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定量解释单个酶转化时间中的随机性。

Quantitative interpretation of the randomness in single enzyme turnover times.

机构信息

Department of Chemistry, Chung-Ang University, Seoul, Korea.

出版信息

Biophys J. 2011 Aug 3;101(3):519-24. doi: 10.1016/j.bpj.2011.06.022.

Abstract

Fluctuating turnover times of a single enzyme become observable with the advent of modern cutting-edge, single enzyme experimental techniques. Although the conventional chemical kinetics and its modern generalizations could provide a good quantitative description for the mean of the enzymatic turnover times, to our knowledge there has not yet been a successful quantitative interpretation for the variance or the randomness of the enzymatic turnover times. In this review, we briefly review several theories in this field, and compare predictions of these theories to the randomness parameter data reported for β-galactosidase enzyme. We find the recently proposed kinetics for renewal reaction processes could provide an excellent quantitative interpretation of the randomness parameter data. From the analysis of the randomness parameter data of the single enzyme reaction, one can extract quantitative information about the mean lifetime of enzyme-substrate complex; the success or the failure probability of the catalytic reaction per each formation of ES complex; and the non-Poisson character of the reaction dynamics of the ES complex (which is beyond reach of the long-standing paradigm of the conventional chemical kinetics).

摘要

随着现代前沿的单酶实验技术的出现,单个酶的波动周转率变得可见。虽然传统的化学动力学及其现代概括可以很好地定量描述酶周转率的平均值,但据我们所知,对于酶周转率的方差或随机性还没有成功的定量解释。在这篇综述中,我们简要回顾了该领域的几个理论,并将这些理论的预测与报道的β-半乳糖苷酶的随机性参数数据进行了比较。我们发现,最近提出的更新反应过程的动力学可以为随机性参数数据提供极好的定量解释。从单酶反应的随机性参数数据分析中,可以提取出有关酶-底物复合物平均寿命的定量信息;每个 ES 复合物形成时的催化反应成功或失败的概率;以及 ES 复合物反应动力学的非泊松特征(这是传统化学动力学长期范式所无法企及的)。

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本文引用的文献

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Generic schemes for single-molecule kinetics. 1: Self-consistent pathway solutions for renewal processes.
J Phys Chem B. 2008 Oct 16;112(41):12867-80. doi: 10.1021/jp803347m. Epub 2008 Sep 25.
3
Single molecule Michaelis-Menten equation beyond quasistatic disorder.
Phys Rev E Stat Nonlin Soft Matter Phys. 2006 Sep;74(3 Pt 1):030902. doi: 10.1103/PhysRevE.74.030902. Epub 2006 Sep 5.
4
Correlations in single molecule photon statistics: renewal indicator.
J Phys Chem B. 2006 Sep 28;110(38):19040-3. doi: 10.1021/jp061302b.
5
Single-molecule Michaelis-Menten equations.
J Phys Chem B. 2005 Oct 20;109(41):19068-81. doi: 10.1021/jp051490q.
7
Ever-fluctuating single enzyme molecules: Michaelis-Menten equation revisited.
Nat Chem Biol. 2006 Feb;2(2):87-94. doi: 10.1038/nchembio759. Epub 2005 Dec 25.
8
Fluctuating enzymes: lessons from single-molecule studies.
Acc Chem Res. 2005 Dec;38(12):923-31. doi: 10.1021/ar040133f.
9
Single-enzyme kinetics of CALB-catalyzed hydrolysis.
Angew Chem Int Ed Engl. 2005 Jan 14;44(4):560-4. doi: 10.1002/anie.200460625.
10
Theory of single-molecule spectroscopy: beyond the ensemble average.
Annu Rev Phys Chem. 2004;55:457-507. doi: 10.1146/annurev.physchem.55.111803.143246.

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