伪原子数据库的新改进策略——面向快速静电相互作用能估计

S. Bojarowski, B. Gruza, D. Trzybiński, R. Kamiński, A. Hoser, Prashant Kumar, K. Woźniak, P. Dominiak
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引用次数: 0

摘要

伪原子数据库是各种原子类型的电子密度多极模型的参数集合,用于用更精确的可转移非球面原子模型(TAAM)代替独立原子模型来改进晶体结构。这些数据库还用于快速而准确地重建分子、晶体或生物大分子复合物的电子密度,并计算各种性质,例如静电相互作用的能量。存在一种更快但同样准确的静电能量估计模型,称为aug-PROmol [Bojarowski, Kumar & Dominiak(2016)]。化学工程学报,17,24(5):555 - 560。由于当前的伪原子数据库在截断到单极子水平时表现不佳,因此无法从当前的伪原子数据库中构建类似于aug-PROmol的模型。在这里,寻求多极模型改进的新策略,从而在单极水平上实现更好的参数化。这将允许在单一的模型参数化路线中创建伪原子数据库,这将适用于晶体结构精细和快速静电能量计算。本文表明,与所有多极模型参数(Pv, κ, Plm, κ ')的同时或迭代精化相比,多极模型精化的累积方法导致电子密度模型的本质不同。两个参数块的累积细化,第一个是Pv和κ,第二个是Plm和κ ',导致Pv κ|P lm κ '模型具有很好的性质。pv κ| pm κ '模型在x射线结构TAAM改进和静电能量估计方面与布法罗大学数据库(UBDB)一样好,特别是对于极性较低的分子。当截断到单极水平时,P v κ模型有机会在快速而准确的静电能量计算中取代aug-PROmol,尽管极性官能团的κ参数化仍然需要一些改进。pv κ模型也是点电荷的来源,其行为类似于静电相互作用能估计中的约束静电势(RESP)电荷。
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New refinement strategies for a pseudoatom databank – toward rapid electrostatic interaction energy estimations
Pseudoatom databanks, collections of parameters from the multipole model of electron densities for various atom types, are used to replace the Independent Atom Model with the more accurate Transferable Aspherical Atom Model (TAAM) in crystal structure refinements. The databanks are also employed to reconstruct the electron density of a molecule, crystal or biomacromolecular complex in a fast yet accurate way and compute various properties such as the energy of electrostatic interactions, for example. A even faster but similarly accurate model for estimations of electrostatic energy exists called aug-PROmol [Bojarowski, Kumar & Dominiak (2016). ChemPhysChem, 17, 2455–2460]. A model analogous to aug-PROmol cannot be built from the current pseudoatom databanks, as they perform badly when truncated to the monopole level. Here, new strategies for multipole model refinements were sought, leading to better parametrization at the monopole level. This would allow the creation of a pseudoatom databank in a single route of model parametrization, which would be suitable for both crystal structure refinement and rapid electrostatic energy calculations. Here it is shown that the cumulative approach to multipole model refinements, as opposed to simultaneous or iterative refinements of all multipole model parameters (Pv , κ, Plm , κ′), leads to substantially different models of electron density. Cumulative refinement of two blocks of parameters, the first with Pv and κ and then the second with Plm and κ′, leads to the P v κ|P lm κ′ model having promising properties. The P v κ|P lm κ′ model is as good as the University at Buffalo DataBank (UBDB) in X-ray structure TAAM refinements and electrostatic energy estimations, especially for less polar molecules. When truncated to the monopole level, the P v κ model has a chance to replace aug-PROmol in fast yet accurate electrostatics energy calculations, although some improvements in κ parametrization for polar functional groups are still needed. The P v κ model is also a source of point charges which behave similarly to restrained electrostatic potential (RESP) charges in electrostatic interaction energy estimations.
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