Literature DB >> 16766115

Relations between biochemical thermodynamics and biochemical kinetics.

Robert A Alberty1.   

Abstract

The parameters in steady-state or rapid-equilibrium rate equations for enzyme-catalyzed reactions depend on the temperature, pH, and ionic strength, and may depend on the concentrations of specific species in the buffer. When the complete rate equation (i.e. the equation with parameters for the reverse reaction as well as the forward reaction) is determined, there are one or more Haldane relations between some of the kinetic parameters and the apparent equilibrium constant for the reaction that is catalyzed. When the apparent equilibrium constant can be calculated from the kinetic parameters, the equilibrium composition can be calculated. This is remarkable because the kinetic parameters all depend on the properties of the enzymatic site, but the apparent equilibrium constant and the equilibrium composition do not. The effects of ionic strength and pH on the unoccupied enzymatic site and the occupied enzymatic site have to cancel in the Haldane relation or in the calculation of the apparent equilibrium constant using the rate constants for the steps in the mechanism. Several simple enzymatic mechanisms and their complete rate equations are discussed.

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Year:  2006        PMID: 16766115     DOI: 10.1016/j.bpc.2006.05.024

Source DB:  PubMed          Journal:  Biophys Chem        ISSN: 0301-4622            Impact factor:   2.352


  7 in total

1.  Thermodynamic calculations for biochemical transport and reaction processes in metabolic networks.

Authors:  Stefan J Jol; Anne Kümmel; Vassily Hatzimanikatis; Daniel A Beard; Matthias Heinemann
Journal:  Biophys J       Date:  2010-11-17       Impact factor: 4.033

2.  Multiple ion binding equilibria, reaction kinetics, and thermodynamics in dynamic models of biochemical pathways.

Authors:  Kalyan C Vinnakota; Fan Wu; Martin J Kushmerick; Daniel A Beard
Journal:  Methods Enzymol       Date:  2009       Impact factor: 1.600

3.  The Basis for Acyl Specificity in the Tafazzin Reaction.

Authors:  Michael Schlame; Yang Xu; Mindong Ren
Journal:  J Biol Chem       Date:  2017-02-15       Impact factor: 5.157

Review 4.  The Function of Tafazzin, a Mitochondrial Phospholipid-Lysophospholipid Acyltransferase.

Authors:  Michael Schlame; Yang Xu
Journal:  J Mol Biol       Date:  2020-03-29       Impact factor: 5.469

5.  A general framework for thermodynamically consistent parameterization and efficient sampling of enzymatic reactions.

Authors:  Pedro Saa; Lars K Nielsen
Journal:  PLoS Comput Biol       Date:  2015-04-14       Impact factor: 4.475

6.  Detailed enzyme kinetics in terms of biochemical species: study of citrate synthase.

Authors:  Daniel A Beard; Kalyan C Vinnakota; Fan Wu
Journal:  PLoS One       Date:  2008-03-19       Impact factor: 3.240

7.  Integrative modelling of pH-dependent enzyme activity and transcriptomic regulation of the acetone-butanol-ethanol fermentation of Clostridium acetobutylicum in continuous culture.

Authors:  Thomas Millat; Holger Janssen; Hubert Bahl; Ralf-Jörg Fischer; Olaf Wolkenhauer
Journal:  Microb Biotechnol       Date:  2013-01-21       Impact factor: 5.813

  7 in total

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