Lloyd Catherine May c.lloyd@auckland.ac.nz The University of Auckland The Bioengineering Institute 2002-06-07 Added more metadata. Lloyd Catherine May 2002-07-22 The University of Auckland, Bioengineering Institute A Generic Model Of Purine Nucleotide Degradation Below is a CellML description of a general model of purine nucleotide degradation. It is not based on a specific published mathematical model, but instead it is based on a textbook defined pathway. The general sequential structure and all the reactant, product and enzyme components are included. Michaelis-Menten enzyme kinetics are assumed. The purpose of this description is to illustrate how CellML can be used to model a general metabolic pathway. Catherine Lloyd Homo sapiens keyword metabolism Bronk J Ramsey Human Metabolism 1999 Addison Wesley Longman Limited location England $\frac{d \mathrm{AMP}}{d \mathrm{time}}=\mathrm{delta\_AMP\_rxn0}$ $\frac{d \mathrm{H2O}}{d \mathrm{time}}=\mathrm{delta\_H2O\_rxn10}+\mathrm{delta\_H2O\_rxn0}+\mathrm{delta\_H2O\_rxn1}+\mathrm{delta\_H2O\_rxn3}+\mathrm{delta\_H2O\_rxn4}+\mathrm{delta\_H2O\_rxn6}+\mathrm{delta\_H2O\_rxn7}$ $\frac{d H}{d \mathrm{time}}=\mathrm{delta\_H\_rxn3}+\mathrm{delta\_H\_rxn7}+\mathrm{delta\_H\_rxn0}+\mathrm{delta\_H\_rxn4}+\mathrm{delta\_H\_rxn9}$ $\frac{d \mathrm{NH4}}{d \mathrm{time}}=\mathrm{delta\_NH4\_rxn0}+\mathrm{delta\_NH4\_rxn4}$ $\frac{d \mathrm{Inosine\_5\_phosphate}}{d \mathrm{time}}=\mathrm{delta\_Inosine\_5\_phosphate\_rxn0}+\mathrm{delta\_Inosine\_5\_phosphate\_rxn1}$ $\frac{d \mathrm{Pi}}{d \mathrm{time}}=\mathrm{delta\_Pi\_rxn1}+\mathrm{delta\_Pi\_rxn6}+\mathrm{delta\_Pi\_rxn2}+\mathrm{delta\_Pi\_rxn5}+\mathrm{delta\_Pi\_rxn11}$ $\frac{d \mathrm{Inosine}}{d \mathrm{time}}=\mathrm{delta\_Inosine\_rxn1}+\mathrm{delta\_Inosine\_rxn2}+\mathrm{delta\_Inosine\_rxn11}$ $\frac{d \mathrm{Ribose\_1\_phosphate}}{d \mathrm{time}}=\mathrm{delta\_Ribose\_1\_phosphate\_rxn2}+\mathrm{delta\_Ribose\_1\_phosphate\_rxn5}+\mathrm{delta\_Ribose\_1\_phosphate\_rxn11}$ $\frac{d \mathrm{Hypoxanthine}}{d \mathrm{time}}=\mathrm{delta\_Hypoxanthine\_rxn2}+\mathrm{delta\_Hypoxanthine\_rxn11}$ $\frac{d \mathrm{Xanthine}}{d \mathrm{time}}=\mathrm{delta\_Xanthine\_rxn3}+\mathrm{delta\_Xanthine\_rxn4}+\mathrm{delta\_Xanthine\_rxn7}$ $\frac{d \mathrm{O2}}{d \mathrm{time}}=\mathrm{delta\_O2\_rxn9}+\mathrm{delta\_O2\_rxn10}+\mathrm{delta\_O2\_rxn3}+\mathrm{delta\_O2\_rxn7}$ $\frac{d \mathrm{O2\_free\_radical}}{d \mathrm{time}}=\mathrm{delta\_O2\_free\_radical\_rxn3}+\mathrm{delta\_O2\_free\_radical\_rxn7}+\mathrm{delta\_O2\_free\_radical\_rxn8}+\mathrm{delta\_O2\_free\_radical\_rxn9}$ $\frac{d \mathrm{Guanine}}{d \mathrm{time}}=\mathrm{delta\_Guanine\_rxn5}+\mathrm{delta\_Guanine\_rxn4}$ $\frac{d \mathrm{Guanosine}}{d \mathrm{time}}=\mathrm{delta\_Guanosine\_rxn6}+\mathrm{delta\_Guanosine\_rxn5}$ $\frac{d \mathrm{GMP}}{d \mathrm{time}}=\mathrm{delta\_GMP\_rxn6}$ $\frac{d \mathrm{Urate}}{d \mathrm{time}}=\mathrm{delta\_Urate\_rxn7}+\mathrm{delta\_Urate\_rxn8}$ $\frac{d \mathrm{CO2}}{d \mathrm{time}}=\mathrm{delta\_CO2\_rxn8}$ $\frac{d \mathrm{Allantoin}}{d \mathrm{time}}=\mathrm{delta\_Allantoin\_rxn8}$ $\frac{d \mathrm{H2O2}}{d \mathrm{time}}=\mathrm{delta\_H2O2\_rxn9}+\mathrm{delta\_H2O2\_rxn10}$ $\mathrm{rate}=\frac{\mathrm{vmax0}\mathrm{H2O}\mathrm{AMP}H}{\mathrm{km0}+\mathrm{H2O}+\mathrm{AMP}+H}$ $\mathrm{rate}=\frac{\mathrm{vmax1}\mathrm{Inosine\_5\_phosphate}\mathrm{H2O}}{\mathrm{km1}+\mathrm{Inosine\_5\_phosphate}+\mathrm{H2O}}$ $\mathrm{rate}=\frac{\mathrm{Inosine}\mathrm{Pi}\mathrm{vmax2}}{\mathrm{km2}+\mathrm{Inosine}+\mathrm{Pi}}$ $\mathrm{rate}=\frac{\mathrm{O2}\mathrm{Hypoxanthine}\mathrm{H2O}\mathrm{vmax3}}{\mathrm{km3}+\mathrm{O2}+\mathrm{Hypoxanthine}+\mathrm{H2O}}$ $\mathrm{rate}=\frac{\mathrm{H2O}H\mathrm{Guanine}\mathrm{vmax4}}{\mathrm{km4}+\mathrm{H2O}+H+\mathrm{Guanine}}$ $\mathrm{rate}=\frac{\mathrm{Guanosine}\mathrm{Pi}\mathrm{vmax5}}{\mathrm{km5}+\mathrm{Guanosine}+\mathrm{Pi}}$ $\mathrm{rate}=\frac{\mathrm{GMP}\mathrm{H2O}\mathrm{vmax6}}{\mathrm{km6}+\mathrm{GMP}+\mathrm{H2O}}$ $\mathrm{rate}=\frac{\mathrm{H2O}\mathrm{Xanthine}\mathrm{O2}\mathrm{vmax7}}{\mathrm{km7}+\mathrm{H2O}+\mathrm{Xanthine}+\mathrm{O2}}$ $\mathrm{rate}=\mathrm{k8}\mathrm{O2\_free\_radical}\mathrm{Urate}$ $\mathrm{rate}=\frac{\mathrm{Pi}\mathrm{Inosine}\mathrm{vmax11}}{\mathrm{km11}+\mathrm{Pi}+\mathrm{Inosine}}$