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   <model id = "SODoverExpression">
      <notes>
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               <p>
                     This model aims to reproduce the negative effects of overexpressing SOD seen in
               </p>
               <p>
                     Zintel et al. 2010 (PMID 20080171).
               </p>
               <p>
                     It is created as part of the GerontoMitoSys project and based on the Bachelor work of Sebastian Ullrich.
               </p>
               <p>
                     Modifications after the Bachelor by Axel Kowald (Axel.Kowald@hu-berlin.de):
               </p>
               <p>
                     05.06.2011 Added non-enzymatic dismutation reaction for superoxide.
               </p>
               <p>
                     13.04.2011 Moved paraquat inside compartment and made reaction unidirectional.
               </p>
               <p>
                     Currently PRX degradation is first order,
               </p>
               <p>
                     while PRXox degradation is second order reaction!
               </p>
               <p>
                     Maybe both have to be 2nd order.
               </p>
               <p>
                     Vmax in M/s from Forquet 85 (PMID 18498222) H2O2detox
               </p>
               <p>
                     Vmax in M/s for MnSOD from Crosti 85 (PMID 2931296)O2detox
               </p>
               <p>
                     Degradation of oxidized proteins is second order, while degradation
               </p>
               <p>
                     of intact proteins is of first order. If CLPP concentration is 10&#94;-5M, a value
               </p>
               <p>
                     of k10=10 results in equal degradation rates. Since we assume that oxidized
               </p>
               <p>
                     proteins are degraded faster than intact proteins, we chose a value of k10
               </p>
               <p>
                     Got rate of oxigen radical production from Joenje et al. 1985 (PMID: 2984461)O2normal
               </p>
               <p>
                     Currently CLPP degradation is first order,
               </p>
               <p>
                     while CLPPox degradation is second order reaction!
               </p>
               <p>
                     Maybe both have to be 2nd order. CLPPdegrad
               </p>
               <p>
                     H2O2 can diffuse from an external pool into
               </p>
               <p>
                     and out of the cell with the same diffusion
               </p>
               <p>
                     constant. Therefore we marked the reaction
               </p>
               <p>
                     as reversible. But thats only for the optic.
               </p>
               <p>
                     The kinetic law has to describe the flux in
               </p>
               <p>
                     relation to reactants and products as shown
               </p>
               <p>
                     in the Reactions list.influxH2O2
               </p>
               <p>
                     Non enzymatic dismutation reaction.
               </p>
               <p>
                     Rate constant from Free Radicals in Biology
               </p>
               <p>
                     and Medicine 2nd Edn p74O2dismutation
               </p>
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      </notes>
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                        <jd2:color scheme = "gtNone" startColor = "FFFAFAD2" endColor = "FF000000"/>
                        <jd2:edgeStyle color = "FFFF8C00" thickness = "2" stroke = "dsSolid"/>
                     </jd2:subunit>
                  </jd2:complex>
               </jd2:species>
            </jd2:listOfSpecies>
            <jd2:listOfReactions>
               <jd2:reaction id = "O2normal" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "O2" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "O2rad" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges/>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "O2normal_k1*1"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
                     <jd2:lineType type = "ltBezier">
                        <jd2:edge>
                           <jd2:pt x = "203" y = "89" type = "substrate" speciesRef = "O2"/>
                           <jd2:pt x = "302" y = "84" type = "controlPoint"/>
                           <jd2:pt x = "290" y = "108" type = "controlPoint"/>
                           <jd2:pt x = "318" y = "145" type = "product" speciesRef = "O2rad"/>
                        </jd2:edge>
                     </jd2:lineType>
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                        <jd2:font fontName = "Arial" fontSize = "8" fontColor = "FF000000" fontStyle = ""/>
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                  </jd2:display>
               </jd2:reaction>
               <jd2:reaction id = "O2detox" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "O2rad" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "H2O2" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges/>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "O2detox_k2*O2detox_SOD*O2rad"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
                     <jd2:lineType type = "ltBezier">
                        <jd2:edge>
                           <jd2:pt x = "318" y = "145" type = "substrate" speciesRef = "O2rad"/>
