def model caduptake_v3 as
   def unit per_s from
      unit second {expo: -1};
   enddef;

   def unit femtoliter from
      unit liter {pref: femto};
   enddef;

   def unit perfemto from
      unit dimensionless {pref: femto, expo: -1};
   enddef;

   def unit M from
      unit mole;
      unit liter {expo: -1};
   enddef;

   def unit nM from
      unit M {pref: nano};
   enddef;

   def unit nanos from
      unit dimensionless {pref: nano};
   enddef;

   def unit nM_per_s from
      unit nM;
      unit per_s;
   enddef;

   def unit per_mole from
      unit mole {expo: -1};
   enddef;

   def unit PoPs from
      unit second {expo: -1};
   enddef;

   def unit RiPs from
      unit second {expo: -1};
   enddef;

   def unit RiPs_In_AttoMoles from
      unit mole {pref: atto};
      unit second {expo: -1};
   enddef;

   def unit attos_per_nano from
      unit dimensionless;
   enddef;

   def unit nanos_per_milli from
      unit mole {pref: nano};
      unit mole {pref: milli, expo: -1};
   enddef;

   def unit per_nM_per_s from
      unit per_nM;
      unit per_s;
   enddef;

   def unit per_nM from
      unit nM {expo: -1};
   enddef;

   def comp Chassis_Bacillus as
      var cellVolume: femtoliter {init: 1, pub: out};
   enddef;

   def comp Time as
      var time: second {pub: out};
   enddef;

   def comp Cadmium_outside as
      var concentration: nM {init: 1000, pub: out};
   enddef;

   def comp Cadmium_inside as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp Cadmium_inside_interface as
      var Jfrom_ArsR_Sensor: nM_per_s {pub: in};
      var Jfrom_CzrA_Sensor: nM_per_s {pub: in};
      var Jfrom_MntH_influx: nM_per_s {pub: in};
      var Jfrom_CadA_efflux: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};

      Jtotal = Jfrom_MntH_influx-Jfrom_CadA_efflux-Jfrom_CzrA_Sensor-Jfrom_ArsR_Sensor;
   enddef;

   def comp gutR_activitor as
      var concentration: nM {init: 0, pub: out};
   enddef;

   def comp Promoter_of_mntH as
      var localVolume: femtoliter {pub: in};
      var k: PoPs {init: 0.04};
      var k1: PoPs {init: 0.0001};
      var JRNA: nM_per_s {pub: out};
      var avogadrosConstant: per_mole {init: 6.0221415e23};
      var Protein1: nM {pub: in};
      var Km: nM {init: 320};
      var n: dimensionless {init: 2};

      JRNA = k1*1e9{nanos}/(localVolume*1e-15{perfemto}*avogadrosConstant)+k*1e9{nanos}/(localVolume*1e-15{perfemto}*avogadrosConstant)*pow(Protein1, n)/(pow(Km, n)+pow(Protein1, n));
   enddef;

   def comp mntH_RNA_interface as
      var JfromPromoter: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};
      var Jdegradation: nM_per_s {pub: in};

      Jtotal = JfromPromoter-Jdegradation;
   enddef;

   def comp mntH_RNA as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp mntH_RNA_Degradation as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0058};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp RBS_mntH as
      var RNA: nM {pub: in};
      var RNARiPs: RiPs_In_AttoMoles {pub: out};
      var k: RiPs {init: 0.1818};
      var localVolume: femtoliter {pub: in};

      RNARiPs = 1e9{attos_per_nano}*k*RNA*localVolume*1e-15{perfemto};
   enddef;

   def comp CDS_mntH as
      var localVolume: femtoliter {pub: in};
      var hostRNARiPs: RiPs_In_AttoMoles {pub: in};
      var J: nM_per_s {pub: out};

      J = 1e6{nanos_per_milli}*hostRNARiPs/localVolume;
   enddef;

   def comp mntH_Protein_interface as
      var Jproduction: nM_per_s {pub: in};
      var Jdegradation: nM_per_s {pub: in};
      var Jfrom_Cad_mntH_complex: nM_per_s {pub: in};
      var Jfrom_Cad_mntH_influx: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};

