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The de novo biosynthesis of pyrimidine deoxyribonucleotides, the monomeric units of DNA.  
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free text=Voet and Voet  (textbook)  Biochemistry
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<!--Notes by CellDesigner-->
<body>
Long Name:  dCDP
Synonym:  Synonym not specified
Accession:  S03546
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>dCDP</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s14" initialAmount="0.0" name="dCTP">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  dCTP
Synonym:  Synonym not specified
Accession:  S03534
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>dCTP</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s15" initialAmount="0.0" name="NH_sub_3">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  NH3
Synonym:  Synonym not specified
Accession:  S03530
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>NH_sub_3</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s16" initialAmount="0.0" name="dUMP">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  dUMP
Synonym:  Synonym not specified
Accession:  S03547
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>dUMP</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s17" initialAmount="0.0" name="dTMP">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  dTMP
Synonym:  Synonym not specified
Accession:  S03536
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>dTMP</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s18" initialAmount="0.0" name="dTDP">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  dTDP
Synonym:  Synonym not specified
Accession:  S03533
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>dTDP</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s19" initialAmount="0.0" name="TTP">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  TTP
Synonym:  Synonym not specified
Accession:  S03544
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>TTP</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s20" initialAmount="0.0" name="5,10-CH_sub_2_endsub_-THF">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  5,10-CH2-THF
Synonym:  Synonym not specified
Accession:  S03542
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>5,10-CH_sub_2_endsub_-THF</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s21" initialAmount="0.0" name="7,8-DHF">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  7,8-DHF
Synonym:  Synonym not specified
Accession:  S03531
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>7,8-DHF</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s22" initialAmount="0.0" name="PP_sub_i">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  PPi
Synonym:  Synonym not specified
Accession:  S03549
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>PP_sub_i</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s25" initialAmount="0.0" name="CDP Reductase">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  CDP Reductase
Synonym:  Synonym not specified
Accession:  P02915
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>p3</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="r8"/>
</celldesigner:listOfCatalyzedReactions>
</annotation>
</species>
<species compartment="default" id="s26" initialAmount="0.0" name="dCDP kinase">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  dCDP kinase
Synonym:  Synonym not specified
Accession:  P02914
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>p4</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="r9"/>
</celldesigner:listOfCatalyzedReactions>
</annotation>
</species>
<species compartment="default" id="s27" initialAmount="0.0" name="dCTP deaminase">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  dCTP deaminase
Synonym:  Synonym not specified
Accession:  P02920
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>p5</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="r10"/>
</celldesigner:listOfCatalyzedReactions>
</annotation>
</species>
<species compartment="default" id="s28" initialAmount="0.0" name="Ribonucleoside_br_triphosphate_br_Reductase">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  Ribonucleoside triphosphate Reductase
Synonym:  Synonym not specified
Accession:  P02917
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>p6</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="r1"/>
</celldesigner:listOfCatalyzedReactions>
</annotation>
</species>
<species compartment="default" id="s29" initialAmount="0.0" name="UDP reductase">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  UDP reductase
Synonym:  Synonym not specified
Accession:  P02921
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>p7</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="r2"/>
</celldesigner:listOfCatalyzedReactions>
</annotation>
</species>
