// Created by libAntimony v2.8.0
model *BIOMD0000000105()

  // Compartments and Species:
  compartment cytosol;
  substanceOnly species NatP in cytosol, MisP in cytosol, Ub in cytosol, E1 in cytosol;
  substanceOnly species E2 in cytosol, E3 in cytosol, DUB in cytosol, Proteasome in cytosol;
  substanceOnly species ROS in cytosol, E1_Ub in cytosol, E2_Ub in cytosol;
  substanceOnly species E3_MisP in cytosol, MisP_Ub in cytosol, MisP_Ub2 in cytosol;
  substanceOnly species MisP_Ub3 in cytosol, MisP_Ub4 in cytosol, MisP_Ub5 in cytosol;
  substanceOnly species MisP_Ub6 in cytosol, MisP_Ub7 in cytosol, MisP_Ub8 in cytosol;
  substanceOnly species MisP_Ub4_Proteasome in cytosol, MisP_Ub5_Proteasome in cytosol;
  substanceOnly species MisP_Ub6_Proteasome in cytosol, MisP_Ub7_Proteasome in cytosol;
  substanceOnly species MisP_Ub8_Proteasome in cytosol, $ATP in cytosol, $ADP in cytosol;
  substanceOnly species $AMP in cytosol, $Source in cytosol, degUb4 in cytosol;
  substanceOnly species degUb5 in cytosol, degUb6 in cytosol, degUb7 in cytosol;
  substanceOnly species degUb8 in cytosol, totMisP in cytosol, refNatP in cytosol;
  substanceOnly species AggP in cytosol, SeqAggP in cytosol, AggP_Proteasome in cytosol;

