<?xml version ="1.0" encoding="UTF-8"?>
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<model id="MNMout" name="AMetNetMakerModel">
<listOfUnitDefinitions>
<unitDefinition id="mmol_per_gDW_per_hr">
<listOfUnits>
<unit kind="mole" scale="-3"/>
<unit kind="gram" exponent="-1"/>
<unit kind="second" multiplier="0.00027777" exponent="-1"/>
</listOfUnits>
</unitDefinition>
</listOfUnitDefinitions>
<listOfCompartments>
<compartment id="Extra_Cellular" size="5"/>
<compartment id="Cytosol" outside="Extra_Cellular" size="1"/>
</listOfCompartments>
<listOfSpecies>
<species id="C00001_c" name="H2O_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00002_c" name="ATP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00005_c" name="NADPH_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00006_c" name="NADP+_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00008_c" name="ADP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00013_c" name="Diphosphate_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00020_c" name="AMP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00035_c" name="GDP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00044_c" name="GTP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00080_c" name="H+_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00131_c" name="dATP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00144_c" name="GMP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00206_c" name="dADP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00286_c" name="dGTP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00342_c" name="Thioredoxin_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00343_c" name="Thioredoxin disulfide_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00361_c" name="dGDP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00575_c" name="cAMP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="C00942_c" name="cGMP_c" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_1_17_4_1" name="1.17.4.1" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_1_17_4_1__2" name="1.17.4.1" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_1_8_1_9" name="1.8.1.9" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_2_7_4_3" name="2.7.4.3" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_2_7_4_6" name="2.7.4.6" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_2_7_4_6__2" name="2.7.4.6" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_2_7_4_6__3" name="2.7.4.6" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_2_7_4_6__4" name="2.7.4.6" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_2_7_4_8" name="2.7.4.8" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_3_1_4_17" name="3.1.4.17" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_3_1_4_17__2" name="3.1.4.17" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_4_6_1_1" name="4.6.1.1" compartment="Cytosol" boundaryCondition="false"/>
<species id="EC_4_6_1_2" name="4.6.1.2" compartment="Cytosol" boundaryCondition="false"/>
</listOfSpecies>
<listOfReactions>
<reaction id = "R02017_c" name = "2'-Deoxyadenosine 5'-diphosphate:oxidized-thioredoxin2'-oxidoreductase" reversible = "true" > 
<listOfReactants>
<speciesReference species="C00342_c" stoichiometry ="1"/>
<speciesReference species="C00008_c" stoichiometry ="1"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="C00206_c" stoichiometry ="1"/>
<speciesReference species="C00343_c" stoichiometry ="1"/>
<speciesReference species="C00001_c" stoichiometry ="1"/>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="EC_1_17_4_1"/>
</listOfModifiers>
<kineticLaw>
<listOfParameters>
<parameter id="LOWER_BOUND" value="-500" units="mmol_per_gDW_per_hr"/>
<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R02019_c" name = "2'-Deoxyguanosine 5'-diphosphate:oxidized-thioredoxin2'-oxidoreductase" reversible = "true" > 
<listOfReactants>
<speciesReference species="C00035_c" stoichiometry ="1"/>
<speciesReference species="C00342_c" stoichiometry ="1"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="C00361_c" stoichiometry ="1"/>
<speciesReference species="C00343_c" stoichiometry ="1"/>
<speciesReference species="C00001_c" stoichiometry ="1"/>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="EC_1_17_4_1__2"/>
</listOfModifiers>
<kineticLaw>
<listOfParameters>
<parameter id="LOWER_BOUND" value="-500" units="mmol_per_gDW_per_hr"/>
<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R02016_c" name = "NADPH:oxidized-thioredoxin oxidoreductase" reversible = "true" > 
<listOfReactants>
<speciesReference species="C00342_c" stoichiometry ="1"/>
<speciesReference species="C00006_c" stoichiometry ="1"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="C00343_c" stoichiometry ="1"/>
<speciesReference species="C00005_c" stoichiometry ="1"/>
<speciesReference species="C00080_c" stoichiometry ="1"/>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="EC_1_8_1_9"/>
</listOfModifiers>
<kineticLaw>
<listOfParameters>
<parameter id="LOWER_BOUND" value="-500" units="mmol_per_gDW_per_hr"/>
<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R00127_c" name = "ATP:AMP phosphotransferase" reversible = "true" > 
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<speciesReference species="C00002_c" stoichiometry ="1"/>
<speciesReference species="C00020_c" stoichiometry ="1"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="C00008_c" stoichiometry ="2"/>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="EC_2_7_4_3"/>
</listOfModifiers>
<kineticLaw>
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<parameter id="LOWER_BOUND" value="-500" units="mmol_per_gDW_per_hr"/>
<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R00124_c" name = "ATP:ADP phosphatransferase" reversible = "true" > 
