Rules, hypergraphs, and probabilities: The three-level analysis of chemical reaction systems and other stochastic stoichiometric population processes
Fig 8
Top panel shows the three reactions in f14 that are not part of the prelude creating F6P from GAP + DHAP and Ru5P from GLP and DHAP.
Middle panel expands the set of species and reactions to correspond to the supporting graph in Fig 7. A TKL trefoil with aldose backbone lengths 2, 3, 4 covers the faces on the left-hand side of the cube, shown with green circulation arrows. A second TKL trefoil with aldose backbone lengths 2, 3, 5 covers the faces on the right-hand side of the cube, shown with red circulation arrows. The two trefoils are non-stoichiometrically coupled through any potential drop that arises on e96. Arrows are shown in the directions that make trefoils null. The sense of edges in the MØD listing, relative to the drawn arrows, is indicated with ± signs. All currents and potentials will be similarly signed relative to drawn arrow directions. Bottom panel shows the AlKe null cycle of Fig 6 overlaid on the 235 TKL trefoil, with which it shares edge 97. The pair of dark-gold circulations shows the stoichiometrically coupled reaction directions.