Simulating feedback and reversibility in substrate-enzyme reactions

D. A J Van Zwieten; J. E. Rooda; Hans Armbruster; J. D. Nagy

doi:10.1140/epjb/e2011-10911-x

Simulating feedback and reversibility in substrate-enzyme reactions

D. A J Van Zwieten, J. E. Rooda, Hans Armbruster, J. D. Nagy

Research output: Contribution to journal › Article › peer-review

2 Scopus citations

Abstract

We extend discrete event models (DEM) of substrate-enzyme reactions to include regulatory feedback and reversible reactions. Steady state as well as transient systems are modeled and validated against ordinary differential equation (ODE) models. The approach is exemplified in a model of the first steps of glycolysis with the most common regulatory mechanisms. We find that in glycolysis, feedback and reversibility together act as a significant damper on the stochastic variations of the intermediate products as well as for the stochastic variation of the transit times. This suggests that these feedbacks have evolved to control both the overall rate of, as well as stochastic fluctuations in, glycolysis.

Original language	English (US)
Pages (from-to)	673-684
Number of pages	12
Journal	European Physical Journal B
Volume	84
Issue number	4
DOIs	https://doi.org/10.1140/epjb/e2011-10911-x
State	Published - Dec 2011

ASJC Scopus subject areas

Electronic, Optical and Magnetic Materials
Condensed Matter Physics

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AU - Armbruster, Hans

AU - Nagy, J. D.

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AB - We extend discrete event models (DEM) of substrate-enzyme reactions to include regulatory feedback and reversible reactions. Steady state as well as transient systems are modeled and validated against ordinary differential equation (ODE) models. The approach is exemplified in a model of the first steps of glycolysis with the most common regulatory mechanisms. We find that in glycolysis, feedback and reversibility together act as a significant damper on the stochastic variations of the intermediate products as well as for the stochastic variation of the transit times. This suggests that these feedbacks have evolved to control both the overall rate of, as well as stochastic fluctuations in, glycolysis.

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Simulating feedback and reversibility in substrate-enzyme reactions

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