// This model generated automatically from SBML

// unit definitions
import nsrunit;
unit conversion off;

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

// SBML reactions
// R00513: Cytidine <=> CMP 
// R01055: Uracil => Pseudouridine_space_5_space_minus_phosphate 
// R00974: Cytosine <=> Uracil 
// R02101: dUMP <=> dTMP 
// R00964: Uridine <=> UMP 
// R01993: space_S_space_minus_Dihydroorotate => N_minus_Carbamoyl_minus_L_minus_aspartate 
// R02093: dTDP => dTTP 
// R00156: UDP => UTP 
// R01870: Orotidine_space_5_space_minus_phosphate => Orotate space_5_minus_Phospho_minus_alpha_minus_D_minus_ribose_space_1_minus_diphosphate 
// R02269: space_5_space_6_minus_Dihydrouracil => space_3_minus_Ureidopropionate 
// R02018: dUDP Thioredoxin_space_disulfide <=> UDP Thioredoxin 
// R01867: space_S_space_minus_Dihydroorotate => Orotate 
// R00159: UTP <=> UDP 
// R01665: dCMP <=> dCDP 
// R00570: CDP => CTP 
// R02094: dTMP => dTDP 
// R00442: CTP => RNA 
// R00377: dCTP => DNA 
// R00514: CDP <=> CMP 
// R00155: UDP <=> UMP 
// R00575: L_minus_Glutamine <=> Carbamoyl_space_phosphate 
// R01397: Carbamoyl_space_phosphate <=> N_minus_Carbamoyl_minus_L_minus_aspartate 
// R01411: space_5_minus_Methylcytosine => Thymine 
// R00571: UTP <=> CTP 
// R03055: space_5_space_6_minus_Dihydrothymine => space_3_minus_Ureidoisobutyrate 
// R00569: CTP <=> CDP 
// R00965: Orotidine_space_5_space_minus_phosphate <=> UMP 
// R01663: dCMP <=> dUMP 
// R02331: dUDP => dUTP 
// R00158: UMP => UDP 
// R02485: Deoxycytidine <=> Deoxyuridine 
// R02100: dUTP <=> dUMP 
// R00443: UTP => RNA 
// R02024: dCDP Thioredoxin_space_disulfide <=> CDP Thioredoxin 
// R02098: dUMP => dUDP 
// R01878: Cytidine <=> Uridine 
// R02095: dTTP <=> dTDP 
// R00378: dTTP => DNA 
// R02326: dCDP => dCTP 
// R02016: Thioredoxin_space_disulfide <=> Thioredoxin 
// R00512: CMP => CDP 
// R02092: dTDP <=> dTMP 
// R00966: UMP => Uracil 

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_8_space_1_space_9 = 0 M;
  real E3_space_5_space_2_space_3 = 0 M;
  real E2_space_7_space_7_space_minus_ = 0 M;
  real E2_space_7_space_7_space_6 = 0 M;
  real E1_space_3_space_3_space_1 = 0 M;
  real E6_space_3_space_4_space_2 = 0 M;
  real E2_space_7_space_4_space_6 = 0 M;
  real E3_space_6_space_1_space_5 = 0 M;
  real E2_space_4_space_2_space_10 = 0 M;
  real E3_space_6_space_1_space_23 = 0 M;
  real E1_space_17_space_4_space_1 = 0 M;
  real E2_space_7_space_4_space_9 = 0 M;
  real E2_space_7_space_4_space_14 = 0 M;
  real E4_space_1_space_1_space_23 = 0 M;
  real E2_space_1_space_1_space_45 = 0 M;
  real E3_space_5_space_4_space_12 = 0 M;
  real E2_space_7_space_1_space_48 = 0 M;
  real E2_space_4_space_2_space_9 = 0 M;
  real E3_space_5_space_4_space_5 = 0 M;
  real E3_space_5_space_4_space_1 = 0 M;
  real E4_space_2_space_1_space_70 = 0 M;
  real E3_space_5_space_2_space_2 = 0 M;
  real E2_space_1_space_3_space_2 = 0 M;
  real E6_space_3_space_5_space_5 = 0 M;
  real space_3_minus_Ureidopropionate(time) M;
  real N_minus_Carbamoyl_minus_L_minus_aspartate(time) M;
  real Carbamoyl_space_phosphate(time) M;
  real L_minus_Glutamine(time) M;
  real Thioredoxin(time) M;
  real Thioredoxin_space_disulfide(time) M;
  real space_S_space_minus_Dihydroorotate(time) M;
  real RNA(time) M;
  real DNA(time) M;
  real CTP(time) M;
  real dCTP(time) M;
