一个世纪的酶动力学分析，1913 年至 2013 年。
A century of enzyme kinetic analysis, 1913 to 2013.
机构信息
Institute for Cell and Molecular Biology, Department of Chemistry and Biochemistry, University of Texas at Austin, 2500 Speedway, MBB 3.122, Austin, TX 78735, USA.
出版信息
FEBS Lett. 2013 Sep 2;587(17):2753-66. doi: 10.1016/j.febslet.2013.07.012. Epub 2013 Jul 12.
Abstract
This review traces the history and logical progression of methods for quantitative analysis of enzyme kinetics from the 1913 Michaelis and Menten paper to the application of modern computational methods today. Following a brief review of methods for fitting steady state kinetic data, modern methods are highlighted for fitting full progress curve kinetics based upon numerical integration of rate equations, including a re-analysis of the original Michaelis-Menten full time course kinetic data. Finally, several illustrations of modern transient state kinetic methods of analysis are shown which enable the elucidation of reactions occurring at the active sites of enzymes in order to relate structure and function.
摘要
本文追溯了从 1913 年迈克利斯和门坦论文到当今现代计算方法定量分析酶动力学的历史和逻辑发展过程。简要回顾了拟合稳态动力学数据的方法之后，重点介绍了基于速率方程数值积分拟合完整过程曲线动力学的现代方法，包括对原始迈克尔逊门坦完整时间过程动力学数据的重新分析。最后，展示了几种现代瞬态动力学分析方法的实例，这些方法可用于阐明酶活性部位的反应，以关联结构与功能。
相似文献
1
A century of enzyme kinetic analysis, 1913 to 2013.一个世纪的酶动力学分析，1913 年至 2013 年。
FEBS Lett. 2013 Sep 2;587(17):2753-66. doi: 10.1016/j.febslet.2013.07.012. Epub 2013 Jul 12.
2
Exact and approximate solutions for the decades-old Michaelis-Menten equation: Progress-curve analysis through integrated rate equations.有着数十年历史的米氏方程的精确解和近似解：通过积分速率方程进行的进程曲线分析。
Biochem Mol Biol Educ. 2011 Mar-Apr;39(2):117-25. doi: 10.1002/bmb.20479.
3
Validity of the Michaelis-Menten equation--steady-state or reactant stationary assumption: that is the question.米氏方程的有效性——稳态或反应物静止假设：这就是问题所在。
FEBS J. 2014 Jan;281(2):464-72. doi: 10.1111/febs.12564. Epub 2013 Nov 18.
4
Some lessons about models from Michaelis and Menten.米氏学说的一些启示
Mol Biol Cell. 2012 Feb;23(4):517-9. doi: 10.1091/mbc.E11-07-0643.
5
New types of experimental data shape the use of enzyme kinetics for dynamic network modeling.新型实验数据改变了酶动力学在动态网络建模中的应用方式。
FEBS J. 2014 Jan;281(2):549-71. doi: 10.1111/febs.12525. Epub 2013 Nov 4.
6
Direct determination of enzyme kinetic parameters from single reactions using a new progress curve analysis tool.使用一种新的进程曲线分析工具从单反应中直接测定酶动力学参数。
Protein Eng Des Sel. 2017 Mar 1;30(3):149-156. doi: 10.1093/protein/gzw053.
7
Maini's many contributions to mathematical enzyme kinetics: A review.马伊尼在数学酶动力学方面的诸多贡献：综述。
J Theor Biol. 2019 Nov 21;481:24-27. doi: 10.1016/j.jtbi.2018.12.003. Epub 2018 Dec 14.
8
Single-molecule enzymology à la Michaelis-Menten.米氏酶动力学单分子分析
FEBS J. 2014 Jan;281(2):518-30. doi: 10.1111/febs.12663. Epub 2014 Jan 2.
9
History of advances in enzyme kinetic methods: From minutes to milliseconds.酶动力学方法的进展历程：从分钟到毫秒
Enzymes. 2023;54:107-134. doi: 10.1016/bs.enz.2023.07.005. Epub 2023 Aug 8.
10
About and beyond the Henri-Michaelis-Menten rate equation for single-substrate enzyme kinetics.关于单底物酶动力学的 Henri-Michaelis-Menten 速率方程及其扩展。
Biochem Biophys Res Commun. 2012 Jan 20;417(3):982-5. doi: 10.1016/j.bbrc.2011.12.051. Epub 2011 Dec 20.
引用本文的文献
1
A Practical Approach to Quantitatively Assessing Equilibrium-Constant Accuracy from a Single Binding Isotherm.一种从单一结合等温线定量评估平衡常数准确性的实用方法。
Precis Chem. 2024 Nov 20;3(2):89-104. doi: 10.1021/prechem.4c00085. eCollection 2025 Feb 24.
2
Characterization of lamotrigine disposition changes during and after pregnancy in women with epilepsy.癫痫女性孕期及产后拉莫三嗪处置变化的特征分析
Pharmacotherapy. 2025 Jan;45(1):33-42. doi: 10.1002/phar.4640. Epub 2025 Jan 7.
3
Biomathematical enzyme kinetics model of prebiotic autocatalytic RNA networks: degenerating parasite-specific hyperparasite catalysts confer parasite resistance and herald the birth of molecular immunity.益生元自催化RNA网络的生物数学酶动力学模型：退化的寄生虫特异性超寄生虫催化剂赋予寄生虫抗性并预示分子免疫的诞生。
PLoS Comput Biol. 2025 Jan 3;21(1):e1012162. doi: 10.1371/journal.pcbi.1012162. eCollection 2025 Jan.