      Jtotal = Jproduction-Jdegradation-Jfrom_Cad_mntH_complex+Jfrom_Cad_mntH_influx;
   enddef;

   def comp Degradation_mntH_Protein as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0012};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp mntH_Protein as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp Cad_mntH_influx_interface as
      var JTotal: nM_per_s {pub: out};
      var production: nM {pub: in};
      var kf: per_s {init: 0.001};

      JTotal = kf*production;
   enddef;

   def comp Cad_mntH_complex as
      var concentration: nM {init: 0, pub: out};
      var time: second {pub: in};
      var Kf: per_nM_per_s {init: 0.001};
      var J: nM_per_s {pub: out};
      var reactant1: nM {pub: in};
      var reactant2: nM {pub: in};

      J = reactant1*reactant2*Kf;
      ode(concentration, time) = J;
   enddef;

   def comp Promoter_of_arsR as
      var localVolume: femtoliter {pub: in};
      var k: PoPs {init: 0.04};
      var JRNA: nM_per_s {pub: out};
      var Km: nM {init: 320};
      var avogadrosConstant: per_mole {init: 6.0221415e23};
      var n: dimensionless {init: 2};
      var ArsR_concentration: nM {pub: in};

      JRNA = k*1e9{nanos}/(localVolume*1e-15{perfemto}*avogadrosConstant)*pow(Km, n)/(pow(Km, n)+pow(ArsR_concentration, n));
   enddef;

   def comp arsR_RNA_interface as
      var JfromPromoter: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};
      var Jdegradation: nM_per_s {pub: in};

      Jtotal = JfromPromoter-Jdegradation;
   enddef;

   def comp arsR_RNA as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp arsR_RNA_Degradation as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0058};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp RBS_arsR as
      var RNA: nM {pub: in};
      var RNARiPs: RiPs_In_AttoMoles {pub: out};
      var k: RiPs {init: 0.1818};
      var localVolume: femtoliter {pub: in};

      RNARiPs = 1e9{attos_per_nano}*k*RNA*localVolume*1e-15{perfemto};
   enddef;

   def comp CDS_arsR as
      var localVolume: femtoliter {pub: in};
      var hostRNARiPs: RiPs_In_AttoMoles {pub: in};
      var J: nM_per_s {pub: out};

      J = 1e6{nanos_per_milli}*hostRNARiPs/localVolume;
   enddef;

   def comp arsR_Protein_interface as
      var Jproduction: nM_per_s {pub: in};
      var Jdegradation: nM_per_s {pub: in};
      var JNetDrain_from_ProteinActivation: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};

      Jtotal = Jproduction-Jdegradation-JNetDrain_from_ProteinActivation;
   enddef;

   def comp Degradation_arsR_Protein as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0012};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp arsR_Protein as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp Cad_arsR_Protein_Sense as
      var J: nM_per_s {pub: out};
      var reactant1: nM {pub: in};
      var reactant2: nM {pub: in};
      var kf: per_nM_per_s {init: 0.0001};
      var kb: per_s {init: 0.1};
      var product: nM {pub: in};

      J = reactant1*reactant2*kf-kb*product;
   enddef;

   def comp Cad_arsR_Protein_Sensor as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp Cad_arsR_Protein_Sensor_interface as
      var JFromActivation: nM_per_s {pub: in};
      var Jdegradation: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};

      Jtotal = JFromActivation-Jdegradation;
   enddef;

   def comp Degradation_of_Cad_arsR_Protein_Sensor as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0012};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp Promoter_of_czrA as
      var localVolume: femtoliter {pub: in};
      var k: PoPs {init: 0.04};
      var JRNA: nM_per_s {pub: out};
      var Km: nM {init: 320};
      var avogadrosConstant: per_mole {init: 6.0221415e23};
      var n: dimensionless {init: 2};
      var CzrA_concentration: nM {pub: in};

      JRNA = k*1e9{nanos}/(localVolume*1e-15{perfemto}*avogadrosConstant)*pow(Km, n)/(pow(Km, n)+pow(CzrA_concentration, n));
   enddef;

   def comp czrA_RNA_interface as
      var JfromPromoter: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};
      var Jdegradation: nM_per_s {pub: in};