                           <jd2:pt x = "361" y = "361" type = "controlPoint"/>
                           <jd2:pt x = "332" y = "331" type = "controlPoint"/>
                           <jd2:pt x = "239" y = "281" type = "product" speciesRef = "H2O2"/>
                        </jd2:edge>
                     </jd2:lineType>
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                        <jd2:font fontName = "Arial" fontSize = "8" fontColor = "FF000000" fontStyle = ""/>
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                  </jd2:display>
               </jd2:reaction>
               <jd2:reaction id = "H2O2detox" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "H2O2" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "degraded" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges>
                     <jd2:modifierEdge visible = "true">
                        <jd2:speciesReference species = "PRX"/>
                        <jd2:destinationReaction name = "H2O2detox" regulatorType = "rtPositive" relativePosition = "0.6" destinationArcId = "0"
                                                 destinationLineSegmentId = "0"/>
                        <jd2:display lineThickness = "2" lineColor = "FFFF0000" lineDashStyle = "dsSolid" positiveMarkerStyle = "rmEmptyCircle">
                           <jd2:lineType type = "ltLine">
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                              <jd2:pt x = "369" y = "178"/>
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                        </jd2:display>
                     </jd2:modifierEdge>
                  </jd2:listOfModifierEdges>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "H2O2detox_k3*PRX*H2O2"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
                     <jd2:lineType type = "ltBezier">
                        <jd2:edge>
                           <jd2:pt x = "239" y = "281" type = "substrate" speciesRef = "H2O2"/>
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                           <jd2:pt x = "367" y = "165" type = "controlPoint"/>
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                     </jd2:lineType>
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                        <jd2:font fontName = "Arial" fontSize = "8" fontColor = "FF000000" fontStyle = ""/>
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                  </jd2:display>
               </jd2:reaction>
               <jd2:reaction id = "O2paraquat" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "paraquat" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "O2rad" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges/>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "O2paraquat_k4*paraquat"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
                     <jd2:lineType type = "ltBezier">
                        <jd2:edge>
                           <jd2:pt x = "211" y = "210" type = "substrate" speciesRef = "paraquat"/>
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                           <jd2:pt x = "274" y = "163" type = "controlPoint"/>
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                  </jd2:display>
               </jd2:reaction>
               <jd2:reaction id = "influxH2O2" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "exH2O2" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "H2O2" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges/>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "k5*exH2O2"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
                     <jd2:lineType type = "ltBezier">
                        <jd2:edge>
                           <jd2:pt x = "95" y = "296" type = "substrate" speciesRef = "exH2O2"/>
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                           <jd2:pt x = "181" y = "301" type = "controlPoint"/>
                           <jd2:pt x = "239" y = "281" type = "product" speciesRef = "H2O2"/>
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                        <jd2:font fontName = "Arial" fontSize = "8" fontColor = "FF000000" fontStyle = ""/>
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                  </jd2:display>
               </jd2:reaction>
               <jd2:reaction id = "effluxH2O2" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "H2O2" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "exH2O2" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges/>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "k5*H2O2"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
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                           <jd2:pt x = "239" y = "281" type = "substrate" speciesRef = "H2O2"/>
                           <jd2:pt x = "183" y = "287" type = "controlPoint"/>
                           <jd2:pt x = "176" y = "286" type = "controlPoint"/>
                           <jd2:pt x = "95" y = "296" type = "product" speciesRef = "exH2O2"/>
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                     </jd2:lineType>
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                        <jd2:font fontName = "Arial" fontSize = "8" fontColor = "FF000000" fontStyle = ""/>
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                  </jd2:display>
               </jd2:reaction>
