金属中心同一性对细胞色素P450酶模型反应性影响的计算研究。

IF 2.9 3区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY
Vyshnavi Vennelakanti, Mugyeom Jeon, Heather J Kulik
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引用次数: 0

摘要

单核铁酶,如含血红素的细胞色素P450酶,在环境条件下催化多种C-H活化反应,通过改变天然酶,它们代表了一个有吸引力的工程反应性平台。利用密度泛函理论,我们研究了P450活性位点模型中原生铁和非原生8族(Ru, Os)和9族(Ir)金属中心。我们量化了在整个催化循环中改变金属如何改变自旋态偏好。我们的计算揭示了所有Fe中间体的中间自旋基态,而重金属在反应周期中大多数中间体都倾向于低自旋基态。我们还研究了决定速率的氢原子转移(HAT)步骤和随后的反弹步骤。我们观察到Fe和Ru的HAT势垒相当,Os的HAT势垒高得多,Ir的HAT势垒最低。所有金属的回弹步骤都是无障碍的,而铁的回弹中间体是最显著稳定的。对反应周期中所有中间体的基自旋态的检查揭示了8族金属的自旋允许途径和9族Ir的自旋禁止能量,具有潜在的两态反应性。我们的工作强调了第8组金属和第9组Ir之间的差异,这表明含有Ru的工程P450酶可以改善酶对C-H羟基化的反应性。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Computational Investigation of the Role of Metal Center Identity in Cytochrome P450 Enzyme Model Reactivity.

Mononuclear Fe enzymes such as heme-containing cytochrome P450 enzymes catalyze a variety of C-H activation reactions under ambient conditions, and they represent an attractive platform for engineering reactivity through changes to the native enzyme. Using density functional theory, we study both native Fe and non-native group 8 (Ru, Os) and group 9 (Ir) metal centers in an active site model of P450. We quantify how changing the metal changes spin state preferences throughout the catalytic cycle. Our calculations reveal an intermediate-spin ground state for all Fe intermediates while the heavier metals prefer low-spin ground states across most intermediates in the reaction cycle. We also study the rate-determining hydrogen atom transfer (HAT) step and the subsequent rebound step. We observe comparable HAT barriers for Fe and Ru, a much higher barrier for Os, and the lowest HAT barrier for Ir. Rebound steps are barrierless for all metals, and the rebound intermediate for Fe is most significantly stabilized. Examination of ground spin states of all intermediates in the reaction cycle reveals spin-allowed pathways for the group 8 metals and spin-forbidden energetics for the group 9 Ir with potential two-state reactivity. Our work highlights the differences between the group 8 metals and the group 9 Ir, and it suggests that engineered P450 enzymes with Ru in particular result in improved enzyme reactivity toward C-H hydroxylation.

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来源期刊
Biochemistry Biochemistry
Biochemistry Biochemistry 生物-生化与分子生物学
CiteScore
5.50
自引率
3.40%
发文量
336
审稿时长
1-2 weeks
期刊介绍: Biochemistry provides an international forum for publishing exceptional, rigorous, high-impact research across all of biological chemistry. This broad scope includes studies on the chemical, physical, mechanistic, and/or structural basis of biological or cell function, and encompasses the fields of chemical biology, synthetic biology, disease biology, cell biology, nucleic acid biology, neuroscience, structural biology, and biophysics. In addition to traditional Research Articles, Biochemistry also publishes Communications, Viewpoints, and Perspectives, as well as From the Bench articles that report new methods of particular interest to the biological chemistry community.
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