Team:Rice/Model/MetabolismMinimal

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Metabolism

Overview

Cellular energy is generated via two co-expressed enzymes: a transporter and a metabolic enzyme. We assume that the cells grow in a chemostat with a constant concentration of nutrients. The cells import the nutrients and then convert them to cellular energy.

Details

To convert nutrients into energy, first the cell must import the nutrients from the outside source (s_e) to the inside (s_i). The transporter protein (p_T) accomplishes this via Michaelis-Menten kinetics, with a maximum speed of v_T and a import threshold of k_T. Conversion to cellular energy is accomplished in a similar manner with the metabolic enzyme (p_E) and with constants v_E and k_E. However, conversion is not perfect, and the efficiency of the conversion is given by the factor φ_E. Energy is used during translation at a rate of γ Σc_i, where the sum runs over all translation complexes (the c_i). In addition, the cell slowly grows at a rate of λ = γ (Σc_i)/M_p, where M_p is the total mass (in amino acids) of the proteome. As a result, all species are diluted with a rate constant of λ.

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