      Jtotal = JfromPromoter-Jdegradation;
   enddef;

   def comp czrA_RNA as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp czrA_RNA_Degradation as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0058};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp RBS_czrA as
      var RNA: nM {pub: in};
      var RNARiPs: RiPs_In_AttoMoles {pub: out};
      var k: RiPs {init: 0.1818};
      var localVolume: femtoliter {pub: in};

      RNARiPs = 1e9{attos_per_nano}*k*RNA*localVolume*1e-15{perfemto};
   enddef;

   def comp CDS_czrA as
      var localVolume: femtoliter {pub: in};
      var hostRNARiPs: RiPs_In_AttoMoles {pub: in};
      var J: nM_per_s {pub: out};

      J = 1e6{nanos_per_milli}*hostRNARiPs/localVolume;
   enddef;

   def comp czrA_Protein_interface as
      var Jproduction: nM_per_s {pub: in};
      var Jdegradation: nM_per_s {pub: in};
      var JNetDrain_from_ProteinActivation: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};

      Jtotal = Jproduction-Jdegradation-JNetDrain_from_ProteinActivation;
   enddef;

   def comp Degradation_czrA_Protein as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0012};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp czrA_Protein as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp Cad_czrA_Protein_Sense as
      var J: nM_per_s {pub: out};
      var reactant1: nM {pub: in};
      var reactant2: nM {pub: in};
      var kf: per_nM_per_s {init: 0.0001};
      var kb: per_s {init: 0.1};
      var product: nM {pub: in};

      J = reactant1*reactant2*kf-kb*product;
   enddef;

   def comp Cad_czrA_Protein_Sensor as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp Cad_czrA_Protein_Sensor_interface as
      var JFromActivation: nM_per_s {pub: in};
      var Jdegradation: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};

      Jtotal = JFromActivation-Jdegradation;
   enddef;

   def comp Degradation_of_Cad_czrA_Protein_Sensor as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0012};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp CI_mRNA as
      var time: second {pub: in};
      var k: nM_per_s {init: 0.2};
      var gamma_1: per_s {init: 0.0058};
      var CI_mRNA: nM {init: 0, pub: out};
      var ArsR: nM {pub: in};
      var CzrA: nM {pub: in};
      var Km: nM {init: 300};
      var n: dimensionless {init: 2};

      ode(CI_mRNA, time) = k*1.4{dimensionless}*pow(Km, n)/(pow(Km, n)+pow(ArsR, n))*pow(Km, n)/(pow(Km, n)+pow(CzrA, n))-gamma_1*CI_mRNA;
   enddef;

   def comp CI_Interface as
      var JTotal: nM_per_s {pub: out};
      var CI_mRNA: nM {pub: in};
      var JDegradation: nM_per_s {pub: in};
      var lambda: per_s {init: 0.2};

      JTotal = lambda*CI_mRNA-JDegradation;
   enddef;

   def comp CI_Degradation as
      var gamma: per_s {init: 0.0012};
      var CI: nM {pub: in};
      var JDegradation: nM_per_s {pub: out};

      JDegradation = gamma*CI;
   enddef;

   def comp CI as
      var time: second {pub: in};
      var JTotal: nM_per_s {pub: in};
      var CI: nM {init: 0, pub: out};

      ode(CI, time) = JTotal;
   enddef;

   def comp Promoter_of_tf2 as
      var localVolume: femtoliter {pub: in};
      var k: PoPs {init: 0};
      var JRNA: nM_per_s {pub: out};
      var avogadrosConstant: per_mole {init: 6.0221415e23};

      JRNA = k*1e9{nanos}/(localVolume*1e-15{perfemto}*avogadrosConstant);
   enddef;

   def comp tf2_RNA_interface as
      var JfromPromoter: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};
      var Jdegradation: nM_per_s {pub: in};

      Jtotal = JfromPromoter-Jdegradation;
   enddef;

   def comp tf2_RNA as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp tf2_RNA_Degradation as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0058};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp RBS_tf2 as
      var RNA: nM {pub: in};
      var RNARiPs: RiPs_In_AttoMoles {pub: out};
      var k: RiPs {init: 0.1818};
      var localVolume: femtoliter {pub: in};

      RNARiPs = 1e9{attos_per_nano}*k*RNA*localVolume*1e-15{perfemto};
   enddef;

   def comp CDS_tf2 as
      var localVolume: femtoliter {pub: in};
      var hostRNARiPs: RiPs_In_AttoMoles {pub: in};
      var J: nM_per_s {pub: out};

