Biology – Quantitative Biology – Molecular Networks
Scientific paper
2007-09-11
Journal of Biological Systems, Vol. 15, No. 4 (2007) 495-514
Biology
Quantitative Biology
Molecular Networks
Accepted by Journal of Biological Systems (8 Sep 2007)
Scientific paper
10.1142/S0218339007002295
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.
Ao Ping
Lee Lik Wee
Yin Luiguo
Zhu Xi-Ming
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