偶氮化合物与葫芦[7]脲的超分子复合物的计算研究:对自由基的产生和释放的影响

IF 2.1 4区 化学 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Journal of Molecular Modeling Pub Date : 2024-09-17 DOI:10.1007/s00894-024-06132-7
Angie C. Forero-Girón, Soledad Gutiérrez-Oliva, Camilo López-Alarcón, Barbara Herrera, Margarita E. Aliaga
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引用次数: 0

摘要

背景2,2′-偶氮双(2-甲基丙脒)二盐酸盐(AAPH)是一种广泛使用的偶氮化合物,它与葫芦[7]util(CB[7])之间的包合物显示,偶氮键的同解裂解产生的自由基产量增加。为了深入了解络合物的形成及其对自由基产生率的影响,我们通过计算方法研究了 CB[7] 与七种偶氮化合物的络合物。分子静电表面和结构分析表明,CB[7]内部是否含有对称的偶氮化合物主要取决于偶氮衍生物主链上官能团的电荷密度和位置。对非共价相互作用和热力学结果的分析表明,带有脒基或咪唑基的正电荷偶氮化合物与 CB[7] 端口的氧原子产生了强烈的有利相互作用(多个氢键)。此外,利用电子定位功能(ELF)证实了由复合物(叠氮化合物@CB[7])产生的碳中心自由基。结果表明,叠氮化合物与 CB[7] 之间的相互作用强度和包含程度(部分或完全)决定了自由基的最终取向(位于 CB[7] 腔外或腔内)。所获得的结果可用于根据偶氮化合物@CB[7]复合物的特性设计新的超分子体系,以实现新的科学或工业应用。方法在高斯 16 软件包中进行了气相和溶剂(PCM、水)B3LYP-D3BJ/6-311g(d,p) 级理论的第一原理计算。色散能校正是通过带有贝克-约翰逊阻尼 D3(BJ) 的格里姆色散进行的。所有结构的热力学数据和最小特性均通过振动频率计算获得。NBO、Multiwfn、Chemcraft 和 NCIPLOT 软件分别用于进行群体分析、结果分析、数据可视化和显示非共价相互作用。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

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Computational study of the supramolecular complexation of azocompounds with cucurbit[7]uril: effects on the production and release of free radicals

Context

An inclusion complex between 2,2′-azobis(2-methylpropionamidine) dihydrochloride (AAPH), a widely employed azocompound, and cucurbit[7]util (CB[7]), has shown an increased yield of radicals derived from the homolytic cleavage of the azo bond. Aimed to get insights about the formation of complexes and their effect on the yield of radicals production, complexes of CB[7] with seven azocompounds were studied by computational methods. Molecular electrostatic surfaces and structural analysis showed that the inclusion of symmetrical azocompounds inside of CB[7] depends mainly on the charge density and position of the functional groups at the main chain of the azoderivative. Analysis of non-covalent interactions and thermodynamic outcomes revealed that positively charged azocompounds with amidinium or imidazolium groups presented strong favorable interactions (multiple hydrogen bonds) with the oxygens of CB[7] portals. Additionally, carbon-centered radicals generated from the complexes (azocompounds@CB[7]) were corroborated using the electron localization function (ELF). Results evidenced that the strength of the interactions and the level of inclusion (partial or complete) between the azocompound and CB[7] determined the final orientation of the radicals (located out- or inside of the CB[7] cavity). Obtained results could be employed to design new supramolecular systems based on the properties of azocomplound@CB[7] complexes for new scientific or industrial applications.

Methods

First-principles calculations at B3LYP-D3BJ/6-311g(d,p) level theory in the gas phase and in solvent (PCM, water) were performed in Gaussian 16 software package. The dispersion energy correction was included through the Grimme’s dispersion with Becke-Johnson damping D3(BJ). Thermodynamical data and the minimum character of all structures were obtained from vibrational frequency calculations. NBO, Multiwfn, Chemcraft, and NCIPLOT software were used to perform population analysis, analyze outcomes, visualize data, and display non-covalent interactions respectively.

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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.
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