      J = 1e6{nanos_per_milli}*hostRNARiPs/localVolume;
   enddef;

   def comp tf2_Protein_interface as
      var Jproduction: nM_per_s {pub: in};
      var Jdegradation: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};

      Jtotal = Jproduction-Jdegradation;
   enddef;

   def comp Degradation_tf2_Protein as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0012};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp tf2_Protein as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp Promoter_of_cadA as
      var localVolume: femtoliter {pub: in};
      var k: PoPs {init: 0.04};
      var JRNA: nM_per_s {pub: out};
      var avogadrosConstant: per_mole {init: 6.0221415e23};
      var Protein1: nM {pub: in};
      var Protein2: nM {pub: in};
      var protein3: nM {pub: in};
      var Km: nM {init: 320};
      var K1: PoPs {init: 0.0001};
      var n: dimensionless {init: 2};

      JRNA = K1*1e9{nanos}/(localVolume*1e-15{perfemto}*avogadrosConstant)+k*1e9{nanos}/(localVolume*1e-15{perfemto}*avogadrosConstant)*pow(Km, n)/(pow(Km, n)+pow(Protein1, n))*pow(Km, n)/(pow(Km, n)+pow(Protein2, n))*pow(Km, n)/(pow(Km, n)+pow(protein3, n));
   enddef;

   def comp cadA_RNA_interface as
      var JfromPromoter: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};
      var Jdegradation: nM_per_s {pub: in};

      Jtotal = JfromPromoter-Jdegradation;
   enddef;

   def comp cadA_RNA as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp cadA_RNA_Degradation as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0058};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp RBS_cadA as
      var RNA: nM {pub: in};
      var RNARiPs: RiPs_In_AttoMoles {pub: out};
      var k: RiPs {init: 0.1818};
      var localVolume: femtoliter {pub: in};

      RNARiPs = 1e9{attos_per_nano}*k*RNA*localVolume*1e-15{perfemto};
   enddef;

   def comp CDS_cadA as
      var localVolume: femtoliter {pub: in};
      var hostRNARiPs: RiPs_In_AttoMoles {pub: in};
      var J: nM_per_s {pub: out};

      J = 1e6{nanos_per_milli}*hostRNARiPs/localVolume;
   enddef;

   def comp cadA_Protein_interface as
      var Jproduction: nM_per_s {pub: in};
      var Jdegradation: nM_per_s {pub: in};
      var Jfrom_Cad_cadA_complex: nM_per_s {pub: in};
      var Jfrom_Cad_cadA_efflux: nM_per_s {pub: in};
      var Jtotal: nM_per_s {pub: out};

      Jtotal = Jproduction-Jdegradation-Jfrom_Cad_cadA_complex+Jfrom_Cad_cadA_efflux;
   enddef;

   def comp Degradation_cadA_Protein as
      var concentration: nM {pub: in};
      var kDecay: per_s {init: 0.0012};
      var J: nM_per_s {pub: out};

      J = kDecay*concentration;
   enddef;

   def comp cadA_Protein as
      var time: second {pub: in};
      var concentration: nM {init: 0, pub: out};
      var JGain: nM_per_s {pub: in};

      ode(concentration, time) = JGain;
   enddef;

   def comp Cad_cadA_efflux_interface as
      var J: nM_per_s {pub: out};
      var production: nM {pub: in};
      var kf: per_s {init: 0.04};

      J = kf*production;
   enddef;

   def comp Cad_cadA_complex as
      var J: nM_per_s {pub: out};
      var reactant1: nM {pub: in};
      var reactant2: nM {pub: in};
      var production: nM {init: 0, pub: out};
      var kf: per_nM_per_s {init: 0.04};