               <jd2:reaction id = "altPathway" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "O2rad" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "degraded" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges/>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "altPathway_k6*O2rad"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
                     <jd2:lineType type = "ltBezier">
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                           <jd2:pt x = "318" y = "145" type = "substrate" speciesRef = "O2rad"/>
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                           <jd2:pt x = "371" y = "93" type = "controlPoint"/>
                           <jd2:pt x = "475" y = "67" type = "product" speciesRef = "degraded"/>
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               </jd2:reaction>
               <jd2:reaction id = "CLPPproduction" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "praeCLPP" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "CLPP" stoichiometry = "1"/>
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                  <jd2:listOfModifierEdges>
                     <jd2:modifierEdge visible = "true">
                        <jd2:speciesReference species = "CLPPox"/>
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                                                 destinationLineSegmentId = "0"/>
                        <jd2:display lineThickness = "2" lineColor = "FFFF0000" lineDashStyle = "dsSolid" negativeMarkerStyle = "rmBar">
                           <jd2:lineType type = "ltSegmentedLine">
                              <jd2:pt x = "840" y = "352" type = "modifier" speciesRef = "CLPPox"/>
                              <jd2:pt x = "906" y = "356"/>
                              <jd2:pt x = "917" y = "134"/>
                              <jd2:pt x = "859" y = "141"/>
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                        <jd2:display lineThickness = "2" lineColor = "FFFF0000" lineDashStyle = "dsSolid" negativeMarkerStyle = "rmBar">
                           <jd2:lineType type = "ltSegmentedLine">
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                              <jd2:pt x = "801" y = "148"/>
                              <jd2:pt x = "837" y = "147"/>
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                        </jd2:display>
                     </jd2:modifierEdge>
                  </jd2:listOfModifierEdges>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "k7*(pow(C,n)/(pow(CLPP+CLPPox,n)+pow(C,n)))"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
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               <jd2:reaction id = "CLPPdegrad" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "CLPP" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "degraded" stoichiometry = "1"/>
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                  <jd2:listOfModifierEdges/>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "k8*CLPP"/>
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                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
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                           <jd2:pt x = "567" y = "260" type = "controlPoint"/>
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               </jd2:reaction>
               <jd2:reaction id = "PRXproduction" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "praePRX" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "PRX" stoichiometry = "1"/>
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                  <jd2:listOfModifierEdges>
                     <jd2:modifierEdge visible = "true">
                        <jd2:speciesReference species = "PRXox"/>
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                        <jd2:display lineThickness = "2" lineColor = "FFFF0000" lineDashStyle = "dsSolid" negativeMarkerStyle = "rmBar">
                           <jd2:lineType type = "ltSegmentedLine">
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                              <jd2:pt x = "645" y = "150"/>
                              <jd2:pt x = "638" y = "150"/>
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                     <jd2:modifierEdge visible = "true">
                        <jd2:speciesReference species = "PRX"/>
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                              <jd2:pt x = "594" y = "150"/>
                              <jd2:pt x = "616" y = "150"/>
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                        </jd2:display>
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                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "k7*(pow(C,n)/(pow(PRX+PRXox,n)+pow(C,n)))"/>
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                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
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                           <jd2:pt x = "641" y = "69" type = "substrate" speciesRef = "praePRX"/>
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               <jd2:reaction id = "PRXdegrad" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "PRX" stoichiometry = "1"/>
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                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "degraded" stoichiometry = "1"/>
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                  <jd2:listOfModifierEdges/>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "k8*PRX"/>
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               <jd2:reaction id = "PRXoxidation" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "PRX" stoichiometry = "1"/>
