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平面波密度泛函理论与分子晶体:热椭球和分子间相互作用。

Plane-Wave Density Functional Theory Meets Molecular Crystals: Thermal Ellipsoids and Intermolecular Interactions.

机构信息

Institute of Inorganic Chemistry and ‡Jülich-Aachen Research Alliance (JARA-HPC), RWTH Aachen University , Landoltweg 1, 52056 Aachen, Germany.

出版信息

Acc Chem Res. 2017 May 16;50(5):1231-1239. doi: 10.1021/acs.accounts.7b00067. Epub 2017 May 3.

DOI:10.1021/acs.accounts.7b00067
PMID:28467707
Abstract

Molecular compounds, organic and inorganic, crystallize in diverse and complex structures. They continue to inspire synthetic efforts and "crystal engineering", with implications ranging from fundamental questions to pharmaceutical research. The structural complexity of molecular solids is linked with diverse intermolecular interactions: hydrogen bonding with all its facets, halogen bonding, and other secondary bonding mechanisms of recent interest (and debate). Today, high-resolution diffraction experiments allow unprecedented insight into the structures of molecular crystals. Despite their usefulness, however, these experiments also face problems: hydrogen atoms are challenging to locate, and thermal effects may complicate matters. Moreover, even if the structure of a crystal is precisely known, this does not yet reveal the nature and strength of the intermolecular forces that hold it together. In this Account, we show that periodic plane-wave-based density functional theory (DFT) can be a useful, and sometimes unexpected, complement to molecular crystallography. Initially developed in the solid-state physics communities to treat inorganic solids, periodic DFT can be applied to molecular crystals just as well: theoretical structural optimizations "help out" by accurately localizing the elusive hydrogen atoms, reaching neutron-diffraction quality with much less expensive measurement equipment. In addition, phonon computations, again developed by physicists, can quantify the thermal motion of atoms and thus predict anisotropic displacement parameters and ORTEP ellipsoids "from scratch". But the synergy between experiment and theory goes much further than that. Once a structure has been accurately determined, computations give new and detailed insights into the aforementioned intermolecular interactions. For example, it has been debated whether short hydrogen bonds in solids have covalent character, and we have added a new twist to this discussion using an orbital-based theory that once more had been developed for inorganic solids. However, there is more to a crystal structure than a handful of short contacts between neighboring residues. We hence have used dimensionally resolved analyses to dissect crystalline networks in a systematic fashion, one spatial direction at a time. Initially applied to hydrogen bonding, these techniques can be seamlessly extended to halogen, chalcogen, and pnictogen bonding, quantifying bond strength and cooperativity in truly infinite networks. Finally, these methods promise to be useful for (bio)polymers, as we have recently exemplified for α-chitin. At the interface of increasingly accurate and popular DFT methods, ever-improving crystallographic expertise, and new challenging, chemical questions, we believe that combined experimental and theoretical studies of molecular crystals are just beginning to pick up speed.

摘要

分子化合物,有机和无机,结晶成多样而复杂的结构。它们继续激发着合成努力和“晶体工程”,其影响范围从基础问题到药物研究。分子固体的结构复杂性与各种分子间相互作用有关:氢键及其各个方面、卤键,以及最近引起关注(和争议)的其他次级键合机制。如今,高分辨率衍射实验使人们能够以前所未有的视角深入了解分子晶体的结构。然而,尽管这些实验非常有用,但它们也面临着问题:氢原子难以定位,热效应可能会使问题复杂化。此外,即使一个晶体的结构被精确地确定,这也不能揭示将其结合在一起的分子间力的性质和强度。在本综述中,我们表明基于周期性平面波的密度泛函理论(DFT)可以成为分子晶体学的有用且有时出乎意料的补充。最初在固态物理界开发来处理无机固体,周期性 DFT 同样可以应用于分子晶体:理论结构优化“通过准确地定位难以捉摸的氢原子来提供帮助”,使用便宜得多的测量设备达到中子衍射质量。此外,物理学家开发的声子计算可以量化原子的热运动,从而预测各向异性位移参数和 ORTEP 椭球“从零开始”。但实验和理论之间的协同作用远不止于此。一旦结构被精确确定,计算就会为上述分子间相互作用提供新的详细见解。例如,固体中的短氢键是否具有共价性质一直存在争议,我们使用基于轨道的理论对此进行了新的讨论,该理论最初也是为无机固体开发的。然而,晶体结构不仅仅是相邻残基之间的少数几个短接触。因此,我们使用了具有空间分辨率的分析方法,一次一个空间方向,系统地剖析了晶体网络。最初应用于氢键,这些技术可以无缝扩展到卤键、硫键和磷键,定量真正无限网络中的键强度和协同作用。最后,这些方法有望对(生物)聚合物有用,正如我们最近在 α-壳聚糖方面所举例说明的那样。在日益精确和流行的 DFT 方法、不断提高的晶体学专业知识以及新的具有挑战性的化学问题的接口处,我们相信,对分子晶体的实验和理论联合研究才刚刚开始加速。

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