Lake Peter T, McCullagh Martin
Department of Chemistry, Colorado State University , Fort Collins, Colorado 80523, United States.
J Chem Theory Comput. 2017 Dec 12;13(12):5911-5924. doi: 10.1021/acs.jctc.7b00698. Epub 2017 Nov 21.
Nonpolar solute-solvent interactions are the driving force for aggregation in important chemical and biological phenomena including protein folding, peptide self-assembly, and oil-water emulsion formation. Currently, the most accurate and computationally efficient description of these processes requires an explicit treatment of all solvent and solute atoms. Previous computationally feasible implicit solvent models, such as solute surface area approaches, are unsuccessful at capturing aggregation features including both structural and energetic trends while more theoretically rigorous approaches, such as Reference Interaction Site Model (RISM), are accurate but extremely computationally demanding. Our approach, denoted Implicit Solvation using the Superposition Approximation (IS-SPA), builds on previous theory utilizing the Kirkwood superposition approximation to approximate the mean force of the solvent from solute parameters. We introduce and verify a parabolic first solvation shell truncation of atomic solvation, fitting water distributions around a molecule, and a Monte Carlo integration of the mean solvent force. These extensions allow this method to be implemented as an efficient nonpolar implicit solvent model for molecular simulation. The approximations in IS-SPA are first explored and justified for the homodimerization of an array of different sized Lennard-Jones spheres. The accuracy and transferability of the approach are demonstrated by its ability to capture the position and relative energies of the desolvation barrier and free energy minimum of alkane homodimers. The model is then shown to reproduce the phase separation and solubility of cyclohexane and water. These promising results, coupled with 2 orders of magnitude speed-up for dilute systems as compared to explicit solvent simulations, demonstrate that IS-SPA is an appealing approach to boost the time- and length-scale of molecular aggregation simulations.
非极性溶质 - 溶剂相互作用是重要化学和生物现象中聚集的驱动力,这些现象包括蛋白质折叠、肽自组装以及油水乳液形成。目前,对这些过程最准确且计算效率最高的描述需要对所有溶剂和溶质原子进行显式处理。以前计算上可行的隐式溶剂模型,如溶质表面积方法,在捕捉包括结构和能量趋势在内的聚集特征方面并不成功,而更具理论严谨性的方法,如参考相互作用位点模型(RISM),虽然准确但计算要求极高。我们的方法,即使用叠加近似的隐式溶剂化(IS - SPA),基于先前的理论,利用柯克伍德叠加近似从溶质参数近似溶剂的平均力。我们引入并验证了原子溶剂化的抛物线型第一溶剂化壳截断、拟合分子周围的水分布以及平均溶剂力的蒙特卡罗积分。这些扩展使得该方法能够作为一种用于分子模拟的高效非极性隐式溶剂模型得以实现。首先针对一系列不同大小的 Lennard - Jones 球体的同二聚化探索并论证了 IS - SPA 中的近似。该方法的准确性和可转移性通过其捕捉烷烃同二聚体去溶剂化势垒和自由能最小值的位置及相对能量的能力得到证明。然后表明该模型能够再现环己烷和水的相分离及溶解度。这些令人鼓舞的结果,再加上与显式溶剂模拟相比稀溶液系统加速了 2 个数量级,表明 IS - SPA 是一种提升分子聚集模拟时间和长度尺度的有吸引力的方法。