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                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "PRXox" stoichiometry = "1"/>
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                     <jd2:modifierEdge visible = "true">
                        <jd2:speciesReference species = "H2O2"/>
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                        </jd2:display>
                     </jd2:modifierEdge>
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                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "PRXoxidation_k9*H2O2*PRX"/>
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                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
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               </jd2:reaction>
               <jd2:reaction id = "PRXoxdetox" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "PRXox" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "degraded" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges>
                     <jd2:modifierEdge visible = "true">
                        <jd2:speciesReference species = "CLPP"/>
                        <jd2:destinationReaction name = "PRXoxdetox" regulatorType = "rtPositive" relativePosition = "0.6" destinationArcId = "0"
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                        <jd2:display lineThickness = "2" lineColor = "FFFF0000" lineDashStyle = "dsSolid" positiveMarkerStyle = "rmEmptyCircle">
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                        </jd2:display>
                     </jd2:modifierEdge>
                  </jd2:listOfModifierEdges>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "k10*PRXox*CLPP"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
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                           <jd2:pt x = "490" y = "287" type = "controlPoint"/>
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                     </jd2:lineType>
                     <jd2:displayValue visible = "false" showValue = "false" value = "0">
                        <jd2:position rx = "0" ry = "0"/>
                        <jd2:font fontName = "Arial" fontSize = "8" fontColor = "FF000000" fontStyle = ""/>
                     </jd2:displayValue>
                  </jd2:display>
               </jd2:reaction>
               <jd2:reaction id = "CLPPoxdegrad" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "CLPPox" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "degraded" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges>
                     <jd2:modifierEdge visible = "true">
                        <jd2:speciesReference species = "CLPP"/>
                        <jd2:destinationReaction name = "CLPPoxdegrad" regulatorType = "rtPositive" relativePosition = "0.459183673469388" destinationArcId = "0"
                                                 destinationLineSegmentId = "0"/>
                        <jd2:display lineThickness = "2" lineColor = "FFFF0000" lineDashStyle = "dsSolid" positiveMarkerStyle = "rmEmptyCircle">
                           <jd2:lineType type = "ltLine">
                              <jd2:pt x = "841" y = "202" type = "modifier" speciesRef = "CLPP"/>
                              <jd2:pt x = "697" y = "302"/>
                           </jd2:lineType>
                        </jd2:display>
                     </jd2:modifierEdge>
                  </jd2:listOfModifierEdges>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "k10*CLPPox*CLPP"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
                     <jd2:lineType type = "ltBezier">
                        <jd2:edge>
                           <jd2:pt x = "840" y = "352" type = "substrate" speciesRef = "CLPPox"/>
                           <jd2:pt x = "773" y = "368" type = "controlPoint"/>
                           <jd2:pt x = "559" y = "282" type = "controlPoint"/>
                           <jd2:pt x = "475" y = "67" type = "product" speciesRef = "degraded"/>
                        </jd2:edge>
                     </jd2:lineType>
                     <jd2:displayValue visible = "false" showValue = "false" value = "0">
                        <jd2:position rx = "0" ry = "0"/>
                        <jd2:font fontName = "Arial" fontSize = "8" fontColor = "FF000000" fontStyle = ""/>
                     </jd2:displayValue>
                  </jd2:display>
               </jd2:reaction>
               <jd2:reaction id = "O2dismutation" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "O2rad" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "H2O2" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges/>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "O2dismutation_k11*O2rad*O2rad"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
                     <jd2:lineType type = "ltBezier">
                        <jd2:edge>
                           <jd2:pt x = "318" y = "145" type = "substrate" speciesRef = "O2rad"/>
                           <jd2:pt x = "366" y = "391" type = "controlPoint"/>
                           <jd2:pt x = "296" y = "278" type = "controlPoint"/>
                           <jd2:pt x = "239" y = "281" type = "product" speciesRef = "H2O2"/>
                        </jd2:edge>
                     </jd2:lineType>
                     <jd2:displayValue visible = "false" showValue = "false" value = "0">
                        <jd2:position rx = "0" ry = "0"/>
                        <jd2:font fontName = "Arial" fontSize = "8" fontColor = "FF000000" fontStyle = ""/>
