用神经网络电位捕捉溶质-溶剂反应中的二元溶剂行为

IF 5.7 1区 化学 Q2 CHEMISTRY, PHYSICAL
Journal of Chemical Theory and Computation Pub Date : 2024-12-10 Epub Date: 2024-11-21 DOI:10.1021/acs.jctc.4c01201
Frédéric Célerse, Veronika Juraskova, Shubhajit Das, Matthew D Wodrich, Clemence Corminboeuf
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引用次数: 0

摘要

凝聚相体系中化学反应性的模拟是计算化学领域的一项持续挑战,传统的量子化学方法通常难以同时应对体系的规模和反应的潜在复杂性。在此,我们介绍一种工作流程,旨在高效地训练神经网络势(NNPs),在混合密度泛函理论水平上探索溶液中的能量障碍。通过使用主动学习和迁移学习技术,在 PBE0-D3(BJ)水平上训练神经网络势时的计算负担得以绕过,而通过使用多时间步积分的良好元动态模拟,过渡态区域的广泛采样得以加速。这些 NNPs 可用于探索一条令人费解的溶质-溶剂反应路线,其中涉及在甲醇中实验观察到的 N-enoxyphthalimide 的开环反应,但在 2,2,2-三氟乙醇(TFE)中却没有观察到。该反应是一个具有挑战性的实例,其特点是氢键网络错综复杂,溶剂敏感过渡态结构模糊。该方法成功地提供了详细的自由能表面和相对能量壁垒,与实验结果一致。这些壁垒与多达五个溶剂分子直接参与的过渡态集合相关。虽然这与当前静态模型假设的单一过渡态结构形成了鲜明对比,但在甲醇或 TFE 中形成的氢键网络与参与的溶剂分子数量之间并没有明显的质的区别。因此,两种溶剂之间的差异主要来自电子效应(即不同的亲核性)和甲醇中较大的构象熵贡献。这个例子强调了在 ab initio 水平上进行动态模拟在捕捉溶质-溶剂相互作用的全部复杂性方面所起的关键作用。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Capturing Dichotomic Solvent Behavior in Solute-Solvent Reactions with Neural Network Potentials.

Simulations of chemical reactivity in condensed phase systems represent an ongoing challenge in computational chemistry, where traditional quantum chemical approaches typically struggle with both the size of the system and the potential complexity of the reaction. Here, we introduce a workflow aimed at efficiently training neural network potentials (NNPs) to explore energy barriers in solution at the hybrid density functional theory level. The computational burden associated with training at the PBE0-D3(BJ) level is bypassed through the use of active and transfer learning techniques, whereas extensive sampling of the transition state region is accelerated by well-tempered metadynamics simulations using multiple time step integration. These NNPs serve to explore a puzzling solute-solvent reactivity route involving the ring opening of N-enoxyphthalimide experimentally observed in methanol but not in 2,2,2-trifluoroethanol (TFE). This reaction represents a challenging example characterized by intricate hydrogen bonding networks and structurally ambiguous solvent-sensitive transition states. The methodology successfully delivers detailed free energy surfaces and relative energy barriers in agreement with experiment. These barriers are associated with an ensemble of transition states involving the direct participation of up to five solvent molecules. While this picture contrasts with the single transition state structure assumed by current static models, no drastic qualitative difference is observed between the formed hydrogen bonding networks and the number of participating solvent molecules in methanol or TFE. The dichotomy between the two solvents thus essentially arises from an electronic effect (i.e., distinct nucleophilicity) and from the larger conformational entropy contributions in methanol. This example underscores the critical role that dynamic simulations at the ab initio levels play in capturing the full complexity of solute-solvent interactions.

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来源期刊
Journal of Chemical Theory and Computation
Journal of Chemical Theory and Computation 化学-物理:原子、分子和化学物理
CiteScore
9.90
自引率
16.40%
发文量
568
审稿时长
1 months
期刊介绍: The Journal of Chemical Theory and Computation invites new and original contributions with the understanding that, if accepted, they will not be published elsewhere. Papers reporting new theories, methodology, and/or important applications in quantum electronic structure, molecular dynamics, and statistical mechanics are appropriate for submission to this Journal. Specific topics include advances in or applications of ab initio quantum mechanics, density functional theory, design and properties of new materials, surface science, Monte Carlo simulations, solvation models, QM/MM calculations, biomolecular structure prediction, and molecular dynamics in the broadest sense including gas-phase dynamics, ab initio dynamics, biomolecular dynamics, and protein folding. The Journal does not consider papers that are straightforward applications of known methods including DFT and molecular dynamics. The Journal favors submissions that include advances in theory or methodology with applications to compelling problems.
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