kouril3_experiment

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Model Manuscripts

Intermediate instability at high temperature leads to low pathway efficiency for an in vitro reconstituted system of gluconeogenesis in Sulfolobus solfataricus.

  • Theresa Kouril
  • Dominik Esser
  • Julia Kort
  • Hans V Westerhoff
  • Bettina Siebers
  • Jacky L Snoep
FEBS J. 2013; 280 (18): 4666-4680
Abstract
Four enzymes of the gluconeogenic pathway in Sulfolobus solfataricus were purified and kinetically characterized. The enzymes were reconstituted in vitro to quantify the contribution of temperature instability of the pathway intermediates to carbon loss from the system. The reconstituted system, consisting of phosphoglycerate kinase, glyceraldehyde 3-phosphate dehydrogenase, triose phosphate isomerase and the fructose 1,6-bisphosphate aldolase/phosphatase, maintained a constant consumption rate of 3-phosphoglycerate and production of fructose 6-phosphate over a 1-h period. Cofactors ATP and NADPH were regenerated via pyruvate kinase and glucose dehydrogenase. A mathematical model was constructed on the basis of the kinetics of the purified enzymes and the measured half-life times of the pathway intermediates. The model quantitatively predicted the system fluxes and metabolite concentrations. Relative enzyme concentrations were chosen such that half the carbon in the system was lost due to degradation of the thermolabile intermediates dihydroxyacetone phosphate, glyceraldehyde 3-phosphate and 1,3-bisphosphoglycerate, indicating that intermediate instability at high temperature can significantly affect pathway efficiency.
Id Name JWS model
model0_kouril3 kouril3 kouril3
Id Name Source Number of Data Sources
seek_data_Kouril seek_data_Kouril https://seek.sysmo-db.org/data_files/1092/download?version=3 6
Id Name Model Simulation Simulation Simulation
task0_model0_kouril3 kouril3 0.0 200.0 1000

2D Plots

Id Name Number of Curves
plot0 plot0 6
plot1 plot1 4

CSV Reports

Id Name Number of Columns