GENERIC ENZYMATIC RATE EQUATION UNDER LIVING CONDITIONS

DOI10.1142/S0218339007002295MaRDI QIDQ3530557zbMATH OpenOpenAlexFDO

Authors

Publication date 20 October 2008

Published in Journal of Biological Systems (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/0709.1696

zbMATH Keywords

systems biologymetabolic engineering

Mathematics Subject Classification ID

Kinetics in biochemical problems (pharmacokinetics, enzyme kinetics, etc.) (92C45)

Abstract: Based on our experience in kinetic modeling of coupled multiple metabolic pathways we propose a generic rate equation for the dynamical modeling of metabolic kinetics. Its symmetric form makes the kinetic parameters (or functions) easy to relate to values in database and to use in computation. In addition, such form is workable to arbitrary number of substrates and products with different stoichiometry. We explicitly show how to obtain such rate equation exactly for various binding mechanisms. Hence the proposed rate equation is formally rigorous. Various features of such a generic rate equation are discussed. For irreversible reactions, the product inhibition which directly arise from enzymatic reaction is eliminated in a natural way. We also discuss how to include the effects of modifiers and cooperativity.

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Cited in

(1)

• Mathematical formalism of nonequilibrium thermodynamics for nonlinear chemical reaction systems with general rate law

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