Team:TUDelft/Color modeling

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Color Modeling

In the output we use mevalonate and GPP pathways together to produce red, orange and yellow colors. The biosynthetic model is built in CellDesigner™. There are 14 substrates and 13 enzymes in total. The first substrate is Acetyl-CoA which is provided to the pathway in a constant level. The last three substrates are the color products and are consuming so we have degradation links for them. Lycopene, B-carotene and Zeaxanthin give red, orange and yellow colors respectively.

Color Pathway

For the 14 reactions of enzyme-substrate the Michaelis-Menten kinetics is applied and we have the mass action kinetics for the three degradations. According to the kinetic laws there are 14 differential equations for enzyme-subtrate reactions and three for degradations which could be constructed as:

x₁ to x₁₄ are the subtrates.

We used hill type model for enzyme temperature relations where e₁ to e₁₃ are the enzymes.

The next step is to find the coefficients of V and K for the both set of equations. In the subtrate equations we have V_max=K_cat . E₀ where K_cat is the turnover number and E₀ is the enzyme's initial concentration.

... to be continued

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