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Unraveling Entropic Rate Acceleration Induced by Solvent Dynamics in Membrane Enzymes
Published on: January 16, 2016
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Enzyme efficiency: An open reaction system perspective.
Kinshuk Banerjee1, Kamal Bhattacharyya2
1Department of Chemistry, University of Calcutta, Rajabazar Science College Campus, Kolkata 700 009, India.
The Journal of Chemical Physics
|December 24, 2015
Summary
A new enzyme efficiency measure is proposed for open and closed reaction networks. Stochastic modeling reveals noise impacts efficiency, unlike deterministic models that overestimate it, especially in small systems.
Area of Science:
- Biochemistry
- Chemical Kinetics
- Systems Biology
Background:
- Classical enzyme kinetics often uses cycle-based descriptions.
- Understanding enzyme efficiency in complex reaction networks is crucial.
- Biological systems exhibit inherent noise affecting molecular processes.
Purpose of the Study:
- To propose a novel measure for enzyme efficiency in open reaction networks.
- To extend the efficiency measure to closed systems.
- To analyze the impact of stochasticity and system size on enzyme efficiency.
Main Methods:
- Derivation of analytical expressions for enzyme efficiency.
- Deterministic and stochastic modeling of reaction networks.
- Numerical verification and exploration of kinetic parameters and system sizes.
Main Results:
- A new enzyme efficiency measure applicable to open and closed systems was derived.
- Stochastic modeling revealed noise's impact on efficiency, contrasting with deterministic overestimation.
- Efficiency overestimation by deterministic models increases with smaller system sizes.
Conclusions:
- The proposed efficiency measure provides a more accurate representation, especially under noisy conditions.
- System size and kinetic parameters significantly influence enzyme efficiency.
- Substrate fluctuation introduces an efficiency-accuracy trade-off in biological systems.
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