twoLayerCascadeJ -- an example chemical reaction motif

Description

A combination of two one-site modification cycles in a cascade motif with a specific phosphotase acting in each layer [Feliu, Wiuf].

 i1 : twoLayerCascadeJ() o1 = S_0+E-->X_1 X_1-->S_0+E X_1-->E+S_1 S_1+F_1-->Y_1 Y_1-->S_1+F_1 Y_1-->S_0+F_1 S_1+P_0-->X_2 X_2-->S_1+P_0 X_2-->S_1+P_1 P_1+F_2-->Y_2 Y_2-->P_1+F_2 Y_2-->P_0+F_2 o1 : ReactionNetwork

In the motif Modification of Two-layer Cascade J, the symbols used in the chemical reactions have the following meaning:

S_i and P_i are substrates with i = 0, 1, 2 phosphorylated sites, E is a kinase and F is a phosphotase, X and Y are the intermediate complexes formed by the enzymes E and F, respectively.

To rename species, use substitute(ReactionNetwork,List).