                     </jd2:displayValue>
                  </jd2:display>
               </jd2:reaction>
               <jd2:reaction id = "CLPPoxidation" reversible = "false">
                  <jd2:listOfReactants>
                     <jd2:speciesReference species = "CLPP" stoichiometry = "1"/>
                  </jd2:listOfReactants>
                  <jd2:listOfProducts>
                     <jd2:speciesReference species = "CLPPox" stoichiometry = "1"/>
                  </jd2:listOfProducts>
                  <jd2:listOfModifierEdges>
                     <jd2:modifierEdge visible = "true">
                        <jd2:speciesReference species = "H2O2"/>
                        <jd2:destinationReaction name = "CLPPoxidation" regulatorType = "rtPositive" relativePosition = "0.5" destinationArcId = "0"
                                                 destinationLineSegmentId = "0"/>
                        <jd2:display lineThickness = "2" lineColor = "FFFF0000" lineDashStyle = "dsSolid" positiveMarkerStyle = "rmEmptyCircle">
                           <jd2:lineType type = "ltLine">
                              <jd2:pt x = "239" y = "281" type = "modifier" speciesRef = "H2O2"/>
                              <jd2:pt x = "828" y = "281"/>
                           </jd2:lineType>
                        </jd2:display>
                     </jd2:modifierEdge>
                  </jd2:listOfModifierEdges>
                  <jd2:kineticLaw type = "explicit">
                     <jd2:rateEquation value = "CLPPoxidation_k13*CLPP*H2O2"/>
                  </jd2:kineticLaw>
                  <jd2:display arrowStyle = "ar1" arrowFillColor = "FF99CC00" lineColor = "FF000000" lineThickness = "2">
                     <jd2:lineType type = "ltBezier">
                        <jd2:edge>
                           <jd2:pt x = "841" y = "202" type = "substrate" speciesRef = "CLPP"/>
                           <jd2:pt x = "838" y = "268" type = "controlPoint"/>
                           <jd2:pt x = "841" y = "312" type = "controlPoint"/>
                           <jd2:pt x = "840" y = "352" type = "product" speciesRef = "CLPPox"/>
                        </jd2:edge>
                     </jd2:lineType>
                     <jd2:displayValue visible = "false" showValue = "false" value = "0">
                        <jd2:position rx = "0" ry = "0"/>
                        <jd2:font fontName = "Arial" fontSize = "8" fontColor = "FF000000" fontStyle = ""/>
                     </jd2:displayValue>
                  </jd2:display>
               </jd2:reaction>
            </jd2:listOfReactions>
         </jd2:JDesignerLayout>
      </annotation>
      <listOfCompartments>
         <compartment id = "compartment" size = "1"/>
         <compartment id = "MITOCHONDRION" size = "1"/>
      </listOfCompartments>
      <listOfSpecies>
         <species id = "O2rad" boundaryCondition = "false" initialConcentration = "0" compartment = "MITOCHONDRION"/>
         <species id = "H2O2" boundaryCondition = "false" initialConcentration = "0" compartment = "MITOCHONDRION"/>
         <species id = "PRX" boundaryCondition = "false" initialConcentration = "1E-5" compartment = "MITOCHONDRION"/>
         <species id = "PRXox" boundaryCondition = "false" initialConcentration = "0" compartment = "MITOCHONDRION"/>
         <species id = "CLPP" boundaryCondition = "false" initialConcentration = "1E-5" compartment = "MITOCHONDRION"/>
         <species id = "CLPPox" boundaryCondition = "false" initialConcentration = "0" compartment = "MITOCHONDRION"/>
         <species id = "exH2O2" boundaryCondition = "true" initialConcentration = "0" compartment = "compartment"/>
         <species id = "degraded" boundaryCondition = "true" initialConcentration = "0" compartment = "compartment"/>
         <species id = "O2" boundaryCondition = "true" initialConcentration = "0.1" compartment = "compartment"/>
         <species id = "praePRX" boundaryCondition = "true" initialConcentration = "0.1" compartment = "compartment"/>
         <species id = "praeCLPP" boundaryCondition = "true" initialConcentration = "0.1" compartment = "compartment"/>
         <species id = "paraquat" boundaryCondition = "true" initialConcentration = "0" compartment = "compartment"/>
      </listOfSpecies>
      <listOfParameters>
         <parameter id = "n" value = "3"/>
         <parameter id = "k5" value = "0"/>
         <parameter id = "k8" value = "0.0001"/>
         <parameter id = "k10" value = "30"/>
         <parameter id = "k7" value = "1E-9"/>
         <parameter id = "C" value = "1E-5"/>
         <parameter id = "O2normal_k1" value = "6.6E-7"/>
         <parameter id = "O2detox_SOD" value = "1E-5"/>
         <parameter id = "O2detox_k2" value = "11000000"/>
         <parameter id = "H2O2detox_k3" value = "240000"/>
         <parameter id = "O2paraquat_k4" value = "1"/>
         <parameter id = "altPathway_k6" value = "200"/>
         <parameter id = "PRXoxidation_k9" value = "0"/>
         <parameter id = "O2dismutation_k11" value = "400000"/>
         <parameter id = "CLPPoxidation_k13" value = "0"/>
      </listOfParameters>
      <listOfReactions>
         <reaction id = "O2normal" reversible = "false">
            <listOfReactants>
               <speciesReference species = "O2" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "O2rad" stoichiometry = "1"/>
            </listOfProducts>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           O2normal_k1
                     </ci>
                     <cn type = "integer">
                           1
