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用 Voronoi 剖分刻画界面。

Characterizing Interfaces by Voronoi Tessellation.

机构信息

Department of Chemistry, Yale University, New Haven, Connecticut 06511, United States.

Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06511, United States.

出版信息

J Phys Chem Lett. 2023 Jun 15;14(23):5260-5266. doi: 10.1021/acs.jpclett.3c01159. Epub 2023 Jun 2.

Abstract

The chemistry of interfaces differs markedly from that of the bulk. Calculation of interfacial properties depends strongly on the definition of the interface, which can lead to ambiguous results that vary between studies. There is a need for a method that can explicitly define the interfaces and boundaries in molecular systems. Voronoi tessellation offers an attractive solution to this problem through its ability to determine neighbors among specified groups of atoms. Here we discuss three cases where Voronoi tessellation combined with modeling of vibrational sum frequency generation (SFG) spectroscopy yields relevant insights: the breakdown of the air-water interface into clear and intuitive molecular layers, the study of the hydration shell in biological systems, and the acceleration of difficult spectral calculations where intermolecular vibrational couplings dominate. The utility of Voronoi tessellation has broad applications that extend beyond any single type of spectroscopy or system.

摘要

界面化学与体相化学有显著差异。界面性质的计算强烈依赖于界面的定义,这可能导致不同研究之间的结果存在歧义。因此,需要有一种方法能够在分子系统中明确地定义界面和边界。Voronoi 图通过确定指定原子组之间的邻居来解决这个问题,这为解决这个问题提供了一个有吸引力的解决方案。在这里,我们讨论了 Voronoi 图与振动和频产生(SFG)光谱学建模相结合的三种情况,这些情况提供了相关的见解:将空气-水界面分解为清晰直观的分子层、研究生物系统中的水合壳,以及加速以分子间振动耦合为主的困难光谱计算。Voronoi 图的应用非常广泛,不仅限于任何单一类型的光谱学或系统。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cb2a/10344600/b0db0e5cb3e7/nihms-1914219-f0001.jpg

相似文献

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Characterizing Interfaces by Voronoi Tessellation.用 Voronoi 剖分刻画界面。
J Phys Chem Lett. 2023 Jun 15;14(23):5260-5266. doi: 10.1021/acs.jpclett.3c01159. Epub 2023 Jun 2.
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Ab initio Modeling of the Vibrational Sum-Frequency Generation Spectrum of Interfacial Water.界面水振动和频产生光谱的从头算建模
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