(* 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 = {
CDK2cycA[t], CDK2cycA\[LetterSpace]star\[LetterSpace][t], Cdk2[t], CyclinA[t]
};

initialValues = {
CDK2cycA[0] == 0.0, CDK2cycA\[LetterSpace]star\[LetterSpace][0] == 0.0, Cdk2[0] == 1*^-07, CyclinA[0] == 4*^-07
};

rates = {
Activation, Binding
};

rateEquations = {
Activation -> Activation\[LetterSpace]kf*geometry*CDK2cycA[t] - Activation\[LetterSpace]kb*geometry*CDK2cycA\[LetterSpace]star\[LetterSpace][t], Binding -> -(Binding\[LetterSpace]kb*geometry*CDK2cycA[t]) + Binding\[LetterSpace]kf*geometry*Cdk2[t]*CyclinA[t]
};

parameters = {
basal\[LetterSpace]fluorescence -> 1.21210648148148, Binding\[LetterSpace]kf -> 19000000.0, Binding\[LetterSpace]kb -> 25.0, Activation\[LetterSpace]kf -> 0.813, Activation\[LetterSpace]kb -> 0.557, geometry -> 1*^-12
};

assignments = {
total\[LetterSpace]fluorescence -> basal\[LetterSpace]fluorescence + (374993750*CDK2cycA[t])/27 + (374993750*CDK2cycA\[LetterSpace]star\[LetterSpace][t])/27
};

events = {

};

speciesAnnotations = {
Cdk2[t]->"http://identifiers.org/uniprot/P00546"
};

reactionAnnotations = {

};

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

(* Time evolution *)
odes = {
CDK2cycA'[t] == 1.0*Binding -1.0*Activation, CDK2cycA\[LetterSpace]star\[LetterSpace]'[t] == 1.0*Activation , Cdk2'[t] ==  -1.0*Binding, CyclinA'[t] ==  -1.0*Binding
};
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]}]