Fumarase_BISEN
Modeling the Fumarase reaction. Translated from BISEN generated model.
Model number: 0412
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Description
Fumarase (EC 4.2.1.2) Fumarate + H2O <-> Malate The mitocondrial form of Fumarase that is the seventh enzyme in the TCA cycle and an iso-enzyme in amino-acid metabolism. Model generated from The Biochemical Simulation Environment (BISEN).
Figure 1: Progress curves of the substrates. Circles are output from Matlab version.
Figure 2: pH time course. Circles are output from Matlab version.
Equations
The equations for this model may be viewed by running the JSim model applet and clicking on the Source tab at the bottom left of JSim's Run Time graphical user interface. The equations are written in JSim's Mathematical Modeling Language (MML). See the Introduction to MML and the MML Reference Manual. Additional documentation for MML can be found by using the search option at the Physiome home page.
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References
- J. Vanlier, F. Wu, F. Qi, K. C. Vinnakota, Y. Han, R. K. Dash, F. Yang, D. A. Beard; BISEN: Biochemical Simulation Environment, Bioinformatics, Volume 25, Issue 6, 15 March 2009, Pages 836–837, https://doi.org/10.1093/bioinformatics/btp069
- BISEN software
Related Models
- Wu et al. 2007 model.
- ATPase BISEN model.
- ANT BISEN model.
- Myokinase BISEN model.
- Aspartate Aminotransferase BISEN model.
- Malate Dehydrogenase BISEN model.
- Fumarase BISEN model.
- Succinate Dehydrogenase BISEN model.
- Succinyl-CoA Synthetase BISEN model.
- Alpha-Ketogluterate Dehydrogenase BISEN model.
- Isocitrate Dehydrogenase BISEN model.
- Aconitase BISEN model.
- Citrate Synthase BISEN model.
- Pyruvate Dehydrogenase BISEN model.
Key Terms
Fumarase (EC 4.2.1.2), TCA, enzyme, BISEN, Cardiac grid, proton, inorganic phosphate, hydrolysis, magnesium, potassium, Gibbs free energy, thermodynamics, Matlab, Malate
Model History
Get Model history in CVS.Posted by: BEJ
Acknowledgements
Please cite www.physiome.org in any publication for which this software is used and send an email
with the citation and, if possible, a PDF file of the paper to: staff@physiome.org.
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The National Simulation Resource, Director J. B. Bassingthwaighte, Department of Bioengineering, University of Washington, Seattle WA 98195-5061.
[This page was last modified 29Jan20, 1:02 pm.]
Model development and archiving support at physiome.org provided by the following grants: NIH U01HL122199 Analyzing the Cardiac Power Grid, 09/15/2015 - 05/31/2020, NIH/NIBIB BE08407 Software Integration, JSim and SBW 6/1/09-5/31/13; NIH/NHLBI T15 HL88516-01 Modeling for Heart, Lung and Blood: From Cell to Organ, 4/1/07-3/31/11; NSF BES-0506477 Adaptive Multi-Scale Model Simulation, 8/15/05-7/31/08; NIH/NHLBI R01 HL073598 Core 3: 3D Imaging and Computer Modeling of the Respiratory Tract, 9/1/04-8/31/09; as well as prior support from NIH/NCRR P41 RR01243 Simulation Resource in Circulatory Mass Transport and Exchange, 12/1/1980-11/30/01 and NIH/NIBIB R01 EB001973 JSim: A Simulation Analysis Platform, 3/1/02-2/28/07.