  real dUTP(time) M;
  real dTTP(time) M;
  real UTP(time) M;
  real Orotate(time) M;
  real space_5_minus_Phospho_minus_alpha_minus_D_minus_ribose_space_1_minus_diphosphate(time) M;
  real UDP(time) M;
  real CDP(time) M;
  real dUDP(time) M;
  real dTDP(time) M;
  real dCDP(time) M;
  real Orotidine_space_5_space_minus_phosphate(time) M;
  real dUMP(time) M;
  real CMP(time) M;
  real dCMP(time) M;
  real dTMP(time) M;
  real UMP(time) M;
  real Deoxycytidine(time) M;
  real Deoxyuridine(time) M;
  real Uridine(time) M;
  real Cytidine(time) M;
  real Cytosine(time) M;
  real space_5_minus_Methylcytosine(time) M;
  real Thymine(time) M;
  real Uracil(time) M;
  real space_5_space_6_minus_Dihydrothymine(time) M;
  real space_5_space_6_minus_Dihydrouracil(time) M;
  real Pseudouridine_space_5_space_minus_phosphate(time) M;
  real space_3_minus_Ureidoisobutyrate(time) M;
  real R00513(time) katal;
  extern real R00513.kf;
  extern real R00513.kb;
  real R01055(time) katal;
  extern real R01055.kf;
  extern real R01055.kb;
  real R00974(time) katal;
  extern real R00974.kf;
  extern real R00974.kb;
  real R02101(time) katal;
  extern real R02101.kf;
  extern real R02101.kb;
  real R00964(time) katal;
  extern real R00964.kf;
  extern real R00964.kb;
  real R01993(time) katal;
  extern real R01993.kf;
  extern real R01993.kb;
  real R02093(time) katal;
  extern real R02093.kf;
  extern real R02093.kb;
  real R00156(time) katal;
  extern real R00156.kf;
  extern real R00156.kb;
  real R01870(time) katal;
  extern real R01870.kf;
  extern real R01870.kb;
  real R02269(time) katal;
  extern real R02269.kf;
  extern real R02269.kb;
  real R02018(time) katal;
  extern real R02018.kf;
  extern real R02018.kb;
  real R01867(time) katal;
  extern real R01867.kf;
  extern real R01867.kb;
  real R00159(time) katal;
  extern real R00159.kf;
  extern real R00159.kb;
  real R01665(time) katal;
  extern real R01665.kf;
  extern real R01665.kb;
  real R00570(time) katal;
  extern real R00570.kf;
  extern real R00570.kb;
  real R02094(time) katal;
  extern real R02094.kf;
  extern real R02094.kb;
  real R00442(time) katal;
  extern real R00442.kf;
  extern real R00442.kb;
  real R00377(time) katal;
  extern real R00377.kf;
  extern real R00377.kb;
  real R00514(time) katal;
  extern real R00514.kf;
  extern real R00514.kb;
  real R00155(time) katal;
  extern real R00155.kf;
  extern real R00155.kb;
  real R00575(time) katal;
  extern real R00575.kf;
  extern real R00575.kb;
  real R01397(time) katal;
  extern real R01397.kf;
  extern real R01397.kb;
  real R01411(time) katal;
  extern real R01411.kf;
  extern real R01411.kb;
  real R00571(time) katal;
  extern real R00571.kf;
  extern real R00571.kb;
  real R03055(time) katal;
  extern real R03055.kf;
  extern real R03055.kb;
  real R00569(time) katal;
  extern real R00569.kf;
  extern real R00569.kb;
  real R00965(time) katal;
  extern real R00965.kf;
  extern real R00965.kb;
  real R01663(time) katal;
  extern real R01663.kf;
  extern real R01663.kb;
  real R02331(time) katal;
  extern real R02331.kf;
  extern real R02331.kb;
  real R00158(time) katal;
  extern real R00158.kf;
  extern real R00158.kb;
  real R02485(time) katal;
  extern real R02485.kf;
  extern real R02485.kb;
  real R02100(time) katal;
  extern real R02100.kf;
  extern real R02100.kb;