                     </cn>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "O2detox" reversible = "false">
            <listOfReactants>
               <speciesReference species = "O2rad" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "H2O2" stoichiometry = "1"/>
            </listOfProducts>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           O2detox_k2
                     </ci>
                     <ci>
                           O2detox_SOD
                     </ci>
                     <ci>
                           O2rad
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "H2O2detox" reversible = "false">
            <listOfReactants>
               <speciesReference species = "H2O2" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "degraded" stoichiometry = "1"/>
            </listOfProducts>
            <listOfModifiers>
               <modifierSpeciesReference species = "PRX"/>
            </listOfModifiers>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           H2O2detox_k3
                     </ci>
                     <ci>
                           PRX
                     </ci>
                     <ci>
                           H2O2
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "O2paraquat" reversible = "false">
            <listOfReactants>
               <speciesReference species = "paraquat" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "O2rad" stoichiometry = "1"/>
            </listOfProducts>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           O2paraquat_k4
                     </ci>
                     <ci>
                           paraquat
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "influxH2O2" reversible = "false">
            <listOfReactants>
               <speciesReference species = "exH2O2" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "H2O2" stoichiometry = "1"/>
            </listOfProducts>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           k5
                     </ci>
                     <ci>
                           exH2O2
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "effluxH2O2" reversible = "false">
            <listOfReactants>
               <speciesReference species = "H2O2" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "exH2O2" stoichiometry = "1"/>
            </listOfProducts>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           k5
                     </ci>
                     <ci>
                           H2O2
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "altPathway" reversible = "false">
            <listOfReactants>
               <speciesReference species = "O2rad" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "degraded" stoichiometry = "1"/>
            </listOfProducts>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           altPathway_k6
                     </ci>
                     <ci>
                           O2rad
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "CLPPproduction" reversible = "false">
            <listOfReactants>
               <speciesReference species = "praeCLPP" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "CLPP" stoichiometry = "1"/>
            </listOfProducts>
            <listOfModifiers>
               <modifierSpeciesReference species = "CLPPox"/>
               <modifierSpeciesReference species = "CLPP"/>
            </listOfModifiers>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           k7
                     </ci>
                     <apply>
                        <divide/>
                        <apply>
                           <power/>
                           <ci>
                                 C
                           </ci>
                           <ci>
                                 n
                           </ci>
                        </apply>
                        <apply>
                           <plus/>
                           <apply>
                              <power/>
                              <apply>
                                 <plus/>
                                 <ci>
                                       CLPP
                                 </ci>
                                 <ci>
                                       CLPPox
                                 </ci>
                              </apply>
                              <ci>
                                    n
                              </ci>
                           </apply>
                           <apply>
                              <power/>
                              <ci>
                                    C
                              </ci>
                              <ci>
                                    n
                              </ci>
                           </apply>
                        </apply>
                     </apply>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "CLPPdegrad" reversible = "false">
            <listOfReactants>
               <speciesReference species = "CLPP" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "degraded" stoichiometry = "1"/>
            </listOfProducts>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           k8
                     </ci>
                     <ci>
                           CLPP
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "PRXproduction" reversible = "false">
            <listOfReactants>
               <speciesReference species = "praePRX" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "PRX" stoichiometry = "1"/>
            </listOfProducts>