4
Binding Curve Viewer: Visualizing the Equilibrium and Kinetics of Protein-Ligand Binding and Competitive Binding.结合曲线查看器：可视化蛋白质-配体结合和竞争结合的平衡和动力学。
J Chem Inf Model. 2024 May 27;64(10):4180-4192. doi: 10.1021/acs.jcim.4c00130. Epub 2024 May 8.
5
Theoretical Improvements in Enzyme Efficiency Associated with Noisy Rate Constants and Increased Dissipation.与噪声速率常数和增加的耗散相关的酶效率的理论改进。
Entropy (Basel). 2024 Feb 9;26(2):151. doi: 10.3390/e26020151.
6
Multi-scale models of whole cells: progress and challenges.全细胞的多尺度模型：进展与挑战。
Front Cell Dev Biol. 2023 Nov 7;11:1260507. doi: 10.3389/fcell.2023.1260507. eCollection 2023.
7
Selection of the Optimal L-asparaginase II Against Acute Lymphoblastic Leukemia: An In Silico Approach.针对急性淋巴细胞白血病选择最佳的天冬酰胺酶II：一种计算机模拟方法。
JMIRx Med. 2021 Sep 8;2(3):e29844. doi: 10.2196/29844.
8
Mixed and non-competitive enzyme inhibition: underlying mechanisms and mechanistic irrelevance of the formal two-site model.混合和非竞争型酶抑制：正式的双位点模型的潜在机制和机械无关性。
J Enzyme Inhib Med Chem. 2023 Dec;38(1):2245168. doi: 10.1080/14756366.2023.2245168.
9
Identifiability of enzyme kinetic parameters in substrate competition: a case study of CD39/NTPDase1.鉴定酶动力学参数在底物竞争中的可识别性：以 CD39/NTPDase1 为例。
Purinergic Signal. 2024 Jun;20(3):257-271. doi: 10.1007/s11302-023-09942-1. Epub 2023 May 11.
10
Estimating and Assessing Differential Equation Models with Time-Course Data.基于时程数据的微分方程模型的估计和评估。
J Phys Chem B. 2023 Mar 23;127(11):2362-2374. doi: 10.1021/acs.jpcb.2c08932. Epub 2023 Mar 9.
本文引用的文献
1
Three-dimensional structure of Saccharomyces invertase: role of a non-catalytic domain in oligomerization and substrate specificity.酿酒酵母转化酶的三维结构：非催化结构域在寡聚化和底物特异性中的作用。
J Biol Chem. 2013 Apr 5;288(14):9755-9766. doi: 10.1074/jbc.M112.446435. Epub 2013 Feb 21.
2
The integrated Michaelis-Menten rate equation: déjà vu or vu jàdé?整合的米氏方程：似曾相识还是似曾相识？
J Enzyme Inhib Med Chem. 2013 Aug;28(4):879-93. doi: 10.3109/14756366.2012.688039. Epub 2012 May 28.
3
How conformational dynamics of DNA polymerase select correct substrates: experiments and simulations.DNA 聚合酶如何通过构象动力学选择正确的底物：实验与模拟。
Structure. 2012 Apr 4;20(4):618-27. doi: 10.1016/j.str.2012.02.018. Epub 2012 Apr 3.
4
Reaction of cis-3-chloroacrylic acid dehalogenase with an allene substrate, 2,3-butadienoate: hydration via an enamine.顺式-3-氯丙烯酸脱卤酶与丙二烯底物 2,3-丁二烯酸的反应：通过烯胺进行水合作用。
J Am Chem Soc. 2012 Jan 11;134(1):293-304. doi: 10.1021/ja206873f. Epub 2011 Dec 19.
5
The original Michaelis constant: translation of the 1913 Michaelis-Menten paper.原始米氏常数：1913 年迈修斯-门滕论文的翻译。
Biochemistry. 2011 Oct 4;50(39):8264-9. doi: 10.1021/bi201284u. Epub 2011 Sep 9.
6
Role of induced fit in limiting discrimination against AZT by HIV reverse transcriptase.诱导契合在限制 HIV 逆转录酶对 AZT 的非特异性识别中的作用。
Biochemistry. 2011 Jun 7;50(22):5008-15. doi: 10.1021/bi200204m. Epub 2011 May 13.
7
Nucleotide-dependent conformational change governs specificity and analog discrimination by HIV reverse transcriptase.核苷酸依赖性构象变化控制 HIV 逆转录酶的特异性和类似物区分。
Proc Natl Acad Sci U S A. 2010 Apr 27;107(17):7734-9. doi: 10.1073/pnas.0913946107. Epub 2010 Apr 12.
8
FitSpace explorer: an algorithm to evaluate multidimensional parameter space in fitting kinetic data.FitSpace 探索器：一种用于评估拟合动力学数据的多维参数空间的算法。
Anal Biochem. 2009 Apr 1;387(1):30-41. doi: 10.1016/j.ab.2008.12.025. Epub 2008 Dec 25.
9
Global kinetic explorer: a new computer program for dynamic simulation and fitting of kinetic data.全球动力学探索者：用于动力学数据的动态模拟和拟合的新计算机程序。
Anal Biochem. 2009 Apr 1;387(1):20-9. doi: 10.1016/j.ab.2008.12.024. Epub 2008 Dec 25.
10
Site-specific labeling of T7 DNA polymerase with a conformationally sensitive fluorophore and its use in detecting single-nucleotide polymorphisms.用构象敏感荧光团对T7 DNA聚合酶进行位点特异性标记及其在检测单核苷酸多态性中的应用。
Anal Biochem. 2009 Jan 1;384(1):136-44. doi: 10.1016/j.ab.2008.09.006. Epub 2008 Sep 14.
Zotero 插件