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Question

The Michaelis-Menten equations describe a biochemical reaction in which an enzyme E and substrate S bind to form a complex C. This complex can then either dissociate back into its original components or undergo a reaction in which a product PP is produced along with the free enzyme: E+SCE+P\mathrm{E}+\mathrm{S} \leftrightarrow \mathrm{C} \rightarrow \mathrm{E}+\mathrm{P}This can be expressed by the differential equations

dxdt=kfxyM+kr(1y)Mdydt=kfxyM+kr(1y)M+kcat(1y)Mdzdt=kcat(1y)M\begin{aligned} &\frac{d x}{d t}=-k_{f} x y M+k_{r}(1-y) M\\ &\frac{d y}{d t}=-k_{f} x y M+k_{r}(1-y) M+k_{\mathrm{cat}}(1-y) M\\ &\frac{d z}{d t}=k_{\mathrm{cat}}(1-y) M \end{aligned}

Where MM is the total number of enzymes (both free and bound), xx and zz are the numbers of the substrate and product molecules, yy is the fraction of the enzyme pool that is free, and the kisk_i's are positive constants. Calculate the Jacobian matrix.

Solution

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The goal is to find the Jacobian matrix.

The Jacobian matrix of the differential system of equations has the form:

J(x,y)=[f1(x,y)xf1(x,y)yf2(x,y)xf2(x,y)y]\begin{align} J\left(x, y\right)&=\begin{bmatrix} \frac{\partial f_{1}\left(x, y\right)}{\partial x}& \frac{\partial f_{1}\left(x, y\right)}{\partial y}\\ \frac{\partial f_{2}\left(x, y\right)}{\partial x}& \frac{\partial f_{2}\left(x, y\right)}{\partial y} \end{bmatrix} \end{align}

To find the Jacobian matrix, compute the partial derivatives of the following functions:

f1(x,y)=kfxyM+kr(1y)Mf2(x,y)=kfxyM+kr(1y)M+kcat(1y)M\begin{aligned} f_{1}\left(x, y\right)&=-k_{f}xyM+k_{r}(1-y)M\\ f_{2}\left(x, y\right)&=-k_{f}xyM+k_{r}(1-y)M+k_{cat}(1-y)M \end{aligned}

with respect to xx and yy. We can then substitute those into Eq. (1)(1) to obtain the Jacobian matrix.

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