  // Reactions:
  ProteinSynthesis: $Source => NatP; k1*Source;
  Misfolding: NatP + ROS => MisP + ROS + totMisP; k2*NatP*ROS;
  Refolding: MisP => NatP + refNatP; k3*MisP;
  MisPE3Binding: MisP + E3 => E3_MisP; k61*MisP*E3;
  MisPE3Release: E3_MisP => MisP + E3; k61r*E3_MisP;
  E1UbBinding: E1 + Ub + $ATP => E1_Ub + $AMP; (k62*E1*Ub*ATP)/(5000 + ATP);
  E2UbBinding: E2 + E1_Ub => E2_Ub + E1; k63*E2*E1_Ub;
  Monoubiquitination: E2_Ub + E3_MisP => MisP_Ub + E2 + E3; k64*E2_Ub*E3_MisP;
  Polyubiquitination1: MisP_Ub + E2_Ub => MisP_Ub2 + E2; k65*MisP_Ub*E2_Ub;
  Polyubiquitination2: MisP_Ub2 + E2_Ub => MisP_Ub3 + E2; k65*MisP_Ub2*E2_Ub;
  Polyubiquitination3: MisP_Ub3 + E2_Ub => MisP_Ub4 + E2; k65*MisP_Ub3*E2_Ub;
  Polyubiquitination4: MisP_Ub4 + E2_Ub => MisP_Ub5 + E2; k65*MisP_Ub4*E2_Ub;
  Polyubiquitination5: MisP_Ub5 + E2_Ub => MisP_Ub6 + E2; k65*MisP_Ub5*E2_Ub;
  Polyubiquitination6: MisP_Ub6 + E2_Ub => MisP_Ub7 + E2; k65*MisP_Ub6*E2_Ub;
  Polyubiquitination7: MisP_Ub7 + E2_Ub => MisP_Ub8 + E2; k65*MisP_Ub7*E2_Ub;
  Deubiqutination1: MisP_Ub8 + DUB => MisP_Ub7 + DUB + Ub; k66*MisP_Ub8*DUB;
  Deubiqutination2: MisP_Ub7 + DUB => MisP_Ub6 + DUB + Ub; k66*MisP_Ub7*DUB;
  Deubiqutination3: MisP_Ub6 + DUB => MisP_Ub5 + DUB + Ub; k66*MisP_Ub6*DUB;
  Deubiqutination4: MisP_Ub5 + DUB => MisP_Ub4 + DUB + Ub; k66*MisP_Ub5*DUB;
  Deubiqutination5: MisP_Ub4 + DUB => MisP_Ub3 + DUB + Ub; k66*MisP_Ub4*DUB;
  Deubiqutination6: MisP_Ub3 + DUB => MisP_Ub2 + DUB + Ub; k66*MisP_Ub3*DUB;
  Deubiqutination7: MisP_Ub2 + DUB => MisP_Ub + DUB + Ub; k66*MisP_Ub2*DUB;
  Deubiqutination8: MisP_Ub + DUB => MisP + DUB + Ub; k66*MisP_Ub*DUB;
  ProteasomeBinding1: MisP_Ub4 + Proteasome => MisP_Ub4_Proteasome; k67*MisP_Ub4*Proteasome;
  ProteasomeBinding2: MisP_Ub5 + Proteasome => MisP_Ub5_Proteasome; k67*MisP_Ub5*Proteasome;
  ProteasomeBinding3: MisP_Ub6 + Proteasome => MisP_Ub6_Proteasome; k67*MisP_Ub6*Proteasome;
  ProteasomeBinding4: MisP_Ub7 + Proteasome => MisP_Ub7_Proteasome; k67*MisP_Ub7*Proteasome;
  ProteasomeBinding5: MisP_Ub8 + Proteasome => MisP_Ub8_Proteasome; k67*MisP_Ub8*Proteasome;
  DeubiquitinationBoundMisP5: MisP_Ub8_Proteasome + DUB => MisP_Ub7_Proteasome + Ub + DUB; k68*MisP_Ub8_Proteasome*DUB;
  DeubiquitinationBoundMisP4: MisP_Ub7_Proteasome + DUB => MisP_Ub6_Proteasome + Ub + DUB; k68*MisP_Ub7_Proteasome*DUB;
  DeubiquitinationBoundMisP3: MisP_Ub6_Proteasome + DUB => MisP_Ub5_Proteasome + Ub + DUB; k68*MisP_Ub6_Proteasome*DUB;
  DeubiquitinationBoundMisP2: MisP_Ub5_Proteasome + DUB => MisP_Ub4_Proteasome + Ub + DUB; k68*MisP_Ub5_Proteasome*DUB;
  DeubiquitinationBoundMisP1: MisP_Ub4_Proteasome + DUB => MisP_Ub3 + Proteasome + Ub + DUB; k68*MisP_Ub4_Proteasome*DUB;
  ProteasomeActivity1: MisP_Ub4_Proteasome + $ATP => 4Ub + Proteasome + $ADP + degUb4; (k69*MisP_Ub4_Proteasome*ATP)/(5000 + ATP);
  ProteasomeActivity2: MisP_Ub5_Proteasome + $ATP => 5Ub + Proteasome + $ADP + degUb5; (k69*MisP_Ub5_Proteasome*ATP)/(5000 + ATP);
  ProteasomeActivity3: MisP_Ub6_Proteasome + $ATP => 6Ub + Proteasome + $ADP + degUb6; (k69*MisP_Ub6_Proteasome*ATP)/(5000 + ATP);
  ProteasomeActivity4: MisP_Ub7_Proteasome + $ATP => 7Ub + Proteasome + $ADP + degUb7; (k69*MisP_Ub7_Proteasome*ATP)/(5000 + ATP);
  ProteasomeActivity5: MisP_Ub8_Proteasome + $ATP => 8Ub + Proteasome + $ADP + degUb8; (k69*MisP_Ub8_Proteasome*ATP)/(5000 + ATP);
  Aggregation1: 2MisP => AggP; k71*MisP*(MisP - 1)*0.5;
  Aggregation2: MisP + AggP => 2AggP; k71*MisP*AggP;
  Aggregation3: 2MisP_Ub => AggP; k72*MisP_Ub*(MisP_Ub - 1)*0.5;
