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正确理解分子间作用力:引入水模型的ASTA策略。

Getting the intermolecular forces correct: introducing the ASTA strategy for a water model.

作者信息

Mareš Jiří, Mayorga Delgado Pau

机构信息

Department of Physics, University of Oulu Finland

出版信息

RSC Adv. 2024 Aug 15;14(35):25712-25727. doi: 10.1039/d4ra02685c. eCollection 2024 Aug 12.

Abstract

Having a force field for water providing good bulk properties is paramount for modern studies of most biological systems. Some of the most common three-site force fields are TIP3, SPC/ε or OPC3, providing a decent range of bulk properties. That does not mean though, that they have realistic inter-atomic forces. These force fields have been parameterized with a top-down approach, meaning, by fitting the force field parameters to the experimental bulk properties. This approach has been the governing strategy also for many variants of four- and more-site models. We test a bottom-up approach, in which the force field is parameterized by optimizing the non-bonded inter-atomic forces. Our philosophy is that correct inter-atomic forces lead to correct geometrical and dynamical properties. The first system we try to optimize with the accurately system tailored atomic (ASTA) approach is water, but we aim to eventually probe other systems in the future as well. We applied our ASTA strategy to find a good set of parameters providing accurate bulk properties for the simple three-site force field forms, and also for AMOEBA, a more detailed and polarizable force field. Even though our bottom-up approach did not provide satisfactory results for the simple three-site force fields (with fixed charges), for the case of the AMOEBA force field it led to a modification of the original strategy, giving very good intra- and inter-molecular forces, as compared to accurate quantum chemically calculated reference forces. At the same time, important bulk properties, in this study restricted to the density and diffusion, were accurately reproduced with respect to the experimental values.

摘要

对于大多数生物系统的现代研究而言,拥有一个能提供良好整体性质的水的力场至关重要。一些最常见的三位点力场是TIP3、SPC/ε或OPC3,它们能提供一系列不错的整体性质。然而,这并不意味着它们具有现实的原子间力。这些力场是通过自上而下的方法进行参数化的,也就是说,通过将力场参数拟合到实验整体性质上。这种方法也是许多四位点及更多位点模型变体的主导策略。我们测试了一种自下而上的方法,其中力场通过优化非键合原子间力来进行参数化。我们的理念是,正确的原子间力会导致正确的几何和动力学性质。我们首先尝试用精确系统定制原子(ASTA)方法进行优化的系统是水,但我们的目标是最终也能在未来探索其他系统。我们应用ASTA策略来找到一组能为简单的三位点力场形式以及更详细且可极化的AMOEBA力场提供准确整体性质的良好参数集。尽管我们的自下而上方法对于简单的三位点力场(固定电荷)没有提供令人满意的结果,但对于AMOEBA力场的情况,它导致对原始策略进行了修改,与精确量子化学计算的参考力相比,给出了非常好的分子内和分子间力。同时,在本研究中限于密度和扩散的重要整体性质相对于实验值被准确地再现了。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7c17/11325342/39afe99c58e8/d4ra02685c-f1.jpg

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