  real R00443(time) katal;
  extern real R00443.kf;
  extern real R00443.kb;
  real R02024(time) katal;
  extern real R02024.kf;
  extern real R02024.kb;
  real R02098(time) katal;
  extern real R02098.kf;
  extern real R02098.kb;
  real R01878(time) katal;
  extern real R01878.kf;
  extern real R01878.kb;
  real R02095(time) katal;
  extern real R02095.kf;
  extern real R02095.kb;
  real R00378(time) katal;
  extern real R00378.kf;
  extern real R00378.kb;
  real R02326(time) katal;
  extern real R02326.kf;
  extern real R02326.kb;
  real R02016(time) katal;
  extern real R02016.kf;
  extern real R02016.kb;
  real R00512(time) katal;
  extern real R00512.kf;
  extern real R00512.kb;
  real R02092(time) katal;
  extern real R02092.kf;
  extern real R02092.kb;
  real R00966(time) katal;
  extern real R00966.kf;
  extern real R00966.kb;

  // equations
  when (time=time.min) space_3_minus_Ureidopropionate = 0;
  space_3_minus_Ureidopropionate:time = (R02269)/uVol;
  when (time=time.min) N_minus_Carbamoyl_minus_L_minus_aspartate = 0;
  N_minus_Carbamoyl_minus_L_minus_aspartate:time = (R01993 + R01397)/uVol;
  when (time=time.min) Carbamoyl_space_phosphate = 0;
  Carbamoyl_space_phosphate:time = (R00575 + -1*R01397)/uVol;
  when (time=time.min) L_minus_Glutamine = 0;
  L_minus_Glutamine:time = (-1*R00575)/uVol;
  when (time=time.min) Thioredoxin = 0;
  Thioredoxin:time = (R02018 + R02024 + R02016)/uVol;
  when (time=time.min) Thioredoxin_space_disulfide = 0;
  Thioredoxin_space_disulfide:time = (-1*R02018 + -1*R02024 + -1*R02016)/uVol;
  when (time=time.min) space_S_space_minus_Dihydroorotate = 0;
  space_S_space_minus_Dihydroorotate:time = (-1*R01993 + -1*R01867)/uVol;
  when (time=time.min) RNA = 0;
  RNA:time = (R00442 + R00443)/uVol;
  when (time=time.min) DNA = 0;
  DNA:time = (R00377 + R00378)/uVol;
  when (time=time.min) CTP = 0;
  CTP:time = (R00570 + -1*R00442 + R00571 + -1*R00569)/uVol;
  when (time=time.min) dCTP = 0;
  dCTP:time = (-1*R00377 + R02326)/uVol;
  when (time=time.min) dUTP = 0;
  dUTP:time = (R02331 + -1*R02100)/uVol;
  when (time=time.min) dTTP = 0;
  dTTP:time = (R02093 + -1*R02095 + -1*R00378)/uVol;
  when (time=time.min) UTP = 0;
  UTP:time = (R00156 + -1*R00159 + -1*R00571 + -1*R00443)/uVol;
  when (time=time.min) Orotate = 0;
  Orotate:time = (R01870 + R01867)/uVol;
  when (time=time.min) space_5_minus_Phospho_minus_alpha_minus_D_minus_ribose_space_1_minus_diphosphate = 0;
  space_5_minus_Phospho_minus_alpha_minus_D_minus_ribose_space_1_minus_diphosphate:time = (R01870)/uVol;
  when (time=time.min) UDP = 0;
  UDP:time = (-1*R00156 + R02018 + R00159 + -1*R00155 + R00158)/uVol;
  when (time=time.min) CDP = 0;
  CDP:time = (-1*R00570 + -1*R00514 + R00569 + R02024 + R00512)/uVol;
  when (time=time.min) dUDP = 0;
  dUDP:time = (-1*R02018 + -1*R02331 + R02098)/uVol;
  when (time=time.min) dTDP = 0;
  dTDP:time = (-1*R02093 + R02094 + R02095 + -1*R02092)/uVol;
  when (time=time.min) dCDP = 0;
  dCDP:time = (R01665 + -1*R02024 + -1*R02326)/uVol;
  when (time=time.min) Orotidine_space_5_space_minus_phosphate = 0;
  Orotidine_space_5_space_minus_phosphate:time = (-1*R01870 + -1*R00965)/uVol;
  when (time=time.min) dUMP = 0;
  dUMP:time = (-1*R02101 + R01663 + R02100 + -1*R02098)/uVol;
  when (time=time.min) CMP = 0;
  CMP:time = (R00513 + R00514 + -1*R00512)/uVol;
