Assays

Model simulation of cortisone or 11KA4 metabolism in human subcutaneous and omental adipose tissue, and the effect of AZD4017 inhibition of HSD11B1.

Excel file with experimental data for HSD11B1 inhibition in human subcutaneous and omental adipose tissue. Effect on 72h point for cortisone, and 11KA4 metabolism and respective products formed in absence or presence of AZD4017 inhibitor.

A mathematica notebook that simulates the combined effect of HSD11B1/AKR1C3 ratio variation and HSD11B1 inhibition.

HSD11B1 was inhibitied by CBX and the effect of the inhibition on cortisone and 11KA4 conversion was simulated. The model was coded in Mathematica and the f=manuscript figures 3 A,B,C,D,E anbd F are presented in the notebook.

HSD11B1 was inhibited by CBX and conversion of cortisone and 11KA4 by HSD11B1 and AKR1C3 was followed over time.

Model simulations for 24h incubations with different ratios of HSD11B1 andd AKR1C3 transfected HEK293 cells are given in Mathematica notebook format.

Excel file with metablite profiles after 24 h incubation with different ratios of 11HSDB1 and AKR1C3.

Inhibition of lactate flux glycolytic inhibitors

Determinations of parasite volumes in a well-synchronised, infected culture treated with a cytosolic stain, using fluorescence microscopy. Diameters used to calculate parasite volume, assuming a spherical parasite cell.

SED-ML: https://jjj.bio.vu.nl/models/experiments/vanniekerk2023_fig4/simulate

Conversion of XYL to KG in a cell free extract of Caulobacter crescentus, without Mn2+ added, but with NAD recycling, metabolites measured enzymatically. https://jjj.bio.vu.nl/models/experiments/shen2020_fig4d/simulate

Conversion of XYL to KG in a cell free extract of Caulobacter crescentus, with 0.15 mM Mn2+ added, but no NAD recycling, metabolites measured enzymatically. https://jjj.bio.vu.nl/models/experiments/shen2020_fig4c/simulate

Conversion of XYL to KG in a cell free extract of Caulobacter crescentus, with 0.15 mM Mn2+ added, and with NAD recycling, metabolites measured enzymatically. https://jjj.bio.vu.nl/models/experiments/shen2020_fig4b/simulate

Conversion of XYL to KG in one pot cascade of Weimberg pathway enzymes of Caulobacter crescentus, using old enzymes with optimal protein distribution, with NAD recycling, measured in NMR. https://jjj.bio.vu.nl/models/experiments/shen2020_fig3d/simulate

Conversion of XYL to KG in one pot cascade of Weimberg pathway enzymes of Caulobacter crescentus, with NAD recycling, measured in NMR. https://jjj.bio.vu.nl/models/experiments/shen2020_fig3b/simulate

Conversion of XYL to KG in one pot cascade of Weimberg pathway enzymes of Caulobacter crescentus, omitting XLA, measured in NMR. https://jjj.bio.vu.nl/models/experiments/shen2020_fig3c/simulate

Conversion of XYL to KG in one pot cascade of Weimberg pathway enzymes of Caulobacter crescentus, measured in NMR. https://jjj.bio.vu.nl/models/experiments/shen2020_fig3a/simulate

Conversion of XYL to KG by sequential addition of Weimberg pathway enzymes of Caulobacter crescentus, measured in NMR. https://jjj.bio.vu.nl/models/experiments/shen2020_fig2c/simulate

Kinetic characterisation and mathematical modelling of XDH.