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分子氧对黄素的氧化:关于可能的自由基机制的计算见解

Oxidation of Flavin by Molecular Oxygen: Computational Insights into a Possible Radical Mechanism.

作者信息

Stare Jernej

机构信息

National Institute of Chemistry,Hajdrihova 19, SI-1000 Ljubljana, Slovenia.

出版信息

ACS Omega. 2024 May 22;9(22):23431-23441. doi: 10.1021/acsomega.4c00307. eCollection 2024 Jun 4.

DOI:10.1021/acsomega.4c00307
PMID:38854520
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11154890/
Abstract

As a highly electrophilic moiety capable of oxidizing a variety of small organic molecules and biomolecules, flavin is an important prosthetic group in many enzymes. Upon oxidation of the substrate, flavin is converted into its reduced (dihydrogenated) form. The catalytic cycle is completed through oxidation back to the oxidized form, thus restoring the enzyme's oxidizing capability. While it has been firmly established that oxidation of the reduced form of flavin is cast by molecular oxygen, yielding oxidized flavin and hydrogen peroxide, the mechanism of this process is still poorly understood. Herein, we investigate the radical mechanism, which is one of the possible reaction mechanisms, by quantum chemical calculations. Because molecular oxygen exists as a triplet in its electronic ground state, whereas the products are singlets, the reaction is accompanied by hopping between electronic surfaces. We find that the rate-limiting factor of flavin oxidation is likely associated with the change in the spin state of the system. By considering several possible reactions involving flavin and its derivatives in the radical form and by examining the corresponding parts of the potential energy surface in various spin states, we estimate the effective barrier of the kinetically and thermodynamically preferred variant of flavin oxidation to be about 15 kcal/mol in the gas phase and about 7 kcal/mol in a polar (aqueous) environment. This is in agreement with kinetic studies of the corresponding monoamine oxidase enzymes, confirming the radical mechanism as a viable option for flavin regeneration in enzymes.

摘要

作为一种能够氧化多种小分子有机化合物和生物分子的高亲电部分,黄素是许多酶中重要的辅基。在底物氧化时,黄素会转化为其还原(二氢化)形式。催化循环通过再次氧化回到氧化形式而完成,从而恢复酶的氧化能力。虽然已经明确还原型黄素的氧化是由分子氧引发的,生成氧化型黄素和过氧化氢,但该过程的机制仍了解甚少。在此,我们通过量子化学计算研究自由基机制,这是可能的反应机制之一。由于分子氧在其电子基态以三重态存在,而产物是单重态,该反应伴随着电子表面间的跃迁。我们发现黄素氧化的限速因素可能与体系自旋态的变化有关。通过考虑涉及自由基形式的黄素及其衍生物的几种可能反应,并检查各种自旋态下势能面的相应部分,我们估计在气相中黄素氧化的动力学和热力学上优选变体的有效势垒约为15千卡/摩尔,在极性(水性)环境中约为7千卡/摩尔。这与相应单胺氧化酶的动力学研究一致,证实自由基机制是酶中黄素再生的可行选择。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b30a/11154890/29f4a0737b7b/ao4c00307_0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b30a/11154890/7d473d3390c3/ao4c00307_0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b30a/11154890/29f4a0737b7b/ao4c00307_0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b30a/11154890/7d473d3390c3/ao4c00307_0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b30a/11154890/29f4a0737b7b/ao4c00307_0003.jpg

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