Isopiperitenol Reductase (IPR)
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Contents
What we know
Issues
Strategies
Reaction catalysed
Metabolite Background Information
Long metabolite names are abbreviated in the model for clarity and standard identification purposes.
Metabolite | Abbreviation | Chemical Formula | Molar mass (g/mol) | ChEBI | ChEMBL | PubChem |
---|---|---|---|---|---|---|
geranyl diphosphate | GPP | C10H20O7P2 | 314.209 | 17211 | 41432 | 445995 |
(-)-4S-limonene | Limonene | C10H16 | 136.24 | 15384 | 449062 | 22311 or 439250 |
diphosphate | PP | O7P2 | 173.94 | 644102 |
Equation Rate
Parameter | Description | Reference |
---|---|---|
VLimSynth | Reaction rate for Limonene Synthase | ref |
Vmaxforward | Maximum reaction rate towards the production of limonene | ref |
KmGPP | Michaelis-Menten constant for GPP | ref |
KmLimonene | Michaelis-Menten constant for Limonene | ref |
KmPP | Michaelis-Menten constant for PP | ref |
Keq | Equilibrium constant | ref |
[GPP] | GPP concentration | ref |
[Limonene] | Limonene concentration | ref |
[PP] | PP concentration | ref |
Strategies for estimating the kinetic parameter values
Calculating the Equilibrium Constant
The equilibrium constant can be calculated using the Van't Hoff Isotherm equation:
where;
Keq | Equilibrium constant |
-?G° | Gibbs free energy change. For (INSERT ENZYME) it is (INSERT VALUE) kJmol-1 |
R | Gas constant with a value of 8.31 JK-1mol-1 |
T | Temperature which is always expressed in kelvin |
Standard Gibbs Free energy
Standard Gibbs Free energy for (INSERT ENZYME) from MetaCyc (EC 4.2.3.16) is (INSERT VALUE) kcal/mol [1].
SI derived unit for Gibbs free energy is Joules per mol (J mol-1). 1 kJ·mol-1 is equal to 0.239 kcal·mol-1.
Therefore, the Gibbs free energy for (INSERT ENZYME) in kJ mol-1 is:
Published Kinetic Parameter Values
Km Values
Km (mM) | Unit | Substrate / Product | Directionality | Organism | References |
---|---|---|---|---|---|
Value | unit | substrate | directionality | organism | Ref |
Vmax values
Vmax | Unit | Directionality | Organism | References |
---|---|---|---|---|
Value | µmol/min/mg (unit) | directionality | Organism | References |
Kcat values
Kcat | Unit | Organism | Reference |
---|---|---|---|
value | s-1 | Organism | ref e.g. Alonso 1992 [2] |
Extracting Information from (INSERT SUBSTRATE/PRODUCT) Production Rates
Amount produced (mg/L) | Time (H) | Organism | Description | Reaction Flux (µM/s) |
---|---|---|---|---|
X | X | Y | Z | Z |
X | X | Y | Z | Z |
X | X | Y | Z | Z |
X | X | Y | Z | Z |
X | X | Y | Z | Z |
X | X | Y | Z | Z |
Detailed description of kinetic values obtained from the literature
A more detailed description of the values listed above can be found here.
Simulations
References
- ↑ Latendresse M. (2013). "Computing Gibbs Free Energy of Compounds and Reactions in MetaCyc."
- ↑ Alonso et. al. 1992. "Purification of 4S-Limonene Synthase, a Monoterpene Cyclase from the Glandular Trichomes of Peppermint (Mentha x piperita) and Spearmint (Mentha spicata)", The Journal of Biological Chemistry, 267(11):7582-7587