The importance of being cigar-shaped
In [1, 6, 7] we studied whether metabolic pathways with membrane-bound enzymes can give rise to significant concentration gradients in the cytosolic pathway components. We investigated this issue using a theoretical model for the phosphoenolpyruvate:glucose phosphotransferase system in E. coli, for which accurate measurements of the kinetic parameters are available. In this study we modeled an E. coli by a sphere. In reality E. coli is rod-like or rather cigar-shaped. In this paper we discuss the implementational aspects and the potential implications of a more realistic geometry.
|Partial Differential Equations (acm G.1.8), Difference formulas (acm G.1.1.0), MATHEMATICAL SOFTWARE (acm G.4), LIFE AND MEDICAL SCIENCES (acm J.3)|
|Models, numerical methods (msc 65C20), Method of lines (msc 65M20), Finite volume methods (msc 76M12), Explicit machine computation and programs (not the theory of computation or programming) (msc 92-04), Biochemistry, molecular biology (msc 92C40)|
|Modelling, Analysis and Simulation [MAS]|
Blom, J.G, & Peletier, M.A. (2002). The importance of being cigar-shaped. Modelling, Analysis and Simulation [MAS]. CWI.