      J = reactant1*reactant2*kf;
   enddef;

   def map between Chassis_Bacillus and Promoter_of_mntH for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and RBS_mntH for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and CDS_mntH for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and Promoter_of_arsR for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and RBS_arsR for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and CDS_arsR for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and Promoter_of_czrA for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and RBS_czrA for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and CDS_czrA for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and Promoter_of_cadA for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and RBS_cadA for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and CDS_cadA for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and Promoter_of_tf2 for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and RBS_tf2 for
      vars cellVolume and localVolume;
   enddef;

   def map between Chassis_Bacillus and CDS_tf2 for
      vars cellVolume and localVolume;
   enddef;

   def map between Time and Cadmium_inside for
      vars time and time;
   enddef;

   def map between Cadmium_inside and Cadmium_inside_interface for
      vars JGain and Jtotal;
   enddef;

   def map between Cad_arsR_Protein_Sensor_interface and Cadmium_inside_interface for
      vars Jtotal and Jfrom_ArsR_Sensor;
   enddef;

   def map between Cad_czrA_Protein_Sensor_interface and Cadmium_inside_interface for
      vars Jtotal and Jfrom_CzrA_Sensor;
   enddef;

   def map between Cad_mntH_influx_interface and Cadmium_inside_interface for
      vars JTotal and Jfrom_MntH_influx;
   enddef;

   def map between Cad_cadA_efflux_interface and Cadmium_inside_interface for
      vars J and Jfrom_CadA_efflux;
   enddef;

   def map between gutR_activitor and Promoter_of_mntH for
      vars concentration and Protein1;
   enddef;

   def map between Time and mntH_RNA for
      vars time and time;
   enddef;

   def map between mntH_RNA and RBS_mntH for
      vars concentration and RNA;
   enddef;

   def map between mntH_RNA_interface and mntH_RNA for
      vars Jtotal and JGain;
   enddef;

   def map between mntH_RNA and mntH_RNA_Degradation for
      vars concentration and concentration;
   enddef;

   def map between Promoter_of_mntH and mntH_RNA_interface for
      vars JRNA and JfromPromoter;
   enddef;

   def map between mntH_RNA_Degradation and mntH_RNA_interface for
      vars J and Jdegradation;
   enddef;

   def map between RBS_mntH and CDS_mntH for
      vars RNARiPs and hostRNARiPs;
   enddef;

   def map between Time and mntH_Protein for
      vars time and time;
   enddef;

   def map between mntH_Protein_interface and mntH_Protein for
      vars Jtotal and JGain;
   enddef;

   def map between mntH_Protein and Degradation_mntH_Protein for
      vars concentration and concentration;
   enddef;

   def map between CDS_mntH and mntH_Protein_interface for
      vars J and Jproduction;
   enddef;

   def map between Degradation_mntH_Protein and mntH_Protein_interface for
      vars J and Jdegradation;
   enddef;

   def map between Cad_mntH_complex and mntH_Protein_interface for
      vars J and Jfrom_Cad_mntH_complex;
   enddef;

   def map between Cad_mntH_influx_interface and mntH_Protein_interface for
      vars JTotal and Jfrom_Cad_mntH_influx;
   enddef;

   def map between Time and Cad_mntH_complex for
      vars time and time;
   enddef;

   def map between mntH_Protein and Cad_mntH_complex for
      vars concentration and reactant2;
   enddef;

   def map between Cadmium_outside and Cad_mntH_complex for
      vars concentration and reactant1;
   enddef;

   def map between Cad_mntH_complex and Cad_mntH_influx_interface for
      vars concentration and production;
   enddef;

   def map between arsR_Protein and Promoter_of_arsR for
      vars concentration and ArsR_concentration;
   enddef;

   def map between Time and arsR_RNA for
      vars time and time;
   enddef;

   def map between arsR_RNA and RBS_arsR for
      vars concentration and RNA;
   enddef;

   def map between arsR_RNA_interface and arsR_RNA for
      vars Jtotal and JGain;
   enddef;

   def map between arsR_RNA and arsR_RNA_Degradation for
      vars concentration and concentration;
   enddef;

   def map between arsR_RNA_Degradation and arsR_RNA_interface for
      vars J and Jdegradation;
   enddef;

   def map between Promoter_of_arsR and arsR_RNA_interface for
      vars JRNA and JfromPromoter;
   enddef;

   def map between RBS_arsR and CDS_arsR for
      vars RNARiPs and hostRNARiPs;
   enddef;

   def map between CDS_arsR and arsR_Protein_interface for
      vars J and Jproduction;
   enddef;

   def map between arsR_Protein_interface and arsR_Protein for
      vars Jtotal and JGain;
   enddef;

