氨酰-tRNA合成酶的动力学和热力学分析方法。
Methods for kinetic and thermodynamic analysis of aminoacyl-tRNA synthetases.
作者信息
Francklyn Christopher S, First Eric A, Perona John J, Hou Ya-Ming
机构信息
Department of Biochemistry, University of Vermont, Health Sciences Complex, 89 Beaumont Avenue, Burlington, VT 05405, USA.
出版信息
Methods. 2008 Feb;44(2):100-18. doi: 10.1016/j.ymeth.2007.09.007.
The accuracy of protein synthesis relies on the ability of aminoacyl-tRNA synthetases (aaRSs) to discriminate among true and near cognate substrates. To date, analysis of aaRSs function, including identification of residues of aaRS participating in amino acid and tRNA discrimination, has largely relied on the steady state kinetic pyrophosphate exchange and aminoacylation assays. Pre-steady state kinetic studies investigating a more limited set of aaRS systems have also been undertaken to assess the energetic contributions of individual enzyme-substrate interactions, particularly in the adenylation half reaction. More recently, a renewed interest in the use of rapid kinetics approaches for aaRSs has led to their application to several new aaRS systems, resulting in the identification of mechanistic differences that distinguish the two structurally distinct aaRS classes. Here, we review the techniques for thermodynamic and kinetic analysis of aaRS function. Following a brief survey of methods for the preparation of materials and for steady state kinetic analysis, this review will describe pre-steady state kinetic methods employing rapid quench and stopped-flow fluorescence for analysis of the activation and aminoacyl transfer reactions. Application of these methods to any aaRS system allows the investigator to derive detailed kinetic mechanisms for the activation and aminoacyl transfer reactions, permitting issues of substrate specificity, stereochemical mechanism, and inhibitor interaction to be addressed in a rigorous and quantitative fashion.
蛋白质合成的准确性依赖于氨酰 - tRNA合成酶(aaRSs)区分正确和近同源底物的能力。迄今为止,对aaRSs功能的分析,包括鉴定参与氨基酸和tRNA识别的aaRSs残基,在很大程度上依赖于稳态动力学焦磷酸交换和氨酰化测定。也已经进行了研究更有限的aaRS系统集的预稳态动力学研究,以评估单个酶 - 底物相互作用的能量贡献,特别是在腺苷化半反应中。最近,对使用快速动力学方法研究aaRSs的兴趣重新燃起,导致其应用于几个新的aaRS系统,从而鉴定出区分两种结构不同的aaRS类别的机制差异。在这里,我们综述了aaRS功能的热力学和动力学分析技术。在简要介绍材料制备方法和稳态动力学分析方法之后,本综述将描述采用快速淬灭和停流荧光的预稳态动力学方法,用于分析活化和氨酰基转移反应。将这些方法应用于任何aaRS系统,使研究人员能够推导活化和氨酰基转移反应的详细动力学机制,从而能够以严格和定量的方式解决底物特异性、立体化学机制和抑制剂相互作用等问题。