153 5 Establishing a peroxisomal β-oxidation computational kinetic model to understand the effects of amino-acid restriction SUPPLEMENTARY FILES Supplementary text 1 Ordinary differential equations The peroxisomal β-oxidation model here presented consists of a set of ordinary differential equations (ODEs) that describe the change of the metabolites in the pathway as a function of time. The model is composed of 24 ODEs. To compute the steady state these are set equal to zero. Most of the enzymes in the model catalyze accept CoA esters of multiple chainlengths as a substrate, with the exception of catalase. The ODE describing the time dependence of a metabolite concentration balances all the rates of the reactions that produce the metabolite minus the rates of the reactions that consume it. Metabolite concentrations are in µM, time in min, and rates in µmol/min/mg peroxisomal protein. To relate concentrations in µM to rates in µmol/min/mg peroxisomal protein, in the ODEs a correction is made for the volume of the peroxisome. Both CROT and CRAT are described in the direction of the acyl-CoA formation from acyl-carnitines, and all other reactions in the direction of fatty-acid breakdown. The ODEs are defined as follows:
RkJQdWJsaXNoZXIy MTk4NDMw