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<speciesReference species="C00008_c" stoichiometry ="1"/>
<speciesReference species="C00002_c" stoichiometry ="1"/>
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<speciesReference species="C00002_c" stoichiometry ="1"/>
<speciesReference species="C00008_c" stoichiometry ="1"/>
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<modifierSpeciesReference species="EC_2_7_4_6"/>
</listOfModifiers>
<kineticLaw>
<listOfParameters>
<parameter id="LOWER_BOUND" value="-500" units="mmol_per_gDW_per_hr"/>
<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R00330_c" name = "ATP:GDP phosphotransferase" reversible = "true" > 
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<speciesReference species="C00002_c" stoichiometry ="1"/>
<speciesReference species="C00035_c" stoichiometry ="1"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="C00008_c" stoichiometry ="1"/>
<speciesReference species="C00044_c" stoichiometry ="1"/>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="EC_2_7_4_6__2"/>
</listOfModifiers>
<kineticLaw>
<listOfParameters>
<parameter id="LOWER_BOUND" value="-500" units="mmol_per_gDW_per_hr"/>
<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R01137_c" name = "ATP:dADP phosphotransferase" reversible = "true" > 
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<speciesReference species="C00002_c" stoichiometry ="1"/>
<speciesReference species="C00206_c" stoichiometry ="1"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="C00008_c" stoichiometry ="1"/>
<speciesReference species="C00131_c" stoichiometry ="1"/>
</listOfProducts>
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<modifierSpeciesReference species="EC_2_7_4_6__3"/>
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<kineticLaw>
<listOfParameters>
<parameter id="LOWER_BOUND" value="-500" units="mmol_per_gDW_per_hr"/>
<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R01857_c" name = "ATP:dGDP phosphotransferase" reversible = "true" > 
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<speciesReference species="C00002_c" stoichiometry ="1"/>
<speciesReference species="C00361_c" stoichiometry ="1"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="C00008_c" stoichiometry ="1"/>
<speciesReference species="C00286_c" stoichiometry ="1"/>
</listOfProducts>
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<modifierSpeciesReference species="EC_2_7_4_6__4"/>
</listOfModifiers>
<kineticLaw>
<listOfParameters>
<parameter id="LOWER_BOUND" value="-500" units="mmol_per_gDW_per_hr"/>
<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R00332_c" name = "ATP:GMP phosphotransferase" reversible = "true" > 
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<speciesReference species="C00002_c" stoichiometry ="1"/>
<speciesReference species="C00144_c" stoichiometry ="1"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="C00008_c" stoichiometry ="1"/>
<speciesReference species="C00035_c" stoichiometry ="1"/>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="EC_2_7_4_8"/>
</listOfModifiers>
<kineticLaw>
<listOfParameters>
<parameter id="LOWER_BOUND" value="-500" units="mmol_per_gDW_per_hr"/>
<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R00191_c" name = "adenosine 3',5'-phosphate 5'-nucleotidohydrolase" reversible = "true" > 
<listOfReactants>
<speciesReference species="C00575_c" stoichiometry ="1"/>
<speciesReference species="C00001_c" stoichiometry ="1"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="C00020_c" stoichiometry ="1"/>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="EC_3_1_4_17"/>
</listOfModifiers>
<kineticLaw>
<listOfParameters>
<parameter id="LOWER_BOUND" value="-500" units="mmol_per_gDW_per_hr"/>
<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R01234_c" name = "Guanosine 3',5'-cyclic phosphate 5'-nucleotidohydrolase" reversible = "true" > 
<listOfReactants>
<speciesReference species="C00942_c" stoichiometry ="1"/>
<speciesReference species="C00001_c" stoichiometry ="1"/>
</listOfReactants>
<listOfProducts>
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<modifierSpeciesReference species="EC_3_1_4_17__2"/>
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<kineticLaw>
<listOfParameters>
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<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R00089_c" name = "ATP diphosphate-lyase (cyclizing; 3',5'-cyclic-AMP-forming)" reversible = "true" > 
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<speciesReference species="C00002_c" stoichiometry ="1"/>
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<speciesReference species="C00575_c" stoichiometry ="1"/>
<speciesReference species="C00013_c" stoichiometry ="1"/>
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<modifierSpeciesReference species="EC_4_6_1_1"/>
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<parameter id="UPPER_BOUND" value="500" units="mmol_per_gDW_per_hr"/>
<parameter id="OBJECTIVE_COEFFICIENT" value="0"/>
<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id = "R00434_c" name = "GTP diphosphate-lyase (cyclizing; 3',5'-cyclic-GMP-forming)" reversible = "true" > 
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<speciesReference species="C00044_c" stoichiometry ="1"/>
</listOfReactants>
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<speciesReference species="C00942_c" stoichiometry ="1"/>
<speciesReference species="C00013_c" stoichiometry ="1"/>
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<modifierSpeciesReference species="EC_4_6_1_2"/>
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<parameter id="FLUX_VALUE" value="0" units="mmol_per_gDW_per_hr"/>
</listOfParameters>
</kineticLaw>
</reaction>
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