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高压下分子晶体结构中占据空间与空穴空间的行为

Behavior of Occupied and Void Space in Molecular Crystal Structures at High Pressure.

作者信息

Wilson Cameron J G, Cervenka Tomas, Wood Peter A, Parsons Simon

机构信息

Centre for Science at Extreme Conditions, School of Chemistry, The University of Edinburgh, King's Buildings, West Mains Road, Edinburgh EH9 3FJ, U.K..

The Cambridge Crystallographic Data Centre, 12 Union Road, Cambridge CB2 1EZ, U.K.

出版信息

Cryst Growth Des. 2022 Apr 6;22(4):2328-2341. doi: 10.1021/acs.cgd.1c01427. Epub 2022 Mar 22.

Abstract

We report a Monte Carlo algorithm for calculation of occupied ("network") and unoccupied ("void") space in crystal structures. The variation of the volumes of the voids and the network of intermolecular contacts with pressure sensitively reveals discontinuities associated with first- and second-order phase transitions, providing insights into the effect of compression (and, in principle, other external stimuli) at a level between those observed in individual contact distances and the overall unit cell dimensions. The method is shown to be especially useful for the correlation of high-pressure crystallographic and spectroscopic data, illustrated for naphthalene, where a phase transition previously detected by vibrational spectroscopy, and debated in the literature for over 80 years, has been revealed unambiguously in crystallographic data for the first time. Premonitory behavior before a phase transition and crystal collapse at the end of a compression series has also been detected. The network and void volumes for 129 high-pressure studies taken from the Cambridge Structural Database (CSD) were fitted to equation of state to show that networks typically have bulk moduli between 40 and 150 GPa, while those of voids fall into a much smaller range, 2-5 GPa. These figures are shown to reproduce the narrow range of overall bulk moduli of molecular solids ( 5-20 GPa). The program, called CellVol, has been written in Python using the CSD Python API and can be run through the command line or through the Cambridge Crystallographic Data Centre's Mercury interface.

摘要

我们报告了一种用于计算晶体结构中占据空间(“网络”)和未占据空间(“空隙”)的蒙特卡罗算法。空隙体积和分子间接触网络随压力的变化灵敏地揭示了与一级和二级相变相关的不连续性,从而在介于单个接触距离和整个晶胞尺寸所观察到的水平之间,深入了解压缩(原则上还有其他外部刺激)的影响。该方法被证明对于高压晶体学数据和光谱数据的关联特别有用,以萘为例进行说明,此前通过振动光谱检测到的一个相变,在文献中争论了80多年,首次在晶体学数据中得到明确揭示。还检测到了相变前的先兆行为以及压缩系列结束时的晶体崩塌。从剑桥结构数据库(CSD)获取的129项高压研究中的网络和空隙体积被拟合到状态方程,结果表明网络的体模量通常在40至150吉帕之间,而空隙的体模量则处于小得多的范围,即2至5吉帕。这些数值被证明能够再现分子固体整体体模量的狭窄范围(5至20吉帕)。该程序名为CellVol,使用CSD Python API用Python编写,可以通过命令行或通过剑桥晶体学数据中心的Mercury界面运行。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/263c/9007411/4c171da9fc25/cg1c01427_0002.jpg

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