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手性赖氨酸 ε-氨基的翻译后修饰

Chiral Posttranslational Modification to Lysine ε-Amino Groups.

机构信息

Center for Biopharmaceuticals & Department of Drug Design of Pharmacology, Faculty of Health and Medical Sciences, University of Copenhagen, Universitetsparken 2, DK-2100 Copenhagen, Denmark.

出版信息

Acc Chem Res. 2022 May 17;55(10):1456-1466. doi: 10.1021/acs.accounts.2c00115. Epub 2022 May 2.

Abstract

The sophistication of proteomic analysis has revealed that protein lysine residues are posttranslationally modified by a variety of acyl groups. Protein lysine acetylation regulates metabolism, gene expression, and microtubule formation and has been extensively studied; however, the understanding of the biological significance of other acyl posttranslational modifications (PTMs) is still in its infancy. The acylation of lysine residues is mediated either by acyltransferase "writer" enzymes or by nonenzymatic mechanisms and hydrolase enzymes, termed "erasers", that cleave various acyl PTMs to reverse the modified state. We have studied the human lysine deacylase enzymes, comprising the 11 Zn-dependent histone deacetylases (HDACs) and the 7 NAD-consuming sirtuins (SIRTs), over the past decade. We have thus developed selective inhibitors and molecular probes and have studied the acyl substrate scope of each enzyme using chemically synthesized peptide substrates and photo-cross-linking probes. Recently, we have turned our attention to PTMs containing a stereogenic center, such as ε--β-hydroxybutyryllysine (Kbhb) and ε--lactyllysine (Kla), that each comprise a pair of mirror image stereoisomers as modifications. Both modifications are found on histones, where they affect gene transcription in response to specific metabolic states, and they are found on cytosolic and mitochondrial enzymes involved in fatty acid oxidation (Kbhb) and glycolysis (Kla), respectively. Thus, chiral modifications to lysine side chains give rise to two distinct diastereomeric products, with separate metabolic origins and potentially different activities exhibited by writer and eraser enzymes. Lysine l-lactylation originates from l-lactate, a major energy carrier produced from pyruvate after glycolysis, and it is highly induced by metabolic states such as the Warburg effect. l-Lactate can possibly be activated by acyl-coenzyme A (CoA) synthetases and transferred to lysine residues by histone acetyltransferases such as p300. d-Lactylation, on the other hand, arises primarily from a nonenzymatic reaction with d-lactylglutathione, an intermediate in the glyoxalase pathway. In addition to their distinct origin, we found that both K(l-la) and K(d-la) modifications are erased by HDACs with different catalytic efficiencies. Also, K(l-bhb) and K(d-bhb) arise from different metabolites but depend on interconnected metabolic pathways, and the two stereoisomers of ε--3-hydroxy-3-methylglutaryllysine (Khmg) originate from a single precursor that may then be regulated differently by eraser enzymes. Distinguishing between the individual stereoisomers of PTMs is therefore of crucial importance. In the present Account, we will (1) revisit the long-standing evidence for the distinct production and dynamics of enantiomeric forms of chiral metabolites that serve as ε--acyllysine PTMs and (2) highlight the outstanding questions that arise from the recent literature on chiral lysine PTMs resulting from these metabolites.

摘要

蛋白质赖氨酸残基可以被各种酰基基团进行翻译后修饰,这一发现使得蛋白质组学分析变得更加复杂。赖氨酸乙酰化可以调节代谢、基因表达和微管形成,其已经得到了广泛的研究;然而,对于其他酰基翻译后修饰(PTM)的生物学意义的理解仍处于起步阶段。赖氨酸残基的酰化可以通过酰基转移酶“书写器”酶或非酶机制和水解酶“橡皮擦”酶介导,后者可以切割各种酰基 PTM,以逆转修饰状态。在过去的十年中,我们一直在研究人类赖氨酸脱酰基酶,包括 11 种 Zn 依赖性组蛋白去乙酰化酶(HDACs)和 7 种 NAD 消耗型 Sirtuins(SIRTs)。我们因此开发了选择性抑制剂和分子探针,并使用化学合成的肽底物和光交联探针研究了每种酶的酰基底物范围。最近,我们将注意力转向了含有手性中心的 PTM,例如 ε--β-羟丁酰赖氨酸(Kbhb)和 ε--乳酰赖氨酸(Kla),它们分别由一对互为镜像的立体异构体作为修饰物。这两种修饰物都存在于组蛋白上,它们可以影响基因转录,以响应特定的代谢状态,并且存在于参与脂肪酸氧化(Kbhb)和糖酵解(Kla)的细胞质和线粒体酶上。因此,赖氨酸侧链的手性修饰会产生两种不同的非对映异构体产物,它们具有不同的代谢起源,并且“书写器”和“橡皮擦”酶可能具有不同的活性。赖氨酸 l-乳酸酰化起源于 l-乳酸,它是糖酵解后丙酮酸的主要能量载体,并且高度诱导于代谢状态,如沃伯格效应。l-乳酸可能通过酰基辅酶 A(CoA)合成酶激活,并由 p300 等组蛋白乙酰转移酶转移到赖氨酸残基上。另一方面,d-乳酸酰化主要来自于非酶反应,与甘油醛酸途径中的中间产物 d-乳酰谷胱甘肽反应生成。除了它们的独特起源外,我们还发现,两种 K(l-la)和 K(d-la)修饰都可以被不同催化效率的 HDAC 擦除。此外,K(l-bhb)和 K(d-bhb)由不同的代谢物产生,但依赖于相互关联的代谢途径,并且 ε--3-羟基-3-甲基戊二酰赖氨酸(Khmg)的两种立体异构体来源于单个前体,该前体可能随后受到不同的橡皮擦酶调节。因此,区分 PTM 的单个立体异构体至关重要。在本报告中,我们将(1)回顾有关手性代谢物的对映异构体的独特产生和动力学的长期证据,这些代谢物作为 ε--酰基赖氨酸 PTM;(2)强调最近关于这些代谢物产生的手性赖氨酸 PTM 的文献中提出的悬而未决的问题。

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