Study of the pericyclic [2π + 4π] nature of a set of cheletropic reactions: analysis of the electronic reaction mechanism through bond reactivity descriptors and the electronic bonding structure

IF 2.5 4区 化学 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY
Jesús Sánchez-Márquez, Alejandro Morales-Bayuelo
{"title":"Study of the pericyclic [2π + 4π] nature of a set of cheletropic reactions: analysis of the electronic reaction mechanism through bond reactivity descriptors and the electronic bonding structure","authors":"Jesús Sánchez-Márquez,&nbsp;Alejandro Morales-Bayuelo","doi":"10.1007/s00894-025-06510-9","DOIUrl":null,"url":null,"abstract":"<p>Cheletropic reactions are a class of pericyclic transformations with significant importance in synthetic organic chemistry. Traditionally explained through orbital symmetry considerations under the Woodward–Hoffmann rules, these reactions are often modeled using wavefunction-based methods. However, this study adopts an electron-density-centered approach, with the aim of providing a detailed description and explanation of the studied reactions using reactivity descriptors derived from Density Functional Theory. By analyzing electronic bonding structures, natural bond orbitals, and bond reactivity indices, we aim to offer a more detailed understanding of the stereoelectronic factors governing the [2π + 4π] nature of these processes. This framework enables the identification of subtle features such as charge delocalization and bond reorganization at the transition states, contributing to a refined theoretical model for pericyclic reactivity. The methodology may also support the rational design of new stereoselective reactions based on local electronic properties.</p><p>All quantum chemical calculations were performed using Gaussian 16. Geometries and vibrational frequencies were calculated at the B3LYP/6-31G(d,p) level to identify stationary points. IRC calculations with a stepsize of 0.1 amu<sup>1</sup>/<sup>2</sup>·bohr confirmed the connectivity of transition states to reactants and products. Single-point energy refinements were carried out using the MPWB1K functional and the 6-311G(d,p) basis set. To obtain accurate electron densities, further calculations were performed at the CAM-B3LYP/aug-cc-pVTZ level. Natural bond orbital (NBO) analysis (v3.0) was used to evaluate donor–acceptor interactions via second-order perturbation theory. The Quantum Theory of Atoms in Molecules (QTAIM) was applied using AIMAll to locate and analyze bond critical points (BCPs). Non-covalent interactions (NCI) were examined with Multiwfn 3.8 to identify regions of weak interactions. Bond reactivity descriptors were computed using UCA-FUKUI v.2.1, a code based on conceptual-DFT and the electronegativity equalization principle. This method evaluates local reactivity without relying on atomic Fukui function partitioning, using bonding orbitals as the basis for descriptor calculation.</p>","PeriodicalId":651,"journal":{"name":"Journal of Molecular Modeling","volume":"31 11","pages":""},"PeriodicalIF":2.5000,"publicationDate":"2025-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Molecular Modeling","FirstCategoryId":"92","ListUrlMain":"https://link.springer.com/article/10.1007/s00894-025-06510-9","RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"BIOCHEMISTRY & MOLECULAR BIOLOGY","Score":null,"Total":0}
引用次数: 0

Abstract

Cheletropic reactions are a class of pericyclic transformations with significant importance in synthetic organic chemistry. Traditionally explained through orbital symmetry considerations under the Woodward–Hoffmann rules, these reactions are often modeled using wavefunction-based methods. However, this study adopts an electron-density-centered approach, with the aim of providing a detailed description and explanation of the studied reactions using reactivity descriptors derived from Density Functional Theory. By analyzing electronic bonding structures, natural bond orbitals, and bond reactivity indices, we aim to offer a more detailed understanding of the stereoelectronic factors governing the [2π + 4π] nature of these processes. This framework enables the identification of subtle features such as charge delocalization and bond reorganization at the transition states, contributing to a refined theoretical model for pericyclic reactivity. The methodology may also support the rational design of new stereoselective reactions based on local electronic properties.

