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Team:Imperial College London/Drylab/Enzyme/Analysis/Detailed
From 2009.igem.org
The behaviour of the system can be described with ODEs. The first 4 equations describe the single-substrate mechanism for an enzyme reaction without Michaelis-Menten assumptions, while equation 5 describes modification with the Michaelis-Menten assumption.
The Enzyme Mechanism
k1, k2 ,k3 are the kinetic rate constants for each step.
In substrate binding, 1 molecule of Enzyme (E) binds with 1 molecule of Substrate (S) in a reversible reaction to form the Enzyme-Substrate complex (ES). We are unable to measure this step.
In catalysis, the Enzyme-Substrate complex (ES) produces the unchanged enzyme (E) and the product (P) in an irreversible reaction. This step can be measured.
When [S] becomes high enough, the second step of the enzyme kinetics becomes the rate determining step, controlled by k3.
This enzyme mechanism scheme can be described by the following differential equations describing rate of change of each component. Each component is described by a simple rate term for either its production or its decomposition.
Equation 1: Rate of change of Enzyme
Equation 2: Rate of change of substrate
Without MM assumption
Equation 3: Rate of change of enzyme-substrate complex
Equation 4: Rate of change of product
With Michaelis-Menten Assumptions
Consider the enzyme mechanism again:
From the model, we want to derive an equation that describes the rate of enzyme activity (amount of product formed per time interval) as a function of substrate concentration.
Consider equation 4: the rate of product formation, .
This equation is essentially useless as we cannot measure [ES] experimentally, therefore, to correctly determine , we need to solve for ES in terms of the other quantities. Therefore, we need to make some approximations as mentioned previously. (hyperlink to assumptions part) At steady state, equation 3 is reduced to:
When this result is used together with equation 4, a new differential equation for rate of change of product is obtained:
Equation 5: New rate of change of product