   def map between arsR_Protein and Degradation_arsR_Protein for
      vars concentration and concentration;
   enddef;

   def map between Degradation_arsR_Protein and arsR_Protein_interface for
      vars J and Jdegradation;
   enddef;

   def map between Time and arsR_Protein for
      vars time and time;
   enddef;

   def map between Cad_arsR_Protein_Sense and arsR_Protein_interface for
      vars J and JNetDrain_from_ProteinActivation;
   enddef;

   def map between Cad_arsR_Protein_Sense and Cad_arsR_Protein_Sensor_interface for
      vars J and JFromActivation;
   enddef;

   def map between Cadmium_inside and Cad_arsR_Protein_Sense for
      vars concentration and reactant1;
   enddef;

   def map between arsR_Protein and Cad_arsR_Protein_Sense for
      vars concentration and reactant2;
   enddef;

   def map between Cad_arsR_Protein_Sensor and Cad_arsR_Protein_Sense for
      vars concentration and product;
   enddef;

   def map between Cad_arsR_Protein_Sensor and Degradation_of_Cad_arsR_Protein_Sensor for
      vars concentration and concentration;
   enddef;

   def map between Time and Cad_arsR_Protein_Sensor for
      vars time and time;
   enddef;

   def map between Cad_arsR_Protein_Sensor_interface and Cad_arsR_Protein_Sensor for
      vars Jtotal and JGain;
   enddef;

   def map between Degradation_of_Cad_arsR_Protein_Sensor and Cad_arsR_Protein_Sensor_interface for
      vars J and Jdegradation;
   enddef;

   def map between czrA_Protein and Promoter_of_czrA for
      vars concentration and CzrA_concentration;
   enddef;

   def map between Time and czrA_RNA for
      vars time and time;
   enddef;

   def map between czrA_RNA and RBS_czrA for
      vars concentration and RNA;
   enddef;

   def map between czrA_RNA_interface and czrA_RNA for
      vars Jtotal and JGain;
   enddef;

   def map between czrA_RNA and czrA_RNA_Degradation for
      vars concentration and concentration;
   enddef;

   def map between czrA_RNA_Degradation and czrA_RNA_interface for
      vars J and Jdegradation;
   enddef;

   def map between Promoter_of_czrA and czrA_RNA_interface for
      vars JRNA and JfromPromoter;
   enddef;

   def map between RBS_czrA and CDS_czrA for
      vars RNARiPs and hostRNARiPs;
   enddef;

   def map between czrA_Protein_interface and czrA_Protein for
      vars Jtotal and JGain;
   enddef;

   def map between czrA_Protein and Degradation_czrA_Protein for
      vars concentration and concentration;
   enddef;

   def map between CDS_czrA and czrA_Protein_interface for
      vars J and Jproduction;
   enddef;

   def map between Degradation_czrA_Protein and czrA_Protein_interface for
      vars J and Jdegradation;
   enddef;

   def map between Cad_cadA_complex and cadA_Protein_interface for
      vars J and Jfrom_Cad_cadA_complex;
   enddef;

   def map between Cad_cadA_efflux_interface and cadA_Protein_interface for
      vars J and Jfrom_Cad_cadA_efflux;
   enddef;

   def map between Time and czrA_Protein for
      vars time and time;
   enddef;

   def map between Cad_czrA_Protein_Sense and czrA_Protein_interface for
      vars J and JNetDrain_from_ProteinActivation;
   enddef;

   def map between Cad_czrA_Protein_Sense and Cad_czrA_Protein_Sensor_interface for
      vars J and JFromActivation;
   enddef;

   def map between Cadmium_inside and Cad_czrA_Protein_Sense for
      vars concentration and reactant1;
   enddef;

   def map between czrA_Protein and Cad_czrA_Protein_Sense for
      vars concentration and reactant2;
   enddef;

   def map between Cad_czrA_Protein_Sensor and Cad_czrA_Protein_Sense for
      vars concentration and product;
   enddef;

   def map between Cad_czrA_Protein_Sensor and Degradation_of_Cad_czrA_Protein_Sensor for
      vars concentration and concentration;
   enddef;

   def map between Time and Cad_czrA_Protein_Sensor for
      vars time and time;
   enddef;

   def map between Cad_czrA_Protein_Sensor_interface and Cad_czrA_Protein_Sensor for
      vars Jtotal and JGain;
   enddef;