All quantum chemical calculations were performed using Gaussian 16. Geometries and vibrational frequencies were calculated at the B3LYP/6-31G(d,p) level to identify stationary points. IRC calculations with a stepsize of 0.1 amu1/2·bohr confirmed the connectivity of transition states to reactants and products. Single-point energy refinements were carried out using the MPWB1K functional and the 6-311G(d,p) basis set. To obtain accurate electron densities, further calculations were performed at the CAM-B3LYP/aug-cc-pVTZ level. Natural bond orbital (NBO) analysis (v3.0) was used to evaluate donor–acceptor interactions via second-order perturbation theory. The Quantum Theory of Atoms in Molecules (QTAIM) was applied using AIMAll to locate and analyze bond critical points (BCPs). Non-covalent interactions (NCI) were examined with Multiwfn 3.8 to identify regions of weak interactions. Bond reactivity descriptors were computed using UCA-FUKUI v.2.1, a code based on conceptual-DFT and the electronegativity equalization principle. This method evaluates local reactivity without relying on atomic Fukui function partitioning, using bonding orbitals as the basis for descriptor calculation.

Abstract Image

一类亲电性反应的周环[2π + 4π]性质研究:通过键反应性描述符和电子成键结构分析电子反应机理
切变反应是一类在合成有机化学中具有重要意义的周环变换。传统上通过Woodward-Hoffmann规则下的轨道对称性来解释,这些反应通常使用基于波函数的方法来建模。然而,本研究采用以电子密度为中心的方法,目的是利用密度泛函理论衍生的反应性描述符,对所研究的反应进行详细的描述和解释。通过分析电子成键结构、天然键轨道和键反应性指数,我们旨在更详细地了解控制这些过程[2π + 4π]性质的立体电子因素。该框架能够识别细微的特征,如过渡态的电荷离域和键重组,有助于改进周环反应性的理论模型。该方法还可以支持基于局部电子性质的新型立体选择反应的合理设计。所有量子化学计算均使用高斯16进行。在B3LYP/6-31G(d,p)水平上计算几何形状和振动频率以识别静止点。步长为0.1 μ 1/2·玻尔的IRC计算证实了过渡态与反应物和生成物的连通性。采用MPWB1K泛函和6-311G(d,p)基集进行单点能量细化。为了获得准确的电子密度,在CAM-B3LYP/aug-cc-pVTZ水平上进行了进一步的计算。自然键轨道(NBO)分析(v3.0)通过二阶摄动理论来评价供体-受体相互作用。应用分子原子量子理论(Quantum Theory of Atoms in Molecules, QTAIM)对键临界点(bond critical points, bcp)进行定位和分析。用Multiwfn 3.8检测非共价相互作用(NCI)以确定弱相互作用区域。使用UCA-FUKUI v.2.1计算键反应性描述符,这是一个基于概念dft和电负性均衡原理的代码。该方法评估局部反应性,不依赖于原子福井函数划分,使用成键轨道作为描述子计算的基础。
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
Journal of Molecular Modeling
Journal of Molecular Modeling 化学-化学综合
CiteScore
3.50
自引率
4.50%
发文量
362
审稿时长
2.9 months
期刊介绍: The Journal of Molecular Modeling focuses on "hardcore" modeling, publishing high-quality research and reports. Founded in 1995 as a purely electronic journal, it has adapted its format to include a full-color print edition, and adjusted its aims and scope fit the fast-changing field of molecular modeling, with a particular focus on three-dimensional modeling. Today, the journal covers all aspects of molecular modeling including life science modeling; materials modeling; new methods; and computational chemistry. Topics include computer-aided molecular design; rational drug design, de novo ligand design, receptor modeling and docking; cheminformatics, data analysis, visualization and mining; computational medicinal chemistry; homology modeling; simulation of peptides, DNA and other biopolymers; quantitative structure-activity relationships (QSAR) and ADME-modeling; modeling of biological reaction mechanisms; and combined experimental and computational studies in which calculations play a major role.
×
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