            <listOfModifiers>
               <modifierSpeciesReference species = "PRXox"/>
               <modifierSpeciesReference species = "PRX"/>
            </listOfModifiers>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           k7
                     </ci>
                     <apply>
                        <divide/>
                        <apply>
                           <power/>
                           <ci>
                                 C
                           </ci>
                           <ci>
                                 n
                           </ci>
                        </apply>
                        <apply>
                           <plus/>
                           <apply>
                              <power/>
                              <apply>
                                 <plus/>
                                 <ci>
                                       PRX
                                 </ci>
                                 <ci>
                                       PRXox
                                 </ci>
                              </apply>
                              <ci>
                                    n
                              </ci>
                           </apply>
                           <apply>
                              <power/>
                              <ci>
                                    C
                              </ci>
                              <ci>
                                    n
                              </ci>
                           </apply>
                        </apply>
                     </apply>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "PRXdegrad" reversible = "false">
            <listOfReactants>
               <speciesReference species = "PRX" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "degraded" stoichiometry = "1"/>
            </listOfProducts>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           k8
                     </ci>
                     <ci>
                           PRX
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "PRXoxidation" reversible = "false">
            <listOfReactants>
               <speciesReference species = "PRX" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "PRXox" stoichiometry = "1"/>
            </listOfProducts>
            <listOfModifiers>
               <modifierSpeciesReference species = "H2O2"/>
            </listOfModifiers>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           PRXoxidation_k9
                     </ci>
                     <ci>
                           H2O2
                     </ci>
                     <ci>
                           PRX
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "PRXoxdetox" reversible = "false">
            <listOfReactants>
               <speciesReference species = "PRXox" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "degraded" stoichiometry = "1"/>
            </listOfProducts>
            <listOfModifiers>
               <modifierSpeciesReference species = "CLPP"/>
            </listOfModifiers>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           k10
                     </ci>
                     <ci>
                           PRXox
                     </ci>
                     <ci>
                           CLPP
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "CLPPoxdegrad" reversible = "false">
            <listOfReactants>
               <speciesReference species = "CLPPox" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "degraded" stoichiometry = "1"/>
            </listOfProducts>
            <listOfModifiers>
               <modifierSpeciesReference species = "CLPP"/>
            </listOfModifiers>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           k10
                     </ci>
                     <ci>
                           CLPPox
                     </ci>
                     <ci>
                           CLPP
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "O2dismutation" reversible = "false">
            <listOfReactants>
               <speciesReference species = "O2rad" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "H2O2" stoichiometry = "1"/>
            </listOfProducts>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           O2dismutation_k11
                     </ci>
                     <ci>
                           O2rad
                     </ci>
                     <ci>
                           O2rad
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
         <reaction id = "CLPPoxidation" reversible = "false">
            <listOfReactants>
               <speciesReference species = "CLPP" stoichiometry = "1"/>
            </listOfReactants>
            <listOfProducts>
               <speciesReference species = "CLPPox" stoichiometry = "1"/>
            </listOfProducts>
            <listOfModifiers>
               <modifierSpeciesReference species = "H2O2"/>
            </listOfModifiers>
            <kineticLaw>
               <math xmlns = "http://www.w3.org/1998/Math/MathML">
                  <apply>
                     <times/>
                     <ci>
                           CLPPoxidation_k13
                     </ci>
                     <ci>
                           CLPP
                     </ci>
                     <ci>
                           H2O2
                     </ci>
                  </apply>
               </math>
            </kineticLaw>
         </reaction>
      </listOfReactions>
   </model>
</sbml>
