(* Generated by JWS Online *)

(* This is an experimental feature of JWS Online. Please report any mistakes.*)

(* Note that the following notable SBML entities or features are not supported in notebook outputyet: *)
    (* Events *)
    (* Constraints *)
    (* Units and UnitDefinitions *)
    (* AlgebraicRules *)
    (* conversionFactors *)

variables = {
ADP[t], ATP[t], BPG[t], P3G[t], pep[t], pyr[t]
};

initialValues = {
ADP[0] == 0.0, ATP[0] == 10.0, BPG[0] == 0.0, P3G[0] == 4.0, pep[0] == 5.0, pyr[0] == 0.0
};

rates = {
v1, v2
};

rateEquations = {
v1 -> -((VmPGK*(KeqPGK*ADP[t]*BPG[t] - ATP[t]*P3G[t]))/(KmPGKATP*KmPGKP3G*(1 + ADP[t]/KmPGKADP + ATP[t]/KmPGKATP)*(1 + BPG[t]/KmPGKBPG + P3G[t]/KmPGKP3G))), v2 -> kPK*ADP[t]*pep[t]
};

parameters = {
KeqPGK -> 3200.0, KmPGKADP -> 0.2, KmPGKATP -> 0.3, KmPGKBPG -> 0.003, KmPGKP3G -> 0.53, VmPGK -> 4.61, kPK -> 50.0, default -> 1.0
};

assignments = {

};

events = {

};

speciesAnnotations = {
ADP[t]->"http://identifiers.org/obo.chebi/CHEBI%3A16761", ADP[t]->"http://identifiers.org/kegg.compound/C00008", ATP[t]->"http://identifiers.org/obo.chebi/CHEBI%3A15422", ATP[t]->"http://identifiers.org/kegg.compound/C00002", BPG[t]->"http://identifiers.org/obo.chebi/CHEBI%3A16001", BPG[t]->"http://identifiers.org/kegg.compound/C00236"
};

reactionAnnotations = {
v1->"http://identifiers.org/ec-code/2.7.2.3", v2->"http://identifiers.org/ec-code/2.7.1.40"
};

units = {
{"time" -> "", "metabolite" -> "", "extent" -> ""}
};

(* Time evolution *)
odes = {
ADP'[t] == 1.0*v1 -1.0*v2, ATP'[t] == 1.0*v2 -1.0*v1, BPG'[t] == 1.0*v1 , P3G'[t] ==  -1.0*v1, pep'[t] ==  -1.0*v2, pyr'[t] == 1.0*v2 
};
timeCourse = NDSolve[Join[odes, initialValues]//.rateEquations//.assignments//.parameters, variables, {t, 0, 100}];

(* Steady-state solution initialized with result of time evolution *)
findRootEquations = odes /.D[_[t],t]->0;
findRootVariables = Partition[Flatten[{#, #/.timeCourse/.t->100} &/@variables],2];
steadyStateVariables = FindRoot[findRootEquations//.rateEquations//.assignments//.parameters, findRootVariables, MaxIterations->100]
fluxes = #//.assignments//.parameters/.steadyStateVariables&/@rateEquations

(* Plot the time evolution of the variables *)
plotTable=Table[Plot[variables[[i]]/.parameters/.timeCourse,{t,0,100},PlotLegends->variables[[i]],PlotRange->Full],{i,Length[variables]}]