  when (time=time.min) dCMP = 0;
  dCMP:time = (-1*R01665 + -1*R01663)/uVol;
  when (time=time.min) dTMP = 0;
  dTMP:time = (R02101 + -1*R02094 + R02092)/uVol;
  when (time=time.min) UMP = 0;
  UMP:time = (R00964 + R00155 + R00965 + -1*R00158 + -1*R00966)/uVol;
  when (time=time.min) Deoxycytidine = 0;
  Deoxycytidine:time = (-1*R02485)/uVol;
  when (time=time.min) Deoxyuridine = 0;
  Deoxyuridine:time = (R02485)/uVol;
  when (time=time.min) Uridine = 0;
  Uridine:time = (-1*R00964 + R01878)/uVol;
  when (time=time.min) Cytidine = 0;
  Cytidine:time = (-1*R00513 + -1*R01878)/uVol;
  when (time=time.min) Cytosine = 0;
  Cytosine:time = (-1*R00974)/uVol;
  when (time=time.min) space_5_minus_Methylcytosine = 0;
  space_5_minus_Methylcytosine:time = (-1*R01411)/uVol;
  when (time=time.min) Thymine = 0;
  Thymine:time = (R01411)/uVol;
  when (time=time.min) Uracil = 0;
  Uracil:time = (-1*R01055 + R00974 + R00966)/uVol;
  when (time=time.min) space_5_space_6_minus_Dihydrothymine = 0;
  space_5_space_6_minus_Dihydrothymine:time = (-1*R03055)/uVol;
  when (time=time.min) space_5_space_6_minus_Dihydrouracil = 0;
  space_5_space_6_minus_Dihydrouracil:time = (-1*R02269)/uVol;
  when (time=time.min) Pseudouridine_space_5_space_minus_phosphate = 0;
  Pseudouridine_space_5_space_minus_phosphate:time = (R01055)/uVol;
  when (time=time.min) space_3_minus_Ureidoisobutyrate = 0;
  space_3_minus_Ureidoisobutyrate:time = (R03055)/uVol;
  R00513 = R00513.kf*Cytidine - R00513.kb*CMP;
  R01055 = R01055.kf*Uracil - R01055.kb*Pseudouridine_space_5_space_minus_phosphate;
  R00974 = R00974.kf*Cytosine - R00974.kb*Uracil;
  R02101 = R02101.kf*dUMP - R02101.kb*dTMP;
  R00964 = R00964.kf*Uridine - R00964.kb*UMP;
  R01993 = R01993.kf*space_S_space_minus_Dihydroorotate - R01993.kb*N_minus_Carbamoyl_minus_L_minus_aspartate;
  R02093 = R02093.kf*dTDP - R02093.kb*dTTP;
  R00156 = R00156.kf*UDP - R00156.kb*UTP;
  R01870 = R01870.kf*Orotidine_space_5_space_minus_phosphate - R01870.kb*Orotate*space_5_minus_Phospho_minus_alpha_minus_D_minus_ribose_space_1_minus_diphosphate;
  R02269 = R02269.kf*space_5_space_6_minus_Dihydrouracil - R02269.kb*space_3_minus_Ureidopropionate;
  R02018 = R02018.kf*dUDP*Thioredoxin_space_disulfide - R02018.kb*UDP*Thioredoxin;
  R01867 = R01867.kf*space_S_space_minus_Dihydroorotate - R01867.kb*Orotate;
  R00159 = R00159.kf*UTP - R00159.kb*UDP;
  R01665 = R01665.kf*dCMP - R01665.kb*dCDP;
  R00570 = R00570.kf*CDP - R00570.kb*CTP;
  R02094 = R02094.kf*dTMP - R02094.kb*dTDP;
  R00442 = R00442.kf*CTP - R00442.kb*RNA;
  R00377 = R00377.kf*dCTP - R00377.kb*DNA;
  R00514 = R00514.kf*CDP - R00514.kb*CMP;
  R00155 = R00155.kf*UDP - R00155.kb*UMP;
  R00575 = R00575.kf*L_minus_Glutamine - R00575.kb*Carbamoyl_space_phosphate;
  R01397 = R01397.kf*Carbamoyl_space_phosphate - R01397.kb*N_minus_Carbamoyl_minus_L_minus_aspartate;
  R01411 = R01411.kf*space_5_minus_Methylcytosine - R01411.kb*Thymine;
  R00571 = R00571.kf*UTP - R00571.kb*CTP;
  R03055 = R03055.kf*space_5_space_6_minus_Dihydrothymine - R03055.kb*space_3_minus_Ureidoisobutyrate;
  R00569 = R00569.kf*CTP - R00569.kb*CDP;
  R00965 = R00965.kf*Orotidine_space_5_space_minus_phosphate - R00965.kb*UMP;
  R01663 = R01663.kf*dCMP - R01663.kb*dUMP;
  R02331 = R02331.kf*dUDP - R02331.kb*dUTP;
  R00158 = R00158.kf*UMP - R00158.kb*UDP;
  R02485 = R02485.kf*Deoxycytidine - R02485.kb*Deoxyuridine;
