Monomer, cyclic dimer of dimethyl sulfoxide, and dimethyl sulfoxide-water hydrogen bonded complexes: FTIR studies and quantum chemical calculations

IF 2.5 4区 化学 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Journal of Molecular Modeling Pub Date : 2025-02-17 DOI:10.1007/s00894-025-06300-3
R. Shanmugam, P. Dineshkumar, T. Sangeetha, P. Mounica, K. Ramya, A. Elangovan, G. Arivazhagan
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Abstract

Context

The dimethyl sulfoxide (DMSO), an excellent solvent, has many applications in biochemical and pharmacological technology and has self-associates. In the S = O stretching region of its infrared (IR) spectrum, it has been reported that two S = O stretching bands, each one for monomer and dimer, and two methyl stretching bands appear. The density functional theory (DFT) calculations reveal that one of the two methyl stretching bands is the dimer S = O stretching band. The analysis of IR spectrum of DMSO-water solution for the S = O stretching bands along with the theoretical bands shows that in the solution with water mole fraction less than 0.3, unlike the literature report that there are no DMSO-water interactions, DMSO-water H-bond complexation takes place. The second-order perturbation energy analysis indicates that the DMSO sulfur can act as H-bond acceptor and DMSO oxygen has three lone pair electrons when complexed with water. The \(\text{O}-\text{H}\cdots \text{S}\) interaction, represented by green region in the isosurfaces, is classified as weak by the topological parameters such as electron density and Laplacian of electron density. The results assume significance in view of understanding its self-association and H-bond interaction with water, of course any solute.

Method

The deconvolution of experimental envelop has been carried out using OriginPro 9.0 software. The DFT calculations were done with B3LYP/6–311 +  + G(3df,3pd) basis set using Gaussian09W. The isosurface and topological parameters have been obtained using Multiwfn 3.8 package. The results have been visualized using GaussView 5.0 and visual molecular dynamics (VMD) softwares.

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单体、二甲基亚砜环二聚体和二甲基亚砜-水氢键配合物:红外光谱研究和量子化学计算
二甲基亚砜(DMSO)是一种优良的溶剂,在生物化学和药理学技术中有着广泛的应用。在其红外光谱的S = O拉伸区出现了单体和二聚体的两条S = O拉伸带和两条甲基拉伸带。密度泛函理论(DFT)计算表明,两个甲基拉伸带中有一个是二聚体S = O拉伸带。对dmso -水溶液的S = O拉伸带和理论带的红外光谱分析表明,在水摩尔分数小于0.3的溶液中,与文献报道的不存在dmso -水的相互作用不同,dmso -水的氢键发生了络合。二阶摄动能分析表明,DMSO硫与水络合时可作为氢键受体,DMSO氧具有3个孤对电子。等面的绿色区域表示的\(\text{O}-\text{H}\cdots \text{S}\)相互作用通过电子密度和电子密度的拉普拉斯算子等拓扑参数被划分为弱相互作用。研究结果对于理解其与水(当然是任何溶质)的自缔合和氢键相互作用具有重要意义。方法采用originpro9.0软件对实验包络进行反卷积处理。DFT计算采用B3LYP/ 6-311 + + G(3df,3pd)基集,采用Gaussian09W。利用Multiwfn 3.8软件包获得了等面和拓扑参数。利用GaussView 5.0和可视化分子动力学(VMD)软件对结果进行了可视化处理。
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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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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