Coordinated conformational changes in P450 decarboxylases enable hydrocarbons production from renewable feedstocks

IF 15.7 1区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Nature Communications Pub Date : 2025-01-22 DOI:10.1038/s41467-025-56256-4
Wesley Cardoso Generoso, Alana Helen Santana Alvarenga, Isabelle Taira Simões, Renan Yuji Miyamoto, Ricardo Rodrigues de Melo, Ederson Paulo Xavier Guilherme, Fernanda Mandelli, Clelton Aparecido Santos, Rafaela Prata, Camila Ramos dos Santos, Felippe Mariano Colombari, Mariana Abrahão Bueno Morais, Rodrigo Pimentel Fernandes, Gabriela Felix Persinoti, Mario Tyago Murakami, Leticia Maria Zanphorlin
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Abstract

Fatty acid peroxygenases have emerged as promising biocatalysts for hydrocarbon biosynthesis due to their ability to perform C-C scission, producing olefins - key building blocks for sustainable materials and fuels. These enzymes operate through non-canonical and complex mechanisms that yield a bifurcated chemoselectivity between hydroxylation and decarboxylation. In this study, we elucidate structural features in P450 decarboxylases that enable the catalysis of unsaturated substrates, expanding the mechanistic pathways for decarboxylation reaction. Combining X-ray crystallography, molecular dynamics simulations, and machine learning, we have identified intricate molecular rearrangements within the active site that enable the Cβ atom of the substrate to approach the heme iron, thereby promoting oleate decarboxylation. Furthermore, we demonstrate that the absence of the aromatic residue in the Phe-His-Arg triad preserves chemoselectivity for alkenes, providing a distinct perspective on the molecular determinants of decarboxylation activity. Ultimately, these findings enable the sustainable production of biohydrocarbons from industrial feedstocks.

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P450脱羧酶的协调构象变化使可再生原料生产碳氢化合物成为可能
脂肪酸过加氧酶已成为碳氢化合物生物合成的有前途的生物催化剂,因为它们能够进行C-C裂解,产生烯烃——可持续材料和燃料的关键组成部分。这些酶通过非规范和复杂的机制运作,在羟基化和脱羧化之间产生分叉的化学选择性。在这项研究中,我们阐明了P450脱羧酶的结构特征,使其能够催化不饱和底物,扩大了脱羧反应的机制途径。结合x射线晶体学,分子动力学模拟和机器学习,我们已经确定了活性位点内复杂的分子重排,使底物的Cβ原子接近血红素铁,从而促进油酸脱羧。此外,我们证明了Phe-His-Arg三联体中芳香残基的缺失保留了烯烃的化学选择性,为脱羧活性的分子决定因素提供了一个独特的视角。最终,这些发现使从工业原料中可持续生产生物碳氢化合物成为可能。
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来源期刊
Nature Communications
Nature Communications Biological Science Disciplines-
CiteScore
24.90
自引率
2.40%
发文量
6928
审稿时长
3.7 months
期刊介绍: Nature Communications, an open-access journal, publishes high-quality research spanning all areas of the natural sciences. Papers featured in the journal showcase significant advances relevant to specialists in each respective field. With a 2-year impact factor of 16.6 (2022) and a median time of 8 days from submission to the first editorial decision, Nature Communications is committed to rapid dissemination of research findings. As a multidisciplinary journal, it welcomes contributions from biological, health, physical, chemical, Earth, social, mathematical, applied, and engineering sciences, aiming to highlight important breakthroughs within each domain.
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