MECHANISMS OF ENZYMIC AND HYDRIDE TRANSFERS

酶和氢化物转移的机制

• 批准号: 6684595
• 负责人: GREGORY A PETSKO
• 金额: $ 36.02万
• 依托单位: BRANDEIS UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 1990
• 资助国家: 美国
• 起止时间: 1990-01-16 至 2007-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/6684595
• 关键词: X ray crystallography; acidity /alkalinity; active sites; catalyst; chemical binding; chemical kinetics; cofactor; computer simulation; dihydrofolate reductase; enzyme mechanism; enzyme structure; enzyme substrate; hydrogen bond; ionic bond; isomerase; oxidoreductase; site directed mutagenesis; xylose

DESCRIPTION (provided by applicant): The objective of this project is to use X-ray crystallography, computer simulations, site-directed mutagenesis and kinetic measurements to determine what structural features in an enzyme active site promote efficient catalysis of hydrogen ion transfer. Transfer of a hydrogen, usually in the form of either a proton or a hydride ion is the most common chemical reaction in biology, and is also perhaps the simplest, yet it is not always an easy reaction to carry out rapidly. When the donor and acceptor atoms are unactivated carbons or oxygens, the uncatalyzed reactions are very slow, because the -C-H and -O-H groups are not very acidic (both typically have pKa values near 20). Yet enzymes are able to accelerate the transfer of H+ and H- from -C-H and -O-H by more than 15 orders of magnitude in some cases, achieving turnover numbers exceeding 1000 per second. Establishing how enzymes activate substrates, cofactors and their own catalytic groups to effect such catalysis is the goal of this project. We have selected several model systems for study. For proton transfer catalysis: mutarotase (GalM), which catalyses both ring opening and proton transfer; and ketosteroid isomerase (KSI), which utilizes a prototypical acid/base mechanism. For hydride transfer: xylose isomerase (XyI), which catalyzes sugar ring opening followed by metal-mediated 1,2-hydride transfer and dihydrofolate reductase (DHFR), where the hydride donor is NAD. For mutarotase and KSI our aim is to understand how the enzymes increase the basicity of the catalytic base and lower the pKa of the carbon acid and how the transition states are stabilized. For XyI, we aim to learn how the two metal ions in the active site cooperate to promote hydride transfer and how the ring-opening reaction is catalyzed. For DHFR we are studying the orientation and distance requirements for hydride donor and substrate positioning, and the possible role of coenzyme and substrate strain. The protic environment in the active sites and the role of protein dynamics in catalysis are also being probed for all these enzymes computationally and by ultra-high resolution (beyond approximately IA resolution) X-ray diffraction.

描述（由申请人提供）： 该项目的目的是使用X射线晶体学，计算机模拟，定点诱变和动力学测量，以确定在酶活性位点的结构特征，促进氢离子转移的有效催化。氢的转移，通常以质子或氢离子的形式，是生物学中最常见的化学反应，也可能是最简单的，但它并不总是一个容易快速进行的反应。当供体和受体原子是未活化的碳或氧时，未催化的反应非常缓慢，因为-C-H和-O-H基团不是非常酸性的（两者通常具有接近20的pKa值）。然而，在某些情况下，酶能够加速H+和H-从-C-H和-O-H的转移超过15个数量级，实现每秒超过1000次的周转。建立酶如何激活底物，辅因子和它们自己的催化基团来实现这种催化是这个项目的目标。我们选择了几个模型系统进行研究。对于质子转移催化：变旋酶（GalM），其催化开环和质子转移;和酮类固醇异构酶（KSI），其利用原型酸/碱机制。对于氢化物转移：木糖异构酶（XyI），其催化糖开环，随后是金属介导的1，2-氢化物转移和二氢叶酸还原酶（DHFR），其中氢化物供体是NAD。对于变旋酶和KSI，我们的目标是了解酶如何增加催化碱的碱性和降低碳酸的pKa，以及过渡态如何稳定。对于XyI，我们的目标是了解如何在活性位点的两个金属离子合作，以促进氢化物转移和开环反应是如何催化的。对于DHFR，我们正在研究氢化物供体和底物定位的方向和距离要求，以及辅酶和底物应变的可能作用。活性位点中的质子环境和蛋白质动力学在催化中的作用也正在通过计算和超高分辨率（超过约IA分辨率）X射线衍射来探测所有这些酶。