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过氧化氢(最简单的手性分子)与L-和D-丝氨酸对映体及其团簇的复合物:MP2和DFT计算

Complexes of Hydrogen Peroxide, the Simplest Chiral Molecule, with L- and D-Serine Enantiomers and Their Clusters: MP2 and DFT Calculations.

作者信息

Borisov Yurii A, Kiselev Sergey S, Budnik Mikhail I, Snegur Lubov V

机构信息

Federal State Budgetary Scientific Institution, A.N. Nesmeyanov Institute of Organoelement Compounds, Russian Academy of Science, 28 Vavilov St., 119991 Moscow, Russia.

Federal State Budgetary Scientific Institution, N.N. Semenov Federal Research Center of Chemical Physics, Russian Academy of Science, 4 Kosygin St., 119991 Moscow, Russia.

出版信息

Molecules. 2024 Aug 21;29(16):3955. doi: 10.3390/molecules29163955.

Abstract

The interaction between natural amino acids and hydrogen peroxide is of paramount importance due to the widespread use of hydrogen peroxide in biological and environmentally significant processes. Given that both amino acids and hydrogen peroxide occur in nature in two enantiomeric forms, it is crucial to investigate the formation of complexes between them, considering the role of molecular chirality. In this work, we report a theoretical study on the hydrogen peroxide enantiomers and their interactions with L- and S-serine and their clusters. We aimed to evaluate the non-covalent interactions between each hydrogen peroxide enantiomer and the L- and D-enantiomers of the non-essential amino acid serine and their clusters. First, the potential energy surfaces (PES) of transitions between enantiomers of the simplest chiral molecule, hydrogen peroxide, in the gas phase and in aqueous solution were studied using the Møller-Plesset theory method MP2/aug-cc-pVDZ. The activation energies of such transitions were calculated. The interactions of both hydrogen peroxide enantiomers (P and M) with L- and D-serine enantiomers were analyzed by density functional theory (DFT) with ωb97xd/6-311+G**, B3Lyp/6-311+G**, B3P86/6-311+G**, and M06/6-311+G** functionals. We found that both enantiomers of hydrogen peroxide bind more strongly to L-serine and its clusters than to D-serine, especially highlighting that the L form is the predominant natural form of this and other chiral amino acids. The optimized geometric parameters, interaction energies, and HOMO-LUMO energies for various complexes were estimated. Furthermore, circular dichroism (CD) spectra, which are optical chirality characteristics, were simulated for all the complexes under study.

摘要

由于过氧化氢在生物和环境相关过程中广泛使用,天然氨基酸与过氧化氢之间的相互作用至关重要。鉴于氨基酸和过氧化氢在自然界中均以两种对映体形式存在,考虑到分子手性的作用,研究它们之间配合物的形成至关重要。在这项工作中,我们报告了关于过氧化氢对映体及其与L-和S-丝氨酸及其簇相互作用的理论研究。我们旨在评估每种过氧化氢对映体与非必需氨基酸丝氨酸的L-和D-对映体及其簇之间的非共价相互作用。首先,使用Møller-Plesset理论方法MP2/aug-cc-pVDZ研究了最简单的手性分子过氧化氢在气相和水溶液中对映体之间转变的势能面(PES)。计算了这种转变的活化能。通过密度泛函理论(DFT),使用ωb97xd/6-311+G**、B3Lyp/6-311+G**、B3P86/6-311+G和M06/6-311+G泛函分析了过氧化氢的两种对映体(P和M)与L-和D-丝氨酸对映体的相互作用。我们发现,过氧化氢的两种对映体与L-丝氨酸及其簇的结合比与D-丝氨酸更强,特别强调L型是这种及其他手性氨基酸的主要天然形式。估计了各种配合物的优化几何参数、相互作用能和HOMO-LUMO能。此外,还模拟了所研究的所有配合物的圆二色性(CD)光谱,这是光学手性特征。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d4d4/11356864/8d53c89fcce2/molecules-29-03955-g001.jpg

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