test_ecell
# this is ecell rule file for E-CELL0.9.4.6
# converted by Ecell module 

include(qty.er)

system Cell(/:CELL,"The cell")
{
	Stepper SlaveStepper;
}

system Environment(/:ENVIRONMENT,"The culture medium")
{
	Stepper SlaveStepper;
	VolumeIndex /ENVIRONMENT:VOLUME;
}

system Cytoplasm(/CELL:CYTOPLASM,"The cytoplasm")
{
	Stepper SlaveStepper;
	VolumeIndex /CELL/CYTOPLASM:VOLUME;
}

system Membrane(/CELL:MEMBRANE,"The menbrane")
{
	Stepper SlaveStepper;
	Inside  /CELL:CYTOPLASM;
	Outside /:ENVIRONMENT;
}

_SETVOLUME(/ENVIRONMENT,1E-015)
_SETVOLUME(/CELL/CYTOPLASM,1E-018)
substance /CELL/CYTOPLASM:SA "Substance A" 1000000;
fix /CELL/CYTOPLASM:SA;
substance /CELL/CYTOPLASM:SB "Substance B" 0;
substance /CELL/CYTOPLASM:SC "Substance C" 0;
substance /CELL/CYTOPLASM:SD "Substance D" 0;
substance /CELL/CYTOPLASM:SE "Substance E" 0;
substance /CELL/CYTOPLASM:E.ab "Isomerase of A" QTY(0.83027009,/CELL/CYTOPLASM);
fix /CELL/CYTOPLASM:E.ab;
substance /CELL/CYTOPLASM:E.bc "Dehydratase of B" QTY(0.02,/CELL/CYTOPLASM);
substance /CELL/CYTOPLASM:E.cd "Isomerase of C" QTY(0.01,/CELL/CYTOPLASM);
substance /CELL/CYTOPLASM:E.de "Isomerase of D" QTY(0.01,/CELL/CYTOPLASM);
substance /CELL/CYTOPLASM:C.Ebc-D "Complex of E.bc and D" QTY(0,/CELL/CYTOPLASM);

reactor ConstantParameterReactor(/ENVIRONMENT:VOLUME,"Volume index for environment")
{
	Value 1E-015;
	InitialActivity 1E-015;
}

reactor ConstantParameterReactor(/CELL/CYTOPLASM:VOLUME,"Volume index for cytoplasm")
{
	Value 1E-018;
	InitialActivity 1E-018;
}

reactor MichaelisUniUniReversibleReactor(/CELL/CYTOPLASM:E.ab-0,"Isomerization of A")
{
	Substrate /CELL/CYTOPLASM:SA 1;
	Product /CELL/CYTOPLASM:SB 1;
	Catalyst /CELL/CYTOPLASM:E.ab;
	KmS 10;
	KmP 0.1;
	KcF 5;
	KcR 4;
}

reactor MichaelisUniUniReversibleReactor(/CELL/CYTOPLASM:E.bc-0,"Dehydration of B")
{
	Substrate /CELL/CYTOPLASM:SB 1;
	Product /CELL/CYTOPLASM:SC 1;
	Catalyst /CELL/CYTOPLASM:E.bc;
	KmS 0.1;
	KmP 0.1;
	KcF 3;
	KcR 0.1;
}

reactor MichaelisUniUniReversibleReactor(/CELL/CYTOPLASM:E.cd-0,"Isomerization of C")
{
	Substrate /CELL/CYTOPLASM:SC 1;
	Product /CELL/CYTOPLASM:SD 1;
	Catalyst /CELL/CYTOPLASM:E.cd;
	KmS 0.1;
	KmP 0.1;
	KcF 2;
	KcR 0.1;
}

reactor MichaelisUniUniReactor(/CELL/CYTOPLASM:E.de-0,"Isomerization of D")
{
	Substrate /CELL/CYTOPLASM:SD 1;
	Product /CELL/CYTOPLASM:SE 1;
	Catalyst /CELL/CYTOPLASM:E.de;
	KmS 0.1;
	KcF 1;
}

reactor RapidEquilibriumPReactor(/CELL/CYTOPLASM:!EQ-Ebc-D,"Bonding of Ebc and D")
{
	Substrate /CELL/CYTOPLASM:E.bc 1;
	Substrate /CELL/CYTOPLASM:SD 1;
	Product /CELL/CYTOPLASM:C.Ebc-D 1;
	Keq 100;
}