// This model generated automatically from SBML
// WARNING: Renamed variable _space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol to xxx_space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol due to JSim namespace restrictions
// WARNING: Renamed variable _space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol to xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol due to JSim namespace restrictions
// WARNING: Renamed variable _space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone to xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone due to JSim namespace restrictions
// WARNING: Renamed variable _space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone to xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone due to JSim namespace restrictions
// WARNING: Renamed variable _space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone to xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone due to JSim namespace restrictions
// WARNING: Renamed variable _space_2_minus_Succinylbenzoate to xxx_space_2_minus_Succinylbenzoate due to JSim namespace restrictions
// WARNING: Renamed variable _space_2_minus_Succinylbenzoyl_minus_CoA to xxx_space_2_minus_Succinylbenzoyl_minus_CoA due to JSim namespace restrictions
// WARNING: Renamed variable _space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA to xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA due to JSim namespace restrictions
// WARNING: Renamed variable _space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate to xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate due to JSim namespace restrictions
// WARNING: Renamed variable _space_2_minus_Demethylmenaquinone to xxx_space_2_minus_Demethylmenaquinone due to JSim namespace restrictions
// WARNING: Renamed variable _space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone to xxx_space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone due to JSim namespace restrictions

// unit definitions
import nsrunit;
unit conversion off;

// SBML property definitions
property sbmlRole=string;
property sbmlName=string;
property sbmlCompartment=string;

// SBML reactions
// R04990: _space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone <=> _space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone 
// R05617: _space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate => _space_2_minus_Demethylmenaquinone 
// R04993: _space_2_minus_Demethylmenaquinone <=> Menaquinone 
// R01717: Chorismate => Isochorismate 
// R04988: _space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol <=> _space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol 
// R04030: _space_2_minus_Succinylbenzoate <=> _space_2_minus_Succinylbenzoyl_minus_CoA 
// R06859: _space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone <=> Phylloquinone 
// R07263: _space_2_minus_Succinylbenzoyl_minus_CoA => _space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA 
// R02166: Ubiquinone => Ubiquinol 
// R05614: _space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone => Ubiquinone 
// R06858: _space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate <=> _space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone 

math main {
  realDomain time second;
  time.min=0;
  extern time.max;
  extern time.delta;

  // variable definitions
  real default = 1 L;
  real uVol = 1 L;
  real E1_space_6_space_5_space_3 = 0 M;
  real E5_space_4_space_4_space_2 = 0 M;
  real E2_space_1_space_1_space_64 = 0 M;
  real E2_space_1_space_1_space__minus_ = 0 M;
  real E2_space_5_space_1_space__minus_ = 0 M;
  real E6_space_2_space_1_space_26 = 0 M;
  real E4_space_1_space_3_space_36 = 0 M;
  real Chorismate(time) M;
  real Ubiquinol(time) M;
  real Ubiquinone(time) M;
  real xxx_space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol(time) M;
  real xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol(time) M;
  real xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone(time) M;
  real xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone(time) M;
  real xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone(time) M;
  real Isochorismate(time) M;
  real xxx_space_2_minus_Succinylbenzoate(time) M;
  real xxx_space_2_minus_Succinylbenzoyl_minus_CoA(time) M;
  real xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA(time) M;
  real xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate(time) M;
  real xxx_space_2_minus_Demethylmenaquinone(time) M;
  real Menaquinone(time) M;
  real xxx_space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone(time) M;
  real Phylloquinone(time) M;
  real R04990(time) katal;
  extern real R04990.kf;
  extern real R04990.kb;
  real R05617(time) katal;
  extern real R05617.kf;
  extern real R05617.kb;
  real R04993(time) katal;
  extern real R04993.kf;
  extern real R04993.kb;
  real R01717(time) katal;
  extern real R01717.kf;
  extern real R01717.kb;
  real R04988(time) katal;
  extern real R04988.kf;
  extern real R04988.kb;
  real R04030(time) katal;
  extern real R04030.kf;
  extern real R04030.kb;
  real R06859(time) katal;
  extern real R06859.kf;
  extern real R06859.kb;
  real R07263(time) katal;
  extern real R07263.kf;
  extern real R07263.kb;
  real R02166(time) katal;
  extern real R02166.kf;
  extern real R02166.kb;
  real R05614(time) katal;
  extern real R05614.kf;
  extern real R05614.kb;
  real R06858(time) katal;
  extern real R06858.kf;
  extern real R06858.kb;

