Central Carbon Metabolism of Sulfolobus solfataricus

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The goal pursued by SysMO was 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.

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

Carbon loss due to instability of gluconeogenic pathway intermediates (BPG, GAP, DHAP) at high temperature in S. solfataricus

Mathematical model of a subset of reactions comprising the three most temperature sensitive intermediates of the gluconeogenic pathway in S. solfataricus

Kinetic characterisation of phosphoglycerate kinase

Mathematical model for PGK kinetics, saturation with ADP, ATP, 3PG and BPG.

Kinetic characterisation of glyceraldehyde 3-phosphate dehydrogenase

In vitro reconstitution of the PGK, GAPHD, TPI and FBPAase enzymes from S. solfataricus

Model prediction of the conversion of 3PG to fructose-6-phosphate and the gluconeogenic pathway intermediates. https://jjj.bio.vu.nl/models/experiments/kouril3_experiment-user/simulate

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

Kinetic characterisation of triose phosphate isomerase

Mathematical model for TPI kinetics, saturation with GAP and DHAP, and inhibition by 3PG and PEP

Kinetic characterisation of fructose 1,6-bisphosphate aldolase phosphatase

Mathematical model for FBPAase kinetics, saturation with DHAP and GAP

Temperature degradation of BPG, GAP and DHAP

Modelling the degradation of BPG, GAP and DHAP at high temperature

Experimental data for the conversion of 3PG to F6P and the gluconeogenic pathway intermediates

Experimental data for 3PG conversion to fructose-6-phosphase in reconstituted systems of gluconeogenesis of S. solfataricus

Simulation results of TPI experimental data for GAP and DHAP saturation.

Simulation results of temperature degradation of gluconeogenic intermediates

Simulation results of experimental data of the reconstituted gluconeogenic system

Simulation results of PGK experimental data for ADP, ATP, 3PG and BPG saturation.

Simulation results of FBPAase of experimental data for DHAP and GAP saturation

Simulation results of GAPDH experimental data for BPG, NADPH, NADP, GAP, and Pi

Kinetic characterisation of FBPAase. Expermental data for enzyme reaction rates with increasing concentrations of DHAP and GAP.

Kinetic characterisation of TPI. Experimental data for enzyme reaction rates with increasing concentrations of DHAP and GAP, and inhibition with 3PG and PEP.

Kinetic characterisation of GAPDH. Expermental data for enzyme reaction rates with increasing concentrations of BPG, NADPH, NADP, GAP and Pi.

Experimental data for determination of half-life of gluconeogenic intermediates (BPG, GAP and DHAP).

Kinetic characterisation of PGK. Expermental data for enzyme reaction rates with increasing concentrations of ATP, ADP, BPG and 3PG.

Model of reconstituted gluconeogenesis system in S. solfataricus based on the individual kinetic models for PGK, GAPDH, TPI, FBPAase.

Exponential decay model of gluconeogenic intermediates

Mathematical model for TPI kinetics, GAP and DHAP saturation, and inhibition with 3PG and PEP.

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

Mathematical model for FBPAase kinetics, saturation with DHAP and GAP

Mathematical model for PGK kinetics, ADP, ATP, 3PG and BPG saturation.

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

Cloning and heterologous expression of gluconeogenic enzymes from S. solfataricus in E. coli

Purification of gluconeogenic enzymes from S. solfataricus in recombinant E.coli extracts