<?xml version="1.0" encoding="UTF-8"?>
<sbml xmlns="http://www.sbml.org/sbml/level2" level="2" version="1">
  <model id="cell">
    <listOfCompartments>
      <compartment id="uVol" size="1"/>
    </listOfCompartments>
    <listOfSpecies>
      <species id="S0" compartment="uVol" initialAmount="0"/>
      <species id="S1" compartment="uVol" initialAmount="0"/>
      <species id="S2" compartment="uVol" initialAmount="0"/>
      <species id="S3" compartment="uVol" initialAmount="0" boundaryCondition="true"/>
      <species id="S4" compartment="uVol" initialAmount="0" boundaryCondition="true"/>
    </listOfSpecies>
    <listOfReactions>
      <reaction id="J0" reversible="false">
        <listOfReactants>
          <speciesReference species="S1" stoichiometry="0"/>
          <speciesReference species="S2" stoichiometry="0"/>
        </listOfReactants>
        <listOfProducts>
          <speciesReference species="S0"/>
        </listOfProducts>
        <kineticLaw>
          <math xmlns="http://www.w3.org/1998/Math/MathML">
            <apply>
              <plus/>
              <apply>
                <minus/>
                <apply>
                  <divide/>
                  <apply>
                    <times/>
                    <apply>
                      <divide/>
                      <apply>
                        <times/>
                        <ci> alpha </ci>
                        <apply>
                          <power/>
                          <apply>
                            <divide/>
                            <ci> S1 </ci>
                            <ci> thresholdS1 </ci>
                          </apply>
                          <ci> hillS1 </ci>
                        </apply>
                      </apply>
                      <apply>
                        <plus/>
                        <cn type="integer"> 1 </cn>
                        <apply>
                          <power/>
                          <apply>
                            <divide/>
                            <ci> S1 </ci>
                            <ci> thresholdS1 </ci>
                          </apply>
                          <ci> hillS1 </ci>
                        </apply>
                      </apply>
                    </apply>
                    <apply>
                      <power/>
                      <apply>
                        <divide/>
                        <ci> S2 </ci>
                        <ci> thresholdS2 </ci>
                      </apply>
                      <ci> hillS2 </ci>
                    </apply>
                  </apply>
                  <apply>
                    <plus/>
                    <cn type="integer"> 1 </cn>
                    <apply>
                      <power/>
                      <apply>
                        <divide/>
                        <ci> S2 </ci>
                        <ci> thresholdS2 </ci>
                      </apply>
                      <ci> hillS2 </ci>
                    </apply>
                  </apply>
                </apply>
                <apply>
                  <times/>
                  <ci> beta </ci>
                  <ci> S0 </ci>
                </apply>
              </apply>
              <ci> gamma </ci>
            </apply>
          </math>
          <listOfParameters>
            <parameter id="promoter" value="6"/>
            <parameter id="output" value="1"/>
            <parameter id="alpha" value="2.6"/>
            <parameter id="beta" value="1.8"/>
            <parameter id="gamma" value="0"/>
            <parameter id="thresholdS1" value="0.5"/>
            <parameter id="hillS1" value="2"/>
            <parameter id="thresholdS2" value="0.32"/>
            <parameter id="hillS2" value="2.53"/>
          </listOfParameters>
        </kineticLaw>
      </reaction>
      <reaction id="J1" reversible="false">
        <listOfReactants>
          <speciesReference species="S3" stoichiometry="0"/>
        </listOfReactants>
        <listOfProducts>
          <speciesReference species="S1"/>
        </listOfProducts>
        <kineticLaw>
          <math xmlns="http://www.w3.org/1998/Math/MathML">
            <apply>
              <plus/>
              <apply>
                <minus/>
                <apply>
                  <divide/>
                  <apply>
                    <times/>
                    <ci> alpha </ci>
                    <apply>
                      <power/>
                      <apply>
                        <divide/>
                        <ci> S3 </ci>
                        <ci> thresholdS3 </ci>
                      </apply>
                      <ci> hillS3 </ci>
                    </apply>
                  </apply>
                  <apply>
                    <plus/>
                    <cn type="integer"> 1 </cn>
                    <apply>
                      <power/>
                      <apply>
                        <divide/>
                        <ci> S3 </ci>
                        <ci> thresholdS3 </ci>
                      </apply>
                      <ci> hillS3 </ci>
                    </apply>
                  </apply>
                </apply>
                <apply>
                  <times/>
                  <ci> beta </ci>
                  <ci> S1 </ci>
                </apply>
              </apply>
              <ci> gamma </ci>
            </apply>
          </math>
          <listOfParameters>
            <parameter id="promoter" value="2"/>
            <parameter id="alpha" value="2.4"/>
            <parameter id="beta" value="0.501"/>
            <parameter id="gamma" value="0"/>
            <parameter id="thresholdS3" value="1.9"/>
            <parameter id="hillS3" value="2.6"/>
          </listOfParameters>
        </kineticLaw>
      </reaction>
      <reaction id="J2" reversible="false">
        <listOfReactants>
          <speciesReference species="S4" stoichiometry="0"/>
          <speciesReference species="S1" stoichiometry="0"/>
        </listOfReactants>
        <listOfProducts>
          <speciesReference species="S2"/>
        </listOfProducts>
        <kineticLaw>
          <math xmlns="http://www.w3.org/1998/Math/MathML">
            <apply>
              <plus/>
              <apply>
                <minus/>
                <apply>
                  <divide/>
                  <apply>
                    <times/>
                    <apply>
                      <divide/>
                      <apply>
                        <times/>
                        <ci> alpha </ci>
                        <apply>
                          <power/>
                          <apply>
                            <divide/>
                            <ci> S4 </ci>
                            <ci> thresholdS4 </ci>
                          </apply>
                          <ci> hillS4 </ci>
                        </apply>
                      </apply>
                      <apply>
                        <plus/>
                        <cn type="integer"> 1 </cn>
                        <apply>
                          <power/>
                          <apply>
                            <divide/>
                            <ci> S4 </ci>
                            <ci> thresholdS4 </ci>
                          </apply>
                          <ci> hillS4 </ci>
                        </apply>
                      </apply>
                    </apply>
                    <apply>
                      <power/>
                      <apply>
                        <divide/>
                        <ci> S1 </ci>
                        <ci> thresholdS1 </ci>
                      </apply>
                      <ci> hillS1 </ci>
                    </apply>
                  </apply>
                  <apply>
                    <plus/>
                    <cn type="integer"> 1 </cn>
                    <apply>
                      <power/>
                      <apply>
                        <divide/>
                        <ci> S1 </ci>
                        <ci> thresholdS1 </ci>
                      </apply>
                      <ci> hillS1 </ci>
                    </apply>
                  </apply>
                </apply>
                <apply>
                  <times/>
                  <ci> beta </ci>
                  <ci> S2 </ci>
                </apply>
              </apply>
              <ci> gamma </ci>
            </apply>
          </math>
          <listOfParameters>
            <parameter id="promoter" value="6"/>
            <parameter id="alpha" value="2.3"/>
            <parameter id="beta" value="0.876"/>
            <parameter id="gamma" value="0.003"/>
            <parameter id="thresholdS1" value="0.01"/>
            <parameter id="hillS1" value="1.56"/>
            <parameter id="thresholdS4" value="0.5"/>
            <parameter id="hillS4" value="2"/>
          </listOfParameters>
        </kineticLaw>
      </reaction>
    </listOfReactions>
  </model>
</sbml>

