Rules, hypergraphs, and probabilities: The three-level analysis of chemical reaction systems and other stochastic stoichiometric population processes
Table 5
Currents v and potential drops Δμ on the edges in TKL trefoils for the masks of f14, f535, and f535 ∪ f193. f535 adds one (234) TKL trefoil to f14 by adding edge e98, and f193 adds a second (235) TKL trefoil by adding edges e23 and e97.
The final columns, f535 ∪ f193, provide the labeling for the transduction in Fig 14 in either potential. (eQNS) labels the thermochemical background for group contribution from non-stereochemical SMILES, and (eQS) labels the background with stereochemistry, approximating KEGG data values. The relation v22 − v98 = 1 = v6 in all cases is the topologically constrained AlKe velocity E4P ⇀ Eu4P. Chemical-potential cycles must cancel around trefoils; thus Δμ23 + Δμ97 − Δμ96 = 0 and Δμ22 + Δμ98 − Δμ96 = 0.