Enzymatic catalysis modelling, with allosteric enzymes

Authored by J. S. Aranda, E. Salgado

Date Published: 2008-04

Sponsors: National Council for Science and Technology, Mexico

Platforms: MATLAB

Model Documentation: Other Narrative Mathematical description

Model Code URLs: Model code not found

Abstract

Allosteric enzymes control reaction rates in biochemical reactions. The catalytic activity of allosteric enzymes depends on the concentration of a certain regulating compound. A simgoidal saturation curve is a characteristic of the enzymes that exert allosteric control of reaction rates. These enzymes are rather large enzymatic complexes usually composed of at least one catalytic subunit and a regulatory fraction, and the complex catalytic activity is given by the cooperative interactions between those enzymatic subunits. Realistic simulation of biocatalytic allosteric phenomena requires an appropiate modelling of the enzyme kinetic behavior. Modelling enzymes with cooperative kinetics can be achieved by defining interacting agents. Agent-based modelling allows an accurate representation of sigmoidal saturation curves, without the kinetic parameters that are needed in other kinetic models. Experimental data from Escherichia coli aspartate transcarbamylase are compared to theoretical results from different models for allosteric systems. Results from agent-based modelling show a good agreement with experimental saturation curves.

Tags

Agent-based modelling allosteric enzymes enzymatic reactions enzyme kinetics