   def map between Degradation_of_Cad_czrA_Protein_Sensor and Cad_czrA_Protein_Sensor_interface for
      vars J and Jdegradation;
   enddef;

   def map between Time and CI_mRNA for
      vars time and time;
   enddef;

   def map between arsR_Protein and CI_mRNA for
      vars concentration and ArsR;
   enddef;

   def map between czrA_Protein and CI_mRNA for
      vars concentration and CzrA;
   enddef;

   def map between CI_mRNA and CI_Interface for
      vars CI_mRNA and CI_mRNA;
   enddef;

   def map between CI_Degradation and CI_Interface for
      vars JDegradation and JDegradation;
   enddef;

   def map between CI_Degradation and CI for
      vars CI and CI;
   enddef;

   def map between Time and CI for
      vars time and time;
   enddef;

   def map between CI_Interface and CI for
      vars JTotal and JTotal;
   enddef;

   def map between Time and tf2_RNA for
      vars time and time;
   enddef;

   def map between tf2_RNA and RBS_tf2 for
      vars concentration and RNA;
   enddef;

   def map between tf2_RNA_interface and tf2_RNA for
      vars Jtotal and JGain;
   enddef;

   def map between tf2_RNA and tf2_RNA_Degradation for
      vars concentration and concentration;
   enddef;

   def map between tf2_RNA_Degradation and tf2_RNA_interface for
      vars J and Jdegradation;
   enddef;

   def map between Promoter_of_tf2 and tf2_RNA_interface for
      vars JRNA and JfromPromoter;
   enddef;

   def map between RBS_tf2 and CDS_tf2 for
      vars RNARiPs and hostRNARiPs;
   enddef;

   def map between CDS_tf2 and tf2_Protein_interface for
      vars J and Jproduction;
   enddef;

   def map between tf2_Protein_interface and tf2_Protein for
      vars Jtotal and JGain;
   enddef;

   def map between tf2_Protein and Degradation_tf2_Protein for
      vars concentration and concentration;
   enddef;

   def map between Degradation_tf2_Protein and tf2_Protein_interface for
      vars J and Jdegradation;
   enddef;

   def map between Time and tf2_Protein for
      vars time and time;
   enddef;

   def map between tf2_Protein and Promoter_of_cadA for
      vars concentration and protein3;
   enddef;

   def map between Time and cadA_RNA for
      vars time and time;
   enddef;

   def map between Promoter_of_cadA and cadA_RNA_interface for
      vars JRNA and JfromPromoter;
   enddef;

   def map between cadA_RNA and RBS_cadA for
      vars concentration and RNA;
   enddef;

   def map between cadA_RNA_interface and cadA_RNA for
      vars Jtotal and JGain;
   enddef;

   def map between cadA_RNA and cadA_RNA_Degradation for
      vars concentration and concentration;
   enddef;

   def map between cadA_RNA_Degradation and cadA_RNA_interface for
      vars J and Jdegradation;
   enddef;

   def map between Cad_czrA_Protein_Sensor and Promoter_of_cadA for
      vars concentration and Protein1;
   enddef;

   def map between Cad_arsR_Protein_Sensor and Promoter_of_cadA for
      vars concentration and Protein2;
   enddef;

   def map between RBS_cadA and CDS_cadA for
      vars RNARiPs and hostRNARiPs;
   enddef;

   def map between CDS_cadA and cadA_Protein_interface for
      vars J and Jproduction;
   enddef;

   def map between cadA_Protein_interface and cadA_Protein for
      vars Jtotal and JGain;
   enddef;

   def map between cadA_Protein and Degradation_cadA_Protein for
      vars concentration and concentration;
   enddef;

   def map between Degradation_cadA_Protein and cadA_Protein_interface for
      vars J and Jdegradation;
   enddef;

   def map between Time and cadA_Protein for
      vars time and time;
   enddef;

   def map between Cadmium_inside and Cad_cadA_complex for
      vars concentration and reactant1;
   enddef;

   def map between cadA_Protein and Cad_cadA_complex for
      vars concentration and reactant2;
   enddef;

   def map between Cad_cadA_complex and Cad_cadA_efflux_interface for
      vars production and production;
   enddef;
enddef;