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单体酯酶:合作行为、滞后/变构的洞察。

Monomeric Esterase: Insights into Cooperative Behavior, Hysteresis/Allokairy.

机构信息

Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo CEP 05508-000, Brazil.

Department of Biochemistry, Institute of Chemistry, University of São Paulo, São Paulo CEP 05508-000, Brazil.

出版信息

Biochemistry. 2024 May 7;63(9):1178-1193. doi: 10.1021/acs.biochem.3c00668. Epub 2024 Apr 26.

Abstract

Herein, we present a novel esterase enzyme, Ade1, isolated from a metagenomic library of Amazonian dark earths soils, demonstrating its broad substrate promiscuity by hydrolyzing ester bonds linked to aliphatic groups. The three-dimensional structure of the enzyme was solved in the presence and absence of substrate (tributyrin), revealing its classification within the α/β-hydrolase superfamily. Despite being a monomeric enzyme, enzymatic assays reveal a cooperative behavior with a sigmoidal profile (initial velocities vs substrate concentrations). Our investigation brings to light the allokairy/hysteresis behavior of Ade1, as evidenced by a transient burst profile during the hydrolysis of substrates such as -nitrophenyl butyrate and -nitrophenyl octanoate. Crystal structures of Ade1, coupled with molecular dynamics simulations, unveil the existence of multiple conformational structures within a single molecular state (E̅). Notably, substrate binding induces a loop closure that traps the substrate in the catalytic site. Upon product release, the cap domain opens simultaneously with structural changes, transitioning the enzyme to a new molecular state (E̅). This study advances our understanding of hysteresis/allokairy mechanisms, a temporal regulation that appears more pervasive than previously acknowledged and extends its presence to metabolic enzymes. These findings also hold potential implications for addressing human diseases associated with metabolic dysregulation.

摘要

在此,我们介绍了一种从亚马逊黑土土壤宏基因组文库中分离出的新型酯酶 Ade1,它通过水解与脂肪族基团相连的酯键,展示了其广泛的底物混杂性。在存在和不存在底物(丁酸三酯)的情况下,解决了该酶的三维结构,揭示了其在 α/β-水解酶超家族中的分类。尽管是单体酶,但酶促测定揭示了其具有协同行为的 S 形轮廓(初始速度与底物浓度的关系)。我们的研究揭示了 Ade1 的所有动力学/滞后行为,这一点可以通过在水解 - 硝基苯丁酸酯和 - 硝基苯辛酸酯等底物时的瞬态爆发曲线得到证明。Ade1 的晶体结构与分子动力学模拟相结合,揭示了在单个分子状态(E̅)内存在多种构象结构。值得注意的是,底物结合诱导环闭合,将底物捕获在催化位点中。在产物释放后,帽结构同时打开,并伴随着结构变化,使酶转变为新的分子状态(E̅)。这项研究增进了我们对滞后/所有动力学机制的理解,这是一种时间调节,比以前认为的更为普遍,并将其存在扩展到代谢酶。这些发现也可能对解决与代谢失调相关的人类疾病具有重要意义。

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