, an excessive amount of exact exchange strengthens hydrogen bonds and causes overstructuring and slow dynamics (M06-HF). As a compromise, M06-2X is the best performing Minnesota functional for water, and its D3 corrected variant shows very good structural agreement. From previous studies considering nuclear quantum effects (NQEs), the hybrid revPBE0-D3, and the rung-5 RPA (RPA@PBE) have been identified as the only two approximations that closely agree with experiments. Our results suggest that the M06-2X(-D3) functionals have the potential to further improve the reproduction of experimental properties when incorporating NQEs through path integral approaches. This work provides further proof that accurate modeling of water interactions requires the inclusion of both exact exchange and balanced (non-local) correlation, highlighting the need for higher rungs on Jacob's ladder to achieve predictive simulations of complex biological systems in aqueous environments.

摘要

准确表征水的结构和动力学性质对于模拟这种普遍存在的溶剂的独特行为至关重要。在此,我们评估了使用分子动力学描述液态水的现状,特别关注所有新一代明尼苏达泛函的性能。研究结果结合了当前关于密度泛函理论(DFT)在描述环境条件下的 bulk 水方面的知识,并与实验数据进行了比较。我们发现,与普遍认为的局部和半局部泛函会过度构建水结构并低估动力学性质相反,M06-L、revM06-L 和 M11-L 会对水结构构建不足,而 MN12-L 和 MN15-L 由于弱内聚效应会使水分子间距过大。这可归因于氢键网络的减弱,导致动力学特征过快。虽然大多数混合明尼苏达泛函(M06、M08-HX、M08-SO、M11、MN12-SX 和 MN15)也会产生结构构建不足的水,但其动力学性质通常比其半局部对应物有所改善。结果表明,精确交换是准确描述氢键的关键组成部分,这最终会导致动力学和结构性质的修正。然而,过量的精确交换会强化氢键并导致过度构建和动力学缓慢(M06-HF)。作为一种折衷方案,M06-2X 是表现最佳的明尼苏达水泛函,其 D3 校正变体显示出非常好的结构一致性。从先前考虑核量子效应(NQEs)的研究中,混合 revPBE0-D3 和第 5 级 RPA(RPA@PBE)已被确定为仅有的两个与实验密切一致的近似方法。我们的结果表明,当通过路径积分方法纳入 NQEs 时,M06-2X(-D3)泛函有潜力进一步改善对实验性质的再现。这项工作进一步证明,对水相互作用进行准确建模需要同时包含精确交换和平衡(非局部)相关,强调了需要在雅各布天梯上更高的层级以实现对水性环境中复杂生物系统的预测性模拟。

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