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3-溴-2-羟基吡啶单体和二聚体作为溴结构域抑制剂的分子结构、光谱分析、分子对接和物理化学研究。

Molecular Structure, Spectral Analysis, Molecular Docking and Physicochemical Studies of 3-Bromo-2-hydroxypyridine Monomer and Dimer as Bromodomain Inhibitors.

机构信息

Department of Physics, College of Sciences and Arts in Uglat Asugour, Qassim University, Buraydah 52571, Saudi Arabia.

Laboratory of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, University of Monastir, Monastir 5079, Tunisia.

出版信息

Molecules. 2023 Mar 15;28(6):2669. doi: 10.3390/molecules28062669.

Abstract

In this paper, both methods (DFT and HF) were used in a theoretical investigation of 3-bromo-2-Hydroxypyridine (3-Br-2HyP) molecules where the molecular structures of the title compound have been optimized. Molecular electrostatic potential (MEP) was computed using the B3LYP/6-311++G(d,p) level of theory. The time-dependent density functional theory (TD-DFT) approach was used to simulate the HOMO (highest occupied molecular orbital) and LUMO (lowest unoccupied molecular orbital) on the one hand to achieve the frontier orbital gap and on the other hand to calculate the UV-visible spectrum of the compound in gas phase and for different solvents. In addition, electronic localization function and Fukui functions were carried out. Intermolecular interactions were discussed by the topological AIM (atoms in molecules) approach. The thermodynamic functions have been reported with the help of spectroscopic data using statistical methods revealing the correlations between these functions and temperature. To describe the non-covalent interactions, the reduced density gradient (RDG) analysis is performed. To study the biological activity of the compound of the molecule, molecular docking studies were executed on the active sites of BRD2 inhibitors and to explore the hydrogen bond interaction, minimum binding energies with targeted receptors such as PDB ID: 5IBN, 3U5K, 6CD5 were calculated.

摘要

本文采用密度泛函理论(DFT)和 HF 方法对 3-溴-2-羟基吡啶(3-Br-2HyP)分子进行了理论研究,优化了标题化合物的分子结构。采用 B3LYP/6-311++G(d,p)理论水平计算了分子静电势(MEP)。采用含时密度泛函理论(TD-DFT)方法模拟了 HOMO(最高占据分子轨道)和 LUMO(最低未占据分子轨道),一方面实现了前沿轨道能隙,另一方面计算了化合物在气相和不同溶剂中的紫外-可见光谱。此外,还进行了电子定域函数和 Fukui 函数的计算。通过分子拓扑原子(AIM)方法讨论了分子间相互作用。借助光谱数据,采用统计方法报告了热力学函数,揭示了这些函数与温度之间的相关性。为了描述非共价相互作用,进行了缩减密度梯度(RDG)分析。为了研究化合物的生物活性,对 BRD2 抑制剂的活性位点进行了分子对接研究,并计算了与靶受体(如 PDB ID:5IBN、3U5K、6CD5)的氢键相互作用的最小结合能。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/76ee/10054851/101225238a82/molecules-28-02669-g003.jpg

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