// Created by libAntimony v2.13.0
function function_for_modified_reaction_1(NFAT_phosphorylated, k1, stimulus)
  k1*stimulus*NFAT_phosphorylated;
end

function_for_modified_reaction_1 is "function for modified reaction_1"

function function_for_modified_reaction_0(k1, stimulus, substrate)
  k1*stimulus*substrate;
end

function_for_modified_reaction_0 is "function for modified reaction"


model *Tomida2003___NFAT_functions_Calcium_Oscillation()

  // Compartments and Species:
  compartment Jurkat_cell;
  species NFAT_phosphorylated in Jurkat_cell, NFAT_dephosphorylated in Jurkat_cell;
  species $NFAT_transported in Jurkat_cell, $stimulus in Jurkat_cell;

  // Assignment Rules:
  NFAT_transported := 1 - NFAT_phosphorylated - NFAT_dephosphorylated;
  stimulus := piecewise(1, (time - floor(time/ModelValue_13)*ModelValue_13) < ModelValue_17, 0);
  dNFAT := 100*NFAT_dephosphorylated;
  pNFAT := 100*NFAT_phosphorylated;
  tNFAT := 100*NFAT_transported;

  // Reactions:
  Dephosphorylation: NFAT_phosphorylated => NFAT_dephosphorylated; Jurkat_cell*function_for_modified_reaction_1(NFAT_phosphorylated, k1, stimulus);
  Phosphorylation: NFAT_dephosphorylated => NFAT_phosphorylated; Jurkat_cell*k2*NFAT_dephosphorylated;
  Translocation: NFAT_dephosphorylated => $NFAT_transported; Jurkat_cell*k3*NFAT_dephosphorylated;
  Nuclear_export: $NFAT_transported => NFAT_phosphorylated; Jurkat_cell*k4*NFAT_transported;

  // Species initializations:
  NFAT_phosphorylated = 1;
  NFAT_dephosphorylated = 0;

  // Compartment initializations:
  Jurkat_cell = 1;

  // Variable initializations:
  ModelValue_13 = stim_frequency;
  ModelValue_17 = stim_duration;
  k1 = 0.359;
  k2 = 0.147;
  k3 = 0.06;
  k4 = 0.035;
  stim_frequency = 3;
  stim_duration = 1;

  // Other declarations:
  var dNFAT, pNFAT, tNFAT;
  const Jurkat_cell, ModelValue_13, ModelValue_17, k1, k2, k3, k4, stim_frequency;
  const stim_duration;

  // Unit definitions:
  unit volume = 1e-3 litre;
  unit substance = 1e-3 mole;

  // Display Names:
  Jurkat_cell is "Jurkat cell";
  ModelValue_13 is "Initial for stim_frequency";
  ModelValue_17 is "Initial for stim_duration";
  dNFAT is "dNFAT%";
  pNFAT is "pNFAT%";
  tNFAT is "tNFAT%";

  // CV terms:
  Jurkat_cell hypernym "http://identifiers.org/bto/BTO:0000661"
  NFAT_phosphorylated hypernym "http://identifiers.org/pr/PR:000003112"
  NFAT_phosphorylated hypernym "http://identifiers.org/uniprot/Q12968"
  NFAT_dephosphorylated hypernym "http://identifiers.org/pr/PR:000003112"
  NFAT_dephosphorylated hypernym "http://identifiers.org/uniprot/Q12968"
  NFAT_transported hypernym "http://identifiers.org/uniprot/Q12968"
  NFAT_transported container "http://identifiers.org/go/GO:0005634"
  NFAT_transported hypernym "http://identifiers.org/pr/PR:000003112"
  stimulus hypernym "http://identifiers.org/ncit/C41210"
  Dephosphorylation encoder "http://identifiers.org/ncit/C17275"
  Dephosphorylation hypernym "urn:miriam:sbo:SBO%3A0000330"
  Dephosphorylation encoder "http://identifiers.org/chebi/CHEBI:53439"
  Dephosphorylation hypernym "http://identifiers.org/go/GO:0016311"
  Phosphorylation hypernym "http://identifiers.org/go/GO:0016310"
  Translocation hypernym "http://identifiers.org/go/GO:0051531"
  Nuclear_export hypernym "http://identifiers.org/go/GO:0051168"
end

Tomida2003___NFAT_functions_Calcium_Oscillation is "Tomida2003 - Calcium Oscillatory-induced translocation of nuclear factor of activated T cells"

Tomida2003___NFAT_functions_Calcium_Oscillation model_entity_is "http://identifiers.org/biomodels.db/MODEL0912160005"
Tomida2003___NFAT_functions_Calcium_Oscillation model_entity_is "http://identifiers.org/biomodels.db/BIOMD0000000678"
Tomida2003___NFAT_functions_Calcium_Oscillation description "http://identifiers.org/pubmed/12881417"
Tomida2003___NFAT_functions_Calcium_Oscillation model_entity_is "http://identifiers.org/biomodels.db/MODEL0912160005"
Tomida2003___NFAT_functions_Calcium_Oscillation hypernym "http://identifiers.org/go/GO:0033173"
Tomida2003___NFAT_functions_Calcium_Oscillation container "http://identifiers.org/bto/BTO:0000661"
Tomida2003___NFAT_functions_Calcium_Oscillation taxon "http://identifiers.org/taxonomy/9606"
Tomida2003___NFAT_functions_Calcium_Oscillation description "http://identifiers.org/pubmed/12881417"