  Aggregation4: 2MisP_Ub2 => AggP; k72*MisP_Ub2*(MisP_Ub2 - 1)*0.5;
  Aggregation5: 2MisP_Ub3 => AggP; k72*MisP_Ub3*(MisP_Ub3 - 1)*0.5;
  Aggregation6: 2MisP_Ub4 => AggP; k72*MisP_Ub4*(MisP_Ub4 - 1)*0.5;
  Aggregation7: 2MisP_Ub5 => AggP; k72*MisP_Ub5*(MisP_Ub5 - 1)*0.5;
  Aggregation8: 2MisP_Ub6 => AggP; k72*MisP_Ub6*(MisP_Ub6 - 1)*0.5;
  Aggregation9: 2MisP_Ub7 => AggP; k72*MisP_Ub7*(MisP_Ub7 - 1)*0.5;
  Aggregation10: 2MisP_Ub8 => AggP; k72*MisP_Ub8*(MisP_Ub8 - 1)*0.5;
  Aggregation11: MisP_Ub + MisP => AggP; k72*MisP_Ub*MisP;
  Aggregation12: MisP_Ub2 + MisP => AggP; k72*MisP_Ub2*MisP;
  Aggregation13: MisP_Ub3 + MisP => AggP; k72*MisP_Ub3*MisP;
  Aggregation14: MisP_Ub4 + MisP => AggP; k72*MisP_Ub4*MisP;
  Aggregation15: MisP_Ub5 + MisP => AggP; k72*MisP_Ub5*MisP;
  Aggregation16: MisP_Ub6 + MisP => AggP; k72*MisP_Ub6*MisP;
  Aggregation17: MisP_Ub7 + MisP => AggP; k72*MisP_Ub7*MisP;
  Aggregation18: MisP_Ub8 + MisP => AggP; k72*MisP_Ub8*MisP;
  Aggregation19: MisP_Ub + AggP => 2AggP; k72*MisP_Ub*AggP;
  Aggregation20: MisP_Ub2 + AggP => 2AggP; k72*MisP_Ub2*AggP;
  Aggregation21: MisP_Ub3 + AggP => 2AggP; k72*MisP_Ub3*AggP;
  Aggregation22: MisP_Ub4 + AggP => 2AggP; k72*MisP_Ub4*AggP;
  Aggregation23: MisP_Ub5 + AggP => 2AggP; k72*MisP_Ub5*AggP;
  Aggregation24: MisP_Ub6 + AggP => 2AggP; k72*MisP_Ub6*AggP;
  Aggregation25: MisP_Ub7 + AggP => 2AggP; k72*MisP_Ub7*AggP;
  Aggregation26: MisP_Ub8 + AggP => 2AggP; k72*MisP_Ub8*AggP;
  Aggregation27: MisP_Ub + MisP_Ub2 => AggP; k72*MisP_Ub*MisP_Ub2;
  Aggregation28: MisP_Ub + MisP_Ub3 => AggP; k72*MisP_Ub*MisP_Ub3;
  Aggregation29: MisP_Ub + MisP_Ub4 => AggP; k72*MisP_Ub*MisP_Ub4;
  Aggregation30: MisP_Ub + MisP_Ub5 => AggP; k72*MisP_Ub*MisP_Ub5;
  Aggregation31: MisP_Ub + MisP_Ub6 => AggP; k72*MisP_Ub*MisP_Ub6;
  Aggregation32: MisP_Ub + MisP_Ub7 => AggP; k72*MisP_Ub*MisP_Ub7;
  Aggregation33: MisP_Ub + MisP_Ub8 => AggP; k72*MisP_Ub*MisP_Ub8;
  Aggregation34: MisP_Ub2 + MisP_Ub3 => AggP; k72*MisP_Ub2*MisP_Ub3;
  Aggregation35: MisP_Ub2 + MisP_Ub4 => AggP; k72*MisP_Ub2*MisP_Ub4;
  Aggregation36: MisP_Ub2 + MisP_Ub5 => AggP; k72*MisP_Ub2*MisP_Ub5;
  Aggregation37: MisP_Ub2 + MisP_Ub6 => AggP; k72*MisP_Ub2*MisP_Ub6;
  Aggregation38: MisP_Ub2 + MisP_Ub7 => AggP; k72*MisP_Ub2*MisP_Ub7;
  Aggregation39: MisP_Ub2 + MisP_Ub8 => AggP; k72*MisP_Ub2*MisP_Ub8;
  Aggregation40: MisP_Ub3 + MisP_Ub4 => AggP; k72*MisP_Ub3*MisP_Ub4;
  Aggregation41: MisP_Ub3 + MisP_Ub5 => AggP; k72*MisP_Ub3*MisP_Ub5;
  Aggregation42: MisP_Ub3 + MisP_Ub6 => AggP; k72*MisP_Ub3*MisP_Ub6;
  Aggregation43: MisP_Ub3 + MisP_Ub7 => AggP; k72*MisP_Ub3*MisP_Ub7;
  Aggregation44: MisP_Ub3 + MisP_Ub8 => AggP; k72*MisP_Ub3*MisP_Ub8;
  Aggregation45: MisP_Ub4 + MisP_Ub5 => AggP; k72*MisP_Ub4*MisP_Ub5;
  Aggregation46: MisP_Ub4 + MisP_Ub6 => AggP; k72*MisP_Ub4*MisP_Ub6;
  Aggregation47: MisP_Ub4 + MisP_Ub7 => AggP; k72*MisP_Ub4*MisP_Ub7;
  Aggregation48: MisP_Ub4 + MisP_Ub8 => AggP; k72*MisP_Ub4*MisP_Ub8;
  Aggregation49: MisP_Ub5 + MisP_Ub6 => AggP; k72*MisP_Ub5*MisP_Ub6;
  Aggregation50: MisP_Ub5 + MisP_Ub7 => AggP; k72*MisP_Ub5*MisP_Ub7;
  Aggregation51: MisP_Ub5 + MisP_Ub8 => AggP; k72*MisP_Ub5*MisP_Ub8;
  Aggregation52: MisP_Ub6 + MisP_Ub7 => AggP; k72*MisP_Ub6*MisP_Ub7;
  Aggregation53: MisP_Ub6 + MisP_Ub8 => AggP; k72*MisP_Ub6*MisP_Ub8;
  Aggregation54: MisP_Ub7 + MisP_Ub8 => AggP; k72*MisP_Ub7*MisP_Ub8;
  SequesteringOfAggregates: AggP => SeqAggP; k73*AggP;
  ProteasomeInhibtion: AggP + Proteasome => AggP_Proteasome; k74*AggP*Proteasome;

