Optimal enzyme utilization suggests that concentrations and thermodynamics determine binding mechanisms and enzyme saturations.

ABSTRACT: Deciphering the metabolic functions of organisms requires understanding the dynamic responses of living cells upon genetic and environmental perturbations, which in turn can be inferred from enzymatic activity. In this work, we investigate the optimal modes of operation for enzymes in terms of the evolutionary pressure driving them toward increased catalytic efficiency. We develop a framework using a mixed-integer formulation to assess the distribution of thermodynamic forces and enzyme states, providing detailed insights into the enzymatic mode of operation. We use this framework to explore Michaelis-Menten and random-ordered multi-substrate mechanisms. We show that optimal enzyme utilization is achieved by unique or alternative operating modes dependent on reactant concentrations. We fin

SUBMITTER: Sahin A 

PROVIDER: S-EPMC10162984 | biostudies-literature | 2023 May

REPOSITORIES: biostudies-literature