  // equations
  when (time=time.min) Chorismate = 0;
  (Chorismate*uVol):time = -1*R01717;
  when (time=time.min) Ubiquinol = 0;
  (Ubiquinol*uVol):time = R02166;
  when (time=time.min) Ubiquinone = 0;
  (Ubiquinone*uVol):time = -1*R02166 + R05614;
  when (time=time.min) xxx_space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol = 0;
  (xxx_space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol*uVol):time = -1*R04988;
  when (time=time.min) xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol = 0;
  (xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol*uVol):time = R04988;
  when (time=time.min) xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone = 0;
  (xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone*uVol):time = -1*R04990;
  when (time=time.min) xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone = 0;
  (xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone*uVol):time = R04990;
  when (time=time.min) xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone = 0;
  (xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone*uVol):time = -1*R05614;
  when (time=time.min) Isochorismate = 0;
  (Isochorismate*uVol):time = R01717;
  when (time=time.min) xxx_space_2_minus_Succinylbenzoate = 0;
  (xxx_space_2_minus_Succinylbenzoate*uVol):time = -1*R04030;
  when (time=time.min) xxx_space_2_minus_Succinylbenzoyl_minus_CoA = 0;
  (xxx_space_2_minus_Succinylbenzoyl_minus_CoA*uVol):time = R04030 + -1*R07263;
  when (time=time.min) xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA = 0;
  (xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA*uVol):time = R07263;
  when (time=time.min) xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate = 0;
  (xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate*uVol):time = -1*R05617 + -1*R06858;
  when (time=time.min) xxx_space_2_minus_Demethylmenaquinone = 0;
  (xxx_space_2_minus_Demethylmenaquinone*uVol):time = R05617 + -1*R04993;
  when (time=time.min) Menaquinone = 0;
  (Menaquinone*uVol):time = R04993;
  when (time=time.min) xxx_space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone = 0;
  (xxx_space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone*uVol):time = -1*R06859 + R06858;
  when (time=time.min) Phylloquinone = 0;
  (Phylloquinone*uVol):time = R06859;
  R04990 = R04990.kf*_space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone - R04990.kb*_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone;
  R05617 = R05617.kf*_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate - R05617.kb*_space_2_minus_Demethylmenaquinone;
  R04993 = R04993.kf*_space_2_minus_Demethylmenaquinone - R04993.kb*Menaquinone;
  R01717 = R01717.kf*Chorismate - R01717.kb*Isochorismate;
  R04988 = R04988.kf*_space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol - R04988.kb*_space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol;
  R04030 = R04030.kf*_space_2_minus_Succinylbenzoate - R04030.kb*_space_2_minus_Succinylbenzoyl_minus_CoA;
  R06859 = R06859.kf*_space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone - R06859.kb*Phylloquinone;
  R07263 = R07263.kf*_space_2_minus_Succinylbenzoyl_minus_CoA - R07263.kb*_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA;
  R02166 = R02166.kf*Ubiquinone - R02166.kb*Ubiquinol;
  R05614 = R05614.kf*_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone - R05614.kb*Ubiquinone;
  R06858 = R06858.kf*_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate - R06858.kb*_space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone;

