{"title":"四氢化萘置换后构象景观发生了怎样的变化?氧、硫和硒的计算研究。","authors":"Asif Iqubal Middya, Abhijit Chakraborty","doi":"10.1007/s00894-025-06432-6","DOIUrl":null,"url":null,"abstract":"<div><h3>Context</h3><p>The oxygen, sulfur, and selenium derivatives of tetralin termed as isochroman (IC), isothiochroman (ITC), and isoselenochroman (ISC) showed interesting conformational patterns. In particular, ITC and IC have immense pharmacological significance. The twisted conformer is the global minimum in IC, where the bent is a transition state (TS) and remains 1100 ± 100 cm<sup>−1</sup> higher. The bent form in ITC and ISC possesses the lowest energy. But, the twisted conformer lies higher by about 80 ± 20 cm<sup>−1</sup> in ITC and 700 ± 50 cm<sup>−1</sup> in ISC. The potential energy surfaces (PES) locate all the conformations and TSs. Molecular electrostatic potentials indicate the sites of electrophilic interactions, and the small energy difference between the minima in ITC predicts an interesting interplay of intermolecular interactions in suitable environments. The validity of the maximum hardness principle and minimum electrophilicity principles is checked. Frontier molecular orbitals show the change in electron densities on excitation, which are mostly π → π<sup>*</sup> in nature. Hyperconjugative interactions involving different <i>σ</i> and lone pair orbitals explain the change in conformational patterns in these molecules. We suggest some experiments to corroborate our findings.</p><h3>Methods</h3><p>Computations are performed with different functionals (B3LYP, M06-2X, and ωB97X-D) in DFT as well as ab initio methods (MP2 and CCSD) with 6-311G + + (2d, 3p) and augmented cc-pVDZ as basis sets. Gaussian 09 is used for the above computations. PED analyses were performed by Veda 4 software. For viewing and plotting purposes, Gaussview 5.0 and Origin 8.5 are used.</p></div>","PeriodicalId":651,"journal":{"name":"Journal of Molecular Modeling","volume":"31 8","pages":""},"PeriodicalIF":2.5000,"publicationDate":"2025-07-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"How does the conformational landscape change on replacement in tetralin? A computational investigation with oxygen, sulfur, and selenium\",\"authors\":\"Asif Iqubal Middya, Abhijit Chakraborty\",\"doi\":\"10.1007/s00894-025-06432-6\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<div><h3>Context</h3><p>The oxygen, sulfur, and selenium derivatives of tetralin termed as isochroman (IC), isothiochroman (ITC), and isoselenochroman (ISC) showed interesting conformational patterns. In particular, ITC and IC have immense pharmacological significance. The twisted conformer is the global minimum in IC, where the bent is a transition state (TS) and remains 1100 ± 100 cm<sup>−1</sup> higher. The bent form in ITC and ISC possesses the lowest energy. But, the twisted conformer lies higher by about 80 ± 20 cm<sup>−1</sup> in ITC and 700 ± 50 cm<sup>−1</sup> in ISC. The potential energy surfaces (PES) locate all the conformations and TSs. Molecular electrostatic potentials indicate the sites of electrophilic interactions, and the small energy difference between the minima in ITC predicts an interesting interplay of intermolecular interactions in suitable environments. The validity of the maximum hardness principle and minimum electrophilicity principles is checked. Frontier molecular orbitals show the change in electron densities on excitation, which are mostly π → π<sup>*</sup> in nature. Hyperconjugative interactions involving different <i>σ</i> and lone pair orbitals explain the change in conformational patterns in these molecules. We suggest some experiments to corroborate our findings.</p><h3>Methods</h3><p>Computations are performed with different functionals (B3LYP, M06-2X, and ωB97X-D) in DFT as well as ab initio methods (MP2 and CCSD) with 6-311G + + (2d, 3p) and augmented cc-pVDZ as basis sets. Gaussian 09 is used for the above computations. PED analyses were performed by Veda 4 software. For viewing and plotting purposes, Gaussview 5.0 and Origin 8.5 are used.</p></div>\",\"PeriodicalId\":651,\"journal\":{\"name\":\"Journal of Molecular Modeling\",\"volume\":\"31 8\",\"pages\":\"\"},\"PeriodicalIF\":2.5000,\"publicationDate\":\"2025-07-12\",\"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/s00894-025-06432-6\",\"RegionNum\":4,\"RegionCategory\":\"化学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q4\",\"JCRName\":\"BIOCHEMISTRY & MOLECULAR BIOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Molecular Modeling","FirstCategoryId":"92","ListUrlMain":"https://link.springer.com/article/10.1007/s00894-025-06432-6","RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"BIOCHEMISTRY & MOLECULAR BIOLOGY","Score":null,"Total":0}
How does the conformational landscape change on replacement in tetralin? A computational investigation with oxygen, sulfur, and selenium
Context
The oxygen, sulfur, and selenium derivatives of tetralin termed as isochroman (IC), isothiochroman (ITC), and isoselenochroman (ISC) showed interesting conformational patterns. In particular, ITC and IC have immense pharmacological significance. The twisted conformer is the global minimum in IC, where the bent is a transition state (TS) and remains 1100 ± 100 cm−1 higher. The bent form in ITC and ISC possesses the lowest energy. But, the twisted conformer lies higher by about 80 ± 20 cm−1 in ITC and 700 ± 50 cm−1 in ISC. The potential energy surfaces (PES) locate all the conformations and TSs. Molecular electrostatic potentials indicate the sites of electrophilic interactions, and the small energy difference between the minima in ITC predicts an interesting interplay of intermolecular interactions in suitable environments. The validity of the maximum hardness principle and minimum electrophilicity principles is checked. Frontier molecular orbitals show the change in electron densities on excitation, which are mostly π → π* in nature. Hyperconjugative interactions involving different σ and lone pair orbitals explain the change in conformational patterns in these molecules. We suggest some experiments to corroborate our findings.
Methods
Computations are performed with different functionals (B3LYP, M06-2X, and ωB97X-D) in DFT as well as ab initio methods (MP2 and CCSD) with 6-311G + + (2d, 3p) and augmented cc-pVDZ as basis sets. Gaussian 09 is used for the above computations. PED analyses were performed by Veda 4 software. For viewing and plotting purposes, Gaussview 5.0 and Origin 8.5 are used.
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.