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详细的 TD-DFT 和维生素 K 在可溶性、难溶性和不溶性溶剂中的分子间相互作用研究,以及 ADME 和分子对接研究。

A detailed TD-DFT and intermolecular interaction study of vitamin K in soluble, poorly soluble and insoluble solvents, as well as an ADME and molecular docking study.

机构信息

Vocational School of Food, Agriculture and Livestock, Bingol University, 12000 Bingol, Turkey; Chemistry Programme, Institute of Sciences, Bingol University, 12000 Bingol, Turkey.

出版信息

Spectrochim Acta A Mol Biomol Spectrosc. 2025 Jan 15;325:125130. doi: 10.1016/j.saa.2024.125130. Epub 2024 Sep 18.

Abstract

Vitamin K is one of the most important fat-soluble vitamins and while there are two main types of vitamin K in nature, known as K1 (phylloquinone) and K2 (menaquinones), there is also a synthetic type of vitamin K known as K3 (menadione). Recent studies have shown that it is crucial to know the non-covalent interactions, ADME and molecular docking of molecules in different solvent media. Therefore, we have performed some quantum chemical calculations, ADME and intra-and intermolecular interaction calculations of a number of K1, K2 and K3 such as K1-water (K1 + W), K1-methanol (K1 + M), K1-triacetin (K1 + T), K2-water (K2 + W), K2-methanol (K2 + M), K2-triacetin (K2 + T), K3-water (K3 + W), K3-methanol (K3 + M), K3-triacetin (K3 + T) performed by Density Functional Theory (DFT) and Multiwfn: A multifunctional wavefunction analyzer. Molecular structures, HOMO-LUMO energies, MEP and electronic properties have been calculated and described using DFT at the level of B3LYP/6-311G (d,p) level. The nature of the molecular interactions between vitamin K and solvents such as water, methanol and triacetin were also investigated using topological analyses such as atoms in molecule (AIM), non-covalent interaction index (NCI), reduced density gradient (RDG), Localized orbital locator (LOL) and electron localization function (ELF). In addition, FMO for electronic transitions, MEP for electrophilic and nucleophilic attack, ADME to investigate how a chemical is processed by a living organism, and Fukui functions to determine electron density are explained. Finally, molecular docking was used to determine the biological activity of the vitamin K.

摘要

维生素 K 是最重要的脂溶性维生素之一,虽然自然界中有两种主要的维生素 K,分别称为 K1(叶绿醌)和 K2(甲萘醌),但也有一种合成的维生素 K,称为 K3(亚甲萘醌)。最近的研究表明,了解不同溶剂介质中分子的非共价相互作用、ADME 和分子对接至关重要。因此,我们进行了一些量子化学计算、ADME 和内-分子间相互作用计算,研究了 K1、K2 和 K3 等多种物质,如 K1-水(K1+W)、K1-甲醇(K1+M)、K1-三乙酸酯(K1+T)、K2-水(K2+W)、K2-甲醇(K2+M)、K2-三乙酸酯(K2+T)、K3-水(K3+W)、K3-甲醇(K3+M)、K3-三乙酸酯(K3+T),这些都是通过密度泛函理论(DFT)和 Multiwfn:多功能波函数分析器完成的。使用 DFT 在 B3LYP/6-311G(d,p)水平上计算并描述了分子结构、HOMO-LUMO 能量、MEP 和电子性质。还使用拓扑分析,如分子中的原子(AIM)、非共价相互作用指数(NCI)、还原密度梯度(RDG)、局部轨道定位器(LOL)和电子定位函数(ELF),研究了维生素 K 与水、甲醇和三乙酸酯等溶剂之间的分子相互作用的性质。此外,还解释了用于电子跃迁的 FMO、用于亲电和亲核攻击的 MEP、用于研究化学物质如何被生物体处理的 ADME,以及用于确定电子密度的 Fukui 函数。最后,使用分子对接来确定维生素 K 的生物活性。

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