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使用电子密度的伪原子表示法对分子间静电相互作用能进行快速分析评估。III. 通过埃瓦尔德方法和直接求和法应用于晶体结构

Fast analytical evaluation of intermolecular electrostatic interaction energies using the pseudoatom representation of the electron density. III. Application to crystal structures via the Ewald and direct summation methods.

作者信息

Nguyen Daniel, Macchi Piero, Volkov Anatoliy

机构信息

Department of Chemistry and Computational Science Program, Middle Tennessee State University, Murfreesboro, TN 37132, USA.

Department of Chemistry, Materials and Chemical Engineering, Politecnico di Milano, Via Mancinelli 7, Milano 20131, Italy.

出版信息

Acta Crystallogr A Found Adv. 2020 Nov 1;76(Pt 6):630-651. doi: 10.1107/S2053273320009584. Epub 2020 Sep 18.

Abstract

The previously reported exact potential and multipole moment (EP/MM) method for fast and accurate evaluation of the intermolecular electrostatic interaction energies using the pseudoatom representation of the electron density [Volkov, Koritsanszky & Coppens (2004). Chem. Phys. Lett. 391, 170-175; Nguyen, Kisiel & Volkov (2018). Acta Cryst. A74, 524-536; Nguyen & Volkov (2019). Acta Cryst. A75, 448-464] is extended to the calculation of electrostatic interaction energies in molecular crystals using two newly developed implementations: (i) the Ewald summation (ES), which includes interactions up to the hexadecapolar level and the EP correction to account for short-range electron-density penetration effects, and (ii) the enhanced EP/MM-based direct summation (DS), which at sufficiently large intermolecular separations replaces the atomic multipole moment approximation to the electrostatic energy with that based on the molecular multipole moments. As in the previous study [Nguyen, Kisiel & Volkov (2018). Acta Cryst. A74, 524-536], the EP electron repulsion integral is evaluated analytically using the Löwdin α-function approach. The resulting techniques, incorporated in the XDPROP module of the software package XD2016, have been tested on several small-molecule crystal systems (benzene, L-dopa, paracetamol, amino acids etc.) and the crystal structure of a 181-atom decapeptide molecule (Z = 4) using electron densities constructed via the University at Buffalo Aspherical Pseudoatom Databank [Volkov, Li, Koritsanszky & Coppens (2004). J. Phys. Chem. A, 108, 4283-4300]. Using a 2015 2.8 GHz Intel Xeon E3-1505M v5 computer processor, a 64-bit implementation of the Löwdin α-function and one of the higher optimization levels in the GNU Fortran compiler, the ES method evaluates the electrostatic interaction energy with a numerical precision of at least 10 kJ mol in under 6 s for any of the tested small-molecule crystal structures, and in 48.5 s for the decapeptide structure. The DS approach is competitive in terms of precision and speed with the ES technique only for crystal structures of small molecules that do not carry a large molecular dipole moment. The electron-density penetration effects, correctly accounted for by the two described methods, contribute 28-64% to the total electrostatic interaction energy in the examined systems, and thus cannot be neglected.

摘要

先前报道的用于使用电子密度的伪原子表示法快速准确评估分子间静电相互作用能的精确势和多极矩(EP/MM)方法[沃尔科夫、科里察恩斯基和科彭斯(2004年)。《化学物理快报》391卷,第170 - 175页;阮、基西尔和沃尔科夫(2018年)。《晶体学报》A74卷,第524 - 536页;阮和沃尔科夫(2019年)。《晶体学报》A75卷,第448 - 464页]已扩展到使用两种新开发的实现方式来计算分子晶体中的静电相互作用能:(i)埃瓦尔德求和(ES),它包括高达十六极水平的相互作用以及用于考虑短程电子密度穿透效应的EP修正;(ii)基于增强的EP/MM的直接求和(DS),在足够大的分子间距离时,它用基于分子多极矩的近似来替代原子多极矩对静电能的近似。与先前的研究[阮、基西尔和沃尔科夫(2018年)。《晶体学报》A74卷,第524 - 536页]一样,使用洛丁α函数方法解析评估EP电子排斥积分。将所得技术纳入软件包XD2016的XDPROP模块中,已在几个小分子晶体系统(苯、L - 多巴、扑热息痛、氨基酸等)以及一个181原子的十肽分子(Z = 4)的晶体结构上进行了测试,使用通过布法罗大学非球形伪原子数据库构建的电子密度[沃尔科夫、李、科里察恩斯基和科彭斯(2004年)。《物理化学杂志》A108卷,第4283 - 4300页]。使用2015年的2.8 GHz英特尔至强E3 - 1505M v5计算机处理器以及洛丁α函数的64位实现方式和GNU Fortran编译器中的较高优化级别之一,ES方法对于任何测试的小分子晶体结构在不到6秒内以至少10 kJ/mol的数值精度评估静电相互作用能,对于十肽结构则在48.5秒内完成。DS方法仅在不具有大的分子偶极矩的小分子晶体结构的精度和速度方面与ES技术具有竞争力。上述两种方法正确考虑的电子密度穿透效应在所研究的系统中对总静电相互作用能的贡献为28% - 64%,因此不可忽略。

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