Topological coordination numbers and coordination reciprocity from electron-density distributions.

IF 1.9 4区 材料科学 Q3 CHEMISTRY, MULTIDISCIPLINARY
Frank R Wagner, Riccardo Freccero, Yuri Grin
{"title":"Topological coordination numbers and coordination reciprocity from electron-density distributions.","authors":"Frank R Wagner, Riccardo Freccero, Yuri Grin","doi":"10.1107/S2053273325002347","DOIUrl":null,"url":null,"abstract":"<p><p>Triangulated surface data sets of quantum theory of atoms in molecules (QTAIM) interatomic surfaces have been employed to calculate solid angles subtended at the nuclear positions by each diatomic contact surface. On this basis, topological effective coordination numbers were evaluated. This corresponds to a generalization of the established Voronoi-Dirichlet partitioning (VDP) based procedure. The topological coordination number (tCN) approach developed includes coordination reciprocity requirements necessary to extract coordination-consistent sub-coordination scenarios for identification of chemically meaningful coordination numbers. The ranking between different sub-coordination scenarios is accomplished by weighting functions derived from purely geometrical properties of square and semicircle areas. Exemplary cases analyzed using theoretical electron-density distributions span the range from the face centered cubic, body centered cubic, hexagonal close packed and diamond types of element structures, to rocksalt, CsCl and zincblende types of structures, to compounds of the TiNiSi structure type. An important difference compared with VDP-based coordination numbers arises from the natural inclusion of the effect of different atomic sizes in the tCN approach. Even in highly symmetrical element structures, differences between VDP and tCN results are obtained as an effect of atomic electron-density decay utilizing still available degrees of freedom in the crystal structure. Especially in the TiNiSi type of examples, the advantage of numerically ranking between different sub-coordination scenarios of similar importance emerges. Instead of being obliged to choose only one of them, a more precise characterization contains a listing of different scenarios with their relative weights and associated effective coordination numbers. This seems to be generally the more appropriate way to analyze atomic coordination, especially in more complex structures such as intermetallic phases, opening up its possible use as input for AI applications on structure-property relationships.</p>","PeriodicalId":106,"journal":{"name":"Acta Crystallographica Section A: Foundations and Advances","volume":"81 Pt 3","pages":"221-244"},"PeriodicalIF":1.9000,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12053493/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Acta Crystallographica Section A: Foundations and Advances","FirstCategoryId":"1","ListUrlMain":"https://doi.org/10.1107/S2053273325002347","RegionNum":4,"RegionCategory":"材料科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2025/4/28 0:00:00","PubModel":"Epub","JCR":"Q3","JCRName":"CHEMISTRY, MULTIDISCIPLINARY","Score":null,"Total":0}
引用次数: 0

Abstract

Triangulated surface data sets of quantum theory of atoms in molecules (QTAIM) interatomic surfaces have been employed to calculate solid angles subtended at the nuclear positions by each diatomic contact surface. On this basis, topological effective coordination numbers were evaluated. This corresponds to a generalization of the established Voronoi-Dirichlet partitioning (VDP) based procedure. The topological coordination number (tCN) approach developed includes coordination reciprocity requirements necessary to extract coordination-consistent sub-coordination scenarios for identification of chemically meaningful coordination numbers. The ranking between different sub-coordination scenarios is accomplished by weighting functions derived from purely geometrical properties of square and semicircle areas. Exemplary cases analyzed using theoretical electron-density distributions span the range from the face centered cubic, body centered cubic, hexagonal close packed and diamond types of element structures, to rocksalt, CsCl and zincblende types of structures, to compounds of the TiNiSi structure type. An important difference compared with VDP-based coordination numbers arises from the natural inclusion of the effect of different atomic sizes in the tCN approach. Even in highly symmetrical element structures, differences between VDP and tCN results are obtained as an effect of atomic electron-density decay utilizing still available degrees of freedom in the crystal structure. Especially in the TiNiSi type of examples, the advantage of numerically ranking between different sub-coordination scenarios of similar importance emerges. Instead of being obliged to choose only one of them, a more precise characterization contains a listing of different scenarios with their relative weights and associated effective coordination numbers. This seems to be generally the more appropriate way to analyze atomic coordination, especially in more complex structures such as intermetallic phases, opening up its possible use as input for AI applications on structure-property relationships.

电子密度分布的拓扑配位数和配位互易性。
利用分子原子量子理论(QTAIM)原子间表面的三角曲面数据集计算了每个双原子接触面在核位置处的固体角。在此基础上,对拓扑有效配位数进行了评价。这对应于建立的Voronoi-Dirichlet划分(VDP)为基础的过程的推广。所开发的拓扑配位数(tCN)方法包含了为识别具有化学意义的配位数而提取配位一致的子配位情景所必需的配位互易性要求。不同子协调场景之间的排序是通过由正方形和半圆形区域的纯粹几何性质衍生的加权函数来完成的。应用理论电子密度分布分析的典型案例涵盖了从面心立方、体心立方、六角形密排和金刚石类型的元素结构,到岩盐、CsCl和锌闪锌矿类型的结构,再到TiNiSi结构类型的化合物。与基于vdp的配位数相比,一个重要的区别在于tCN方法中自然包含了不同原子尺寸的影响。即使在高度对称的元素结构中,VDP和tCN结果之间的差异是由于原子电子密度衰减的影响,利用晶体结构中仍然可用的自由度。特别是在TiNiSi类型的示例中,在重要性相似的不同子协调场景之间进行数值排序的优势显现出来。而不是被迫只选择其中一个,更精确的描述包含了不同场景的列表,以及它们的相对权重和相关的有效配位数。这似乎通常是分析原子配位的更合适的方法,特别是在更复杂的结构中,如金属间相,这为人工智能应用在结构-性质关系上的输入提供了可能。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 求助全文
来源期刊
Acta Crystallographica Section A: Foundations and Advances
Acta Crystallographica Section A: Foundations and Advances CHEMISTRY, MULTIDISCIPLINARYCRYSTALLOGRAPH-CRYSTALLOGRAPHY
CiteScore
2.60
自引率
11.10%
发文量
419
期刊介绍: Acta Crystallographica Section A: Foundations and Advances publishes articles reporting advances in the theory and practice of all areas of crystallography in the broadest sense. As well as traditional crystallography, this includes nanocrystals, metacrystals, amorphous materials, quasicrystals, synchrotron and XFEL studies, coherent scattering, diffraction imaging, time-resolved studies and the structure of strain and defects in materials. The journal has two parts, a rapid-publication Advances section and the traditional Foundations section. Articles for the Advances section are of particularly high value and impact. They receive expedited treatment and may be highlighted by an accompanying scientific commentary article and a press release. Further details are given in the November 2013 Editorial. The central themes of the journal are, on the one hand, experimental and theoretical studies of the properties and arrangements of atoms, ions and molecules in condensed matter, periodic, quasiperiodic or amorphous, ideal or real, and, on the other, the theoretical and experimental aspects of the various methods to determine these properties and arrangements.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信