(* 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 = {
Phser[t]
};

initialValues = {
Phser[0] == 0.0
};

rates = {
v\[LetterSpace]1, v\[LetterSpace]2, v\[LetterSpace]3
};

rateEquations = {
v\[LetterSpace]1 -> V1, v\[LetterSpace]2 -> (CGS*kcat2*Phser[t])/((1 + KmCYS/Cys)*((KmPHSER*(1 + Phi/Ki2))/(1 + KmCYS/Cys) + Phser[t])), v\[LetterSpace]3 -> ((0.42 + 0.04794520547945205*AdoMet^2)*TS*Phser[t])/((1 + AdoMet^2/73)*((250*(1 + 2.*AdoMet)*(1 + Phi/Ki3))/((1 + 0.9174311926605504*AdoMet)*(1 + AdoMet^2/142)) + Phser[t]))
};

parameters = {
AdoMet -> 20.0, CGS -> 0.7, Ki2 -> 2000.0, Ki3 -> 1000.0, KmCYS -> 460.0, KmPHSER -> 2500.0, TS -> 5.0, V1 -> 1.0, kcat2 -> 30.0, Cys -> 15.0, Cystathionine -> 0.0, Hser -> 0.0, Phi -> 10000.0, Thr -> 0.0, default\[LetterSpace]compartment -> 1.0
};

assignments = {

};

events = {

};

speciesAnnotations = {
Cys[t]->"http://identifiers.org/obo.chebi/CHEBI%3A32460", Cystathionine[t]->"http://identifiers.org/kegg.compound/C00542", Thr[t]->"http://identifiers.org/obo.chebi/CHEBI%3A32835"
};

reactionAnnotations = {

};

units = {
{"time" -> "s", "metabolite" -> "umol/L", "extent" -> "uM"}
};

(* Time evolution *)
odes = {
Phser'[t] == 1.0*v\[LetterSpace]1 -1.0*v\[LetterSpace]2 -1.0*v\[LetterSpace]3
};
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]}]