Model gluconeogenesis

SysMO is a European transnational funding and research initiative on "Systems Biology of Microorganisms".

The goal pursued by SysMO is to record and describe the dynamic molecular processes going on in unicellular microorganisms in a comprehensive way and to present these processes in the form of computerized mathematical models.

Systems biology will raise biomedical and biotechnological research to a new quality level and contribute markedly to progress in understanding. Pooling European research ...

Silicon cell model for the central carbohydrate metabolism of the archaeon Sulfolobus solfataricus under temperature variation

An investigation in the CCM of S. solfataricus with a focus on the unique temperature adaptations and regulation; using a combined modelling and experimental approach.

Kinetic characterisation of Phosphoglycerokinase

Kinetic characterization of the FBPA/ase with respect to GAP en DHAP saturation.

GAP and DHAP concentrations were measured over time at 70C.

Saturation of PGK with 3PG

Kinetic characterisation of Phosphoglycerokinase. Measures enzyme reaction rate with increasing concentration of ATP

An exponential decay model was fitted to the experimental data set of GAP degradation at 70C. The model is uploaded as an SBML file. A data file showing the model fit to the experimental data set is included. The rate constant for GAP degradation at 70C was estimated to be 0.056 1/min, equivalent to a half life time of 12.4 min.

An exponential decay model was fitted to the experimental data set of DHAP degradation at 70C. The model is uploaded as an SBML file. A data file showing the model fit to the experimental data set is included. The rate constant for DHAP degradation at 70C was estimated to be 0.0225 1/min, equivalent to a half life time of 30.8 min.

Mathematical model for FBPAase kinetics

Mathematical model for GAPDH kinetics, saturation for GAP, BPG, NADP, NADPH, Pi.

Mathematical model for TIM kinetics, GAP and DHAP saturation and PEP inhibition.

Cloning and heterologous expression of gluconeogenic enzymes in E. coli

Preparation of cell free extracts of the recombinant E. coli strains expressing the respective S. solfataricus enzymes.

The recombinant enzymes were purified from the cell free extracts of E. coli expressing the respective enzymes.