Exhaustive Spatial Sampling for Complete Topology of the Electrostatic Potential

IF 4.8 3区 化学 Q2 CHEMISTRY, MULTIDISCIPLINARY
Evelio Francisco, Ángel Martín Pendás, Dimas Suárez
{"title":"Exhaustive Spatial Sampling for Complete Topology of the Electrostatic Potential","authors":"Evelio Francisco,&nbsp;Ángel Martín Pendás,&nbsp;Dimas Suárez","doi":"10.1002/jcc.70188","DOIUrl":null,"url":null,"abstract":"<p>This work presents a robust and efficient algorithm for exhaustively determining the critical points (CPs) of the molecular electrostatic potential (MEP) in 3D space. By combining Newton's method with a systematic physical space sampling strategy, we locate all CPs (maxima, minima, and saddle points) for both exact quantum-chemical MEPs and their tricubic interpolated approximations. The method is validated using a test function with known CPs and applied to a diverse set of molecules, including neutral systems, ions, and noncovalent complexes from the S66 and IONIC-HB datasets. Our results demonstrate that the interpolated MEP faithfully reproduces the topology of the exact potential in most cases, with minor discrepancies arising near nuclear positions or in regions of low gradient. The algorithm's efficiency (2–7<span></span><math>\n <semantics>\n <mrow>\n <mo>×</mo>\n </mrow>\n <annotation>$$ \\times $$</annotation>\n </semantics></math> faster for interpolated calculations) and robustness make it suitable for large-scale analyses of MEP topologies, offering insights into chemical reactivity and noncovalent interactions.</p>","PeriodicalId":188,"journal":{"name":"Journal of Computational Chemistry","volume":"46 20","pages":""},"PeriodicalIF":4.8000,"publicationDate":"2025-07-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/jcc.70188","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Computational Chemistry","FirstCategoryId":"92","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1002/jcc.70188","RegionNum":3,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"CHEMISTRY, MULTIDISCIPLINARY","Score":null,"Total":0}
引用次数: 0

Abstract

This work presents a robust and efficient algorithm for exhaustively determining the critical points (CPs) of the molecular electrostatic potential (MEP) in 3D space. By combining Newton's method with a systematic physical space sampling strategy, we locate all CPs (maxima, minima, and saddle points) for both exact quantum-chemical MEPs and their tricubic interpolated approximations. The method is validated using a test function with known CPs and applied to a diverse set of molecules, including neutral systems, ions, and noncovalent complexes from the S66 and IONIC-HB datasets. Our results demonstrate that the interpolated MEP faithfully reproduces the topology of the exact potential in most cases, with minor discrepancies arising near nuclear positions or in regions of low gradient. The algorithm's efficiency (2–7 × $$ \times $$ faster for interpolated calculations) and robustness make it suitable for large-scale analyses of MEP topologies, offering insights into chemical reactivity and noncovalent interactions.

Abstract Image

静电势完全拓扑的穷举空间采样
这项工作提出了一种鲁棒和高效的算法,用于详尽地确定三维空间中分子静电势(MEP)的临界点(CPs)。通过将牛顿方法与系统的物理空间采样策略相结合,我们找到了精确量子化学mep及其三次插值近似的所有CPs(最大值、最小值和鞍点)。该方法使用已知CPs的测试函数进行验证,并应用于各种分子,包括来自S66和IONIC-HB数据集的中性系统、离子和非共价复合物。我们的结果表明,在大多数情况下,插值的MEP忠实地再现了精确电位的拓扑结构,在核位置附近或低梯度区域出现了较小的差异。该算法的效率(内插计算速度快2-7倍$$ \times $$)和鲁棒性使其适用于MEP拓扑的大规模分析,提供了对化学反应性和非共价相互作用的见解。
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
CiteScore
6.60
自引率
3.30%
发文量
247
审稿时长
1.7 months
期刊介绍: This distinguished journal publishes articles concerned with all aspects of computational chemistry: analytical, biological, inorganic, organic, physical, and materials. The Journal of Computational Chemistry presents original research, contemporary developments in theory and methodology, and state-of-the-art applications. Computational areas that are featured in the journal include ab initio and semiempirical quantum mechanics, density functional theory, molecular mechanics, molecular dynamics, statistical mechanics, cheminformatics, biomolecular structure prediction, molecular design, and bioinformatics.
×
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:604180095
Book学术官方微信