  R02100 = R02100.kf*dUTP - R02100.kb*dUMP;
  R00443 = R00443.kf*UTP - R00443.kb*RNA;
  R02024 = R02024.kf*dCDP*Thioredoxin_space_disulfide - R02024.kb*CDP*Thioredoxin;
  R02098 = R02098.kf*dUMP - R02098.kb*dUDP;
  R01878 = R01878.kf*Cytidine - R01878.kb*Uridine;
  R02095 = R02095.kf*dTTP - R02095.kb*dTDP;
  R00378 = R00378.kf*dTTP - R00378.kb*DNA;
  R02326 = R02326.kf*dCDP - R02326.kb*dCTP;
  R02016 = R02016.kf*Thioredoxin_space_disulfide - R02016.kb*Thioredoxin;
  R00512 = R00512.kf*CMP - R00512.kb*CDP;
  R02092 = R02092.kf*dTDP - R02092.kb*dTMP;
  R00966 = R00966.kf*UMP - R00966.kb*Uracil;

  // variable properties
  default.sbmlRole="compartment";
  uVol.sbmlRole="compartment";
  E1_space_8_space_1_space_9.sbmlRole="species";
  E1_space_8_space_1_space_9.sbmlCompartment="uVol";
  E3_space_5_space_2_space_3.sbmlRole="species";
  E3_space_5_space_2_space_3.sbmlCompartment="uVol";
  E2_space_7_space_7_space_minus_.sbmlRole="species";
  E2_space_7_space_7_space_minus_.sbmlCompartment="uVol";
  E2_space_7_space_7_space_6.sbmlRole="species";
  E2_space_7_space_7_space_6.sbmlCompartment="uVol";
  E1_space_3_space_3_space_1.sbmlRole="species";
  E1_space_3_space_3_space_1.sbmlCompartment="uVol";
  E6_space_3_space_4_space_2.sbmlRole="species";
  E6_space_3_space_4_space_2.sbmlCompartment="uVol";
  E2_space_7_space_4_space_6.sbmlRole="species";
  E2_space_7_space_4_space_6.sbmlCompartment="uVol";
  E3_space_6_space_1_space_5.sbmlRole="species";
  E3_space_6_space_1_space_5.sbmlCompartment="uVol";
  E2_space_4_space_2_space_10.sbmlRole="species";
  E2_space_4_space_2_space_10.sbmlCompartment="uVol";
  E3_space_6_space_1_space_23.sbmlRole="species";
  E3_space_6_space_1_space_23.sbmlCompartment="uVol";
  E1_space_17_space_4_space_1.sbmlRole="species";
  E1_space_17_space_4_space_1.sbmlCompartment="uVol";
  E2_space_7_space_4_space_9.sbmlRole="species";
  E2_space_7_space_4_space_9.sbmlCompartment="uVol";
  E2_space_7_space_4_space_14.sbmlRole="species";
  E2_space_7_space_4_space_14.sbmlCompartment="uVol";
  E4_space_1_space_1_space_23.sbmlRole="species";
  E4_space_1_space_1_space_23.sbmlCompartment="uVol";
  E2_space_1_space_1_space_45.sbmlRole="species";
  E2_space_1_space_1_space_45.sbmlCompartment="uVol";
  E3_space_5_space_4_space_12.sbmlRole="species";
  E3_space_5_space_4_space_12.sbmlCompartment="uVol";
  E2_space_7_space_1_space_48.sbmlRole="species";
  E2_space_7_space_1_space_48.sbmlCompartment="uVol";
  E2_space_4_space_2_space_9.sbmlRole="species";
  E2_space_4_space_2_space_9.sbmlCompartment="uVol";
  E3_space_5_space_4_space_5.sbmlRole="species";
  E3_space_5_space_4_space_5.sbmlCompartment="uVol";
  E3_space_5_space_4_space_1.sbmlRole="species";
  E3_space_5_space_4_space_1.sbmlCompartment="uVol";
  E4_space_2_space_1_space_70.sbmlRole="species";
  E4_space_2_space_1_space_70.sbmlCompartment="uVol";
  E3_space_5_space_2_space_2.sbmlRole="species";
  E3_space_5_space_2_space_2.sbmlCompartment="uVol";
  E2_space_1_space_3_space_2.sbmlRole="species";
  E2_space_1_space_3_space_2.sbmlCompartment="uVol";
  E6_space_3_space_5_space_5.sbmlRole="species";
  E6_space_3_space_5_space_5.sbmlCompartment="uVol";
  space_3_minus_Ureidopropionate.sbmlRole="species";
  space_3_minus_Ureidopropionate.sbmlCompartment="uVol";
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