  // Species initializations:
  NatP = 500/cytosol;
  MisP = 0;
  Ub = 500/cytosol;
  E1 = 100/cytosol;
  E2 = 100/cytosol;
  E3 = 100/cytosol;
  DUB = 200/cytosol;
  Proteasome = 100/cytosol;
  ROS = 10/cytosol;
  E1_Ub = 0;
  E2_Ub = 0;
  E3_MisP = 0;
  MisP_Ub = 0;
  MisP_Ub2 = 0;
  MisP_Ub3 = 0;
  MisP_Ub4 = 0;
  MisP_Ub5 = 0;
  MisP_Ub6 = 0;
  MisP_Ub7 = 0;
  MisP_Ub8 = 0;
  MisP_Ub4_Proteasome = 0;
  MisP_Ub5_Proteasome = 0;
  MisP_Ub6_Proteasome = 0;
  MisP_Ub7_Proteasome = 0;
  MisP_Ub8_Proteasome = 0;
  ATP = 10000/cytosol;
  ADP = 1000/cytosol;
  AMP = 1000/cytosol;
  Source = 1/cytosol;
  degUb4 = 0;
  degUb5 = 0;
  degUb6 = 0;
  degUb7 = 0;
  degUb8 = 0;
  totMisP = 0;
  refNatP = 0;
  AggP = 0;
  SeqAggP = 0;
  AggP_Proteasome = 0;

  // Compartment initializations:
  cytosol = 1;

  // Variable initializations:
  k1 = 0.01;
  k2 = 2e-006;
  k3 = 4e-006;
  k61 = 1.7e-005;
  k61r = 0.0002;
  k62 = 0.0002;
  k63 = 0.001;
  k64 = 0.001;
  k65 = 0.01;
  k66 = 1e-005;
  k67 = 1e-005;
  k68 = 1e-005;
  k69 = 0;
  k71 = 1e-008;
  k72 = 1e-008;
  k73 = 0.001;
  k74 = 1e-005;

  // Other declarations:
  const cytosol, k1, k2, k3, k61, k61r, k62, k63, k64, k65, k66, k67, k68;
  const k69, k71, k72, k73, k74;

  // Unit definitions:
  unit substance = item;
end