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6-氰基萘-2-基 4-(苄氧基)苯甲酸酯的晶体结构、 Hirshfeld表面分析以及密度泛函理论和分子对接研究

Crystal structure, Hirshfeld surface analysis, and DFT and mol-ecular docking studies of 6-cyanona-phthalen-2-yl 4-(benz-yloxy)benzoate.

作者信息

Harish Kumar Mahadevaiah, Santhosh Kumar Shivakumar, Devarajegowda Hirehalli Chikkegowda, Srinivasa Hosapalya Thimmaiah, Palakshamurthy Bandrehalli Siddagangaiah

机构信息

Department of Physics Yuvaraja's College University of Mysore,Mysore 570005 Karnataka India.

Department of PG Studies and Research in Physics Albert Einstein Block UCS Tumkur University, Tumkur Karnataka-572103 India.

出版信息

Acta Crystallogr E Crystallogr Commun. 2024 Oct 22;80(Pt 11):1180-1185. doi: 10.1107/S2056989024009964. eCollection 2024 Oct 1.

DOI:10.1107/S2056989024009964
PMID:39712165
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11660483/
Abstract

In the title compound, CHNO, the torsion angle associated with the phenyl benzoate group is -173.7 (2)° and that for the benz-yloxy group is -174.8 (2)° establishing an -type conformation. The dihedral angles between the ten-membered cyanona-phthalene ring and the aromatic ring of the phenyl benzoate and the benz-yloxy fragments are 40.70 (10) and 87.51 (11)°, respectively, whereas the dihedral angle between the aromatic phenyl benzoate and the benz-yloxy fragments is 72.30 (13)°. In the crystal, the mol-ecules are linked by weak C-H⋯O inter-actions forming (4) chains propagating parallel to [010]. The packing is consolidated by three C-H⋯π inter-actions and two π-π stacking inter-actions between the aromatic rings of naphthalene and phenyl benzoate with centroid-to-centroid distances of 3.9698 (15) and 3.8568 (15) Å, respectively. Inter-molecular inter-actions were qu-anti-fied using Hirshfeld surface analysis. The mol-ecular structure was further optimized by density functional theory (DFT) at the B3LYP/6-311+ G(d,p) level, revealing that the energy gap between HOMO and LUMO is 3.17 eV. Mol-ecular docking studies were carried out for the title compound as a ligand and SARS-Covid-2(PDB ID:7QF0) protein as a receptor giving a binding affinity of -9.5 kcal mol.

摘要

在标题化合物CHNO中,与苯甲酸苯酯基团相关的扭转角为-173.7 (2)°,苄氧基的扭转角为-174.8 (2)°,形成一种反式构象。十元氰基萘环与苯甲酸苯酯的芳环以及苄氧基片段之间的二面角分别为40.70 (10)°和87.51 (11)°,而苯甲酸苯酯芳环与苄氧基片段之间的二面角为72.30 (13)°。在晶体中,分子通过弱的C-H⋯O相互作用连接,形成平行于[010]传播的(4)链。堆积通过萘和苯甲酸苯酯芳环之间的三个C-H⋯π相互作用和两个π-π堆积相互作用得到巩固,质心到质心的距离分别为3.9698 (15)和3.8568 (15) Å。使用Hirshfeld表面分析对分子间相互作用进行了量化。分子结构在B3LYP/6-311+G(d,p)水平上通过密度泛函理论(DFT)进一步优化,结果表明最高占据分子轨道(HOMO)和最低未占据分子轨道(LUMO)之间的能隙为3.17 eV。对标题化合物作为配体和SARS-CoV-2(PDB ID:7QF0)蛋白作为受体进行了分子对接研究,结合亲和力为-9.5 kcal mol。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/4cf737899d7e/e-80-01180-fig10.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/bfa83c87ce17/e-80-01180-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/2384f54e8e28/e-80-01180-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/3f8721d5f7d7/e-80-01180-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/a7e6d4debfd0/e-80-01180-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/0069bec53463/e-80-01180-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/a9da91fc7f61/e-80-01180-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/d1c68c638b8f/e-80-01180-fig7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/eb2ebb0ec16f/e-80-01180-fig8.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/f7c61c78c5af/e-80-01180-fig9.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/4cf737899d7e/e-80-01180-fig10.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/bfa83c87ce17/e-80-01180-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/2384f54e8e28/e-80-01180-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/3f8721d5f7d7/e-80-01180-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/a7e6d4debfd0/e-80-01180-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/0069bec53463/e-80-01180-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/a9da91fc7f61/e-80-01180-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/d1c68c638b8f/e-80-01180-fig7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/eb2ebb0ec16f/e-80-01180-fig8.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/f7c61c78c5af/e-80-01180-fig9.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d1ec/11660483/4cf737899d7e/e-80-01180-fig10.jpg

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