  // variable properties
  default.sbmlRole="compartment";
  uVol.sbmlRole="compartment";
  E1_space_6_space_5_space_3.sbmlRole="species";
  E1_space_6_space_5_space_3.sbmlCompartment="uVol";
  E5_space_4_space_4_space_2.sbmlRole="species";
  E5_space_4_space_4_space_2.sbmlCompartment="uVol";
  E2_space_1_space_1_space_64.sbmlRole="species";
  E2_space_1_space_1_space_64.sbmlCompartment="uVol";
  E2_space_1_space_1_space__minus_.sbmlRole="species";
  E2_space_1_space_1_space__minus_.sbmlCompartment="uVol";
  E2_space_5_space_1_space__minus_.sbmlRole="species";
  E2_space_5_space_1_space__minus_.sbmlCompartment="uVol";
  E6_space_2_space_1_space_26.sbmlRole="species";
  E6_space_2_space_1_space_26.sbmlCompartment="uVol";
  E4_space_1_space_3_space_36.sbmlRole="species";
  E4_space_1_space_3_space_36.sbmlCompartment="uVol";
  Chorismate.sbmlRole="species";
  Chorismate.sbmlCompartment="uVol";
  Ubiquinol.sbmlRole="species";
  Ubiquinol.sbmlCompartment="uVol";
  Ubiquinone.sbmlRole="species";
  Ubiquinone.sbmlCompartment="uVol";
  xxx_space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol.sbmlRole="species";
  xxx_space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol.sbmlName="_space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol";
  xxx_space_2_minus_Octaprenyl_minus_6_minus_hydroxyphenol.sbmlCompartment="uVol";
  xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol.sbmlRole="species";
  xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol.sbmlName="_space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol";
  xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxyphenol.sbmlCompartment="uVol";
  xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone.sbmlRole="species";
  xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone.sbmlName="_space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone";
  xxx_space_2_minus_Octaprenyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone.sbmlCompartment="uVol";
  xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone.sbmlRole="species";
  xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone.sbmlName="_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone";
  xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone.sbmlCompartment="uVol";
  xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone.sbmlRole="species";
  xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone.sbmlName="_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone";
  xxx_space_2_minus_Octaprenyl_minus_3_minus_methyl_minus_5_minus_hydroxy_minus_6_minus_methoxy_minus_1_space_4_minus_benzoquinone.sbmlCompartment="uVol";
  Isochorismate.sbmlRole="species";
  Isochorismate.sbmlCompartment="uVol";
  xxx_space_2_minus_Succinylbenzoate.sbmlRole="species";
  xxx_space_2_minus_Succinylbenzoate.sbmlName="_space_2_minus_Succinylbenzoate";
  xxx_space_2_minus_Succinylbenzoate.sbmlCompartment="uVol";
  xxx_space_2_minus_Succinylbenzoyl_minus_CoA.sbmlRole="species";
  xxx_space_2_minus_Succinylbenzoyl_minus_CoA.sbmlName="_space_2_minus_Succinylbenzoyl_minus_CoA";
  xxx_space_2_minus_Succinylbenzoyl_minus_CoA.sbmlCompartment="uVol";
  xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA.sbmlRole="species";
  xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA.sbmlName="_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA";
  xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoyl_minus_CoA.sbmlCompartment="uVol";
  xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate.sbmlRole="species";
  xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate.sbmlName="_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate";
  xxx_space_1_space_4_minus_Dihydroxy_minus_2_minus_naphthoate.sbmlCompartment="uVol";
  xxx_space_2_minus_Demethylmenaquinone.sbmlRole="species";
  xxx_space_2_minus_Demethylmenaquinone.sbmlName="_space_2_minus_Demethylmenaquinone";
  xxx_space_2_minus_Demethylmenaquinone.sbmlCompartment="uVol";
  Menaquinone.sbmlRole="species";
  Menaquinone.sbmlCompartment="uVol";
  xxx_space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone.sbmlRole="species";
  xxx_space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone.sbmlName="_space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone";
  xxx_space_2_minus_Phytyl_minus_1_space_4_minus_naphthoquinone.sbmlCompartment="uVol";
  Phylloquinone.sbmlRole="species";
  Phylloquinone.sbmlCompartment="uVol";
  R04990.sbmlRole="rate";
  R04990.kf.sbmlRole="rate";
  R04990.kb.sbmlRole="rate";
  R05617.sbmlRole="rate";
  R05617.kf.sbmlRole="rate";
  R05617.kb.sbmlRole="rate";
  R04993.sbmlRole="rate";
  R04993.kf.sbmlRole="rate";
  R04993.kb.sbmlRole="rate";
  R01717.sbmlRole="rate";
  R01717.kf.sbmlRole="rate";
  R01717.kb.sbmlRole="rate";
  R04988.sbmlRole="rate";
  R04988.kf.sbmlRole="rate";
  R04988.kb.sbmlRole="rate";
  R04030.sbmlRole="rate";
  R04030.kf.sbmlRole="rate";
  R04030.kb.sbmlRole="rate";
  R06859.sbmlRole="rate";
  R06859.kf.sbmlRole="rate";
  R06859.kb.sbmlRole="rate";
  R07263.sbmlRole="rate";
  R07263.kf.sbmlRole="rate";
  R07263.kb.sbmlRole="rate";
  R02166.sbmlRole="rate";
  R02166.kf.sbmlRole="rate";
  R02166.kb.sbmlRole="rate";
  R05614.sbmlRole="rate";
  R05614.kf.sbmlRole="rate";
  R05614.kb.sbmlRole="rate";
  R06858.sbmlRole="rate";
  R06858.kf.sbmlRole="rate";
  R06858.kb.sbmlRole="rate";
}