Manchester Institute of Biotechnology, The University of Manchester, 131 Princess Street, Manchester M1 7DN, UK.
Phys Chem Chem Phys. 2020 Dec 7;22(46):27178-27190. doi: 10.1039/d0cp05169a.
Cytochrome P450 enzymes are versatile biocatalysts found in most forms of life. Generally, the cytochrome P450s react with dioxygen and hence are haem-based mono-oxygenases; however, in specific isozymes, H2O2 rather than O2 is used and these P450s act as peroxygenases. The P450 OleTJE is a peroxygenase that binds long to medium chain fatty acids and converts them to a range of products originating from Cα-hydroxylation, Cβ-hydroxylation, Cα-Cβ desaturation and decarboxylation of the substrate. There is still controversy regarding the details of the reaction mechanism of P450 OleTJE; how the products are formed and whether the product distributions can be influenced by external perturbations. To gain further insights into the structure and reactivity of P450 OleTJE, we set up a range of large active site model complexes as well as full enzymatic structures and did a combination of density functional theory studies and quantum mechanics/molecular mechanics calculations. In particular, the work focused on the mechanisms leading to these products under various reaction conditions. Thus, for a small cluster model, we find a highly selective Cα-hydroxylation pathway that is preferred over Cβ-H hydrogen atom abstraction by at least 10 kcal mol-1. Introduction of polar residues to the model, such as an active site protonated histidine residue or through external electric field effects, lowers the Cβ-H hydrogen atom abstraction barriers are lowered, while a full QM/MM model brings the Cα-H and Cβ-H hydrogen atom abstraction barriers within 1 kcal mol-1. Our studies; therefore, implicate that environmental effects in the second-coordination sphere can direct and guide selectivities in enzymatic reaction mechanisms.
细胞色素 P450 酶是一种多功能生物催化剂,存在于大多数生命形式中。一般来说,细胞色素 P450 与双分子氧反应,因此是基于血红素的单加氧酶;然而,在特定的同工酶中,使用的是 H2O2 而不是 O2,这些 P450 作为过氧化物酶发挥作用。P450 OleTJE 是一种过氧化物酶,它与长链到中链脂肪酸结合,并将其转化为一系列产物,这些产物来源于 Cα-羟化、Cβ-羟化、Cα-Cβ 去饱和和底物的脱羧。关于 P450 OleTJE 的反应机制的细节仍存在争议;产物是如何形成的,以及产物分布是否可以受到外部干扰的影响。为了更深入地了解 P450 OleTJE 的结构和反应性,我们建立了一系列大的活性位点模型配合物以及完整的酶结构,并进行了密度泛函理论研究和量子力学/分子力学计算的组合。特别是,这项工作侧重于在各种反应条件下导致这些产物的机制。因此,对于一个小的团簇模型,我们发现了一种高度选择性的 Cα-羟化途径,其选择性至少比 Cβ-H 氢原子提取高 10 kcal mol-1。在模型中引入极性残基,如活性位点质子化组氨酸残基或通过外部电场效应,可以降低 Cβ-H 氢原子提取的势垒,而全 QM/MM 模型则使 Cα-H 和 Cβ-H 氢原子提取的势垒相差 1 kcal mol-1。因此,我们的研究表明,第二配位球中的环境效应可以指导和引导酶反应机制中的选择性。