<species compartment="default" id="s30" initialAmount="0.0" name="dUDP kinase">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  dUDP kinase
Synonym:  Synonym not specified
Accession:  P02912
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>p8</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="r3"/>
</celldesigner:listOfCatalyzedReactions>
</annotation>
</species>
<species compartment="default" id="s31" initialAmount="0.0" name="dUTP pyrophosphatase">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  dUTP pyrophosphatase
Synonym:  Synonym not specified
Accession:  P02918
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>p9</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="r4"/>
</celldesigner:listOfCatalyzedReactions>
</annotation>
</species>
<species compartment="default" id="s32" initialAmount="0.0" name="Thymidylate synthase">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  Thymidylate synthase
Synonym:  Synonym not specified
Accession:  P02913
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>p10</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="r5"/>
</celldesigner:listOfCatalyzedReactions>
</annotation>
</species>
<species compartment="default" id="s33" initialAmount="0.0" name="dTMP kinase">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  dTMP kinase
Synonym:  Synonym not specified
Accession:  P02916
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>p11</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="r6"/>
</celldesigner:listOfCatalyzedReactions>
</annotation>
</species>
<species compartment="default" id="s34" initialAmount="0.0" name="dTDP kinase">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  dTDP kinase
Synonym:  Synonym not specified
Accession:  P02919
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>p12</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="r7"/>
</celldesigner:listOfCatalyzedReactions>
</annotation>
</species>
<species compartment="default" id="s23" initialAmount="0.0" name="Reduced_br_Flavodoxin">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  Reduced Flavodoxin
Synonym:  Synonym not specified
Accession:  S03541
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>Reduced_br_Flavodoxin</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
<species compartment="default" id="s24" initialAmount="0.0" name="Oxidized_br_Flavodoxin">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<!--Notes by CellDesigner-->
<body>
Long Name:  Oxidized Flavodoxin
Synonym:  Synonym not specified
Accession:  S03539
</body>
</html>
</notes>
<annotation>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>SIMPLE_MOLECULE</celldesigner:class>
<celldesigner:name>Oxidized_br_Flavodoxin</celldesigner:name>
</celldesigner:speciesIdentity>
</annotation>
</species>
</listOfSpecies>
<listOfReactions>
<reaction id="r1" reversible="false">
<annotation>
<celldesigner:reactionType>STATE_TRANSITION</celldesigner:reactionType>
<celldesigner:baseReactants>s3</celldesigner:baseReactants>
<celldesigner:baseProducts>s2</celldesigner:baseProducts>
<celldesigner:listOfReactantLinks>
<celldesigner:reactantLink alias="a33" reactant="s23" targetLineIndex="-1,0"/>
</celldesigner:listOfReactantLinks>
<celldesigner:listOfProductLinks>
<celldesigner:productLink alias="a34" product="s24" targetLineIndex="-1,0"/>
<celldesigner:productLink alias="a6" product="s6" targetLineIndex="-1,1"/>
</celldesigner:listOfProductLinks>
<celldesigner:editPoints>0.33333333333333326,-2.220446049250313E-16 0.6666666666666665,-4.440892098500626E-16</celldesigner:editPoints>
<celldesigner:listOfModification>
<celldesigner:modification aliases="a38" editPoints="0.3333333333333335,-8.881784197001252E-16 0.6666666666666667,-1.7763568394002505E-15" modifiers="s28" targetLineIndex="-1,1" type="CATALYSIS"/>
</celldesigner:listOfModification>
</annotation>
<listOfReactants>
<speciesReference species="s3">
<annotation>
<celldesigner:alias>a3</celldesigner:alias>
</annotation>
</speciesReference>
<speciesReference species="s23">
<annotation>
<celldesigner:alias>a33</celldesigner:alias>
</annotation>
</speciesReference>
</listOfReactants>
<listOfProducts>
<speciesReference species="s2">
<annotation>
<celldesigner:alias>a2</celldesigner:alias>
</annotation>
</speciesReference>
<speciesReference species="s24">
<annotation>
<celldesigner:alias>a34</celldesigner:alias>
</annotation>
</speciesReference>
<speciesReference species="s6">
<annotation>
<celldesigner:alias>a6</celldesigner:alias>
</annotation>
</speciesReference>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="s28">
<annotation>
<celldesigner:alias>a38</celldesigner:alias>
</annotation>
</modifierSpeciesReference>
</listOfModifiers>
</reaction>
<reaction id="r2" reversible="false">
<annotation>
<celldesigner:reactionType>STATE_TRANSITION</celldesigner:reactionType>
<celldesigner:baseReactants>s1</celldesigner:baseReactants>
<celldesigner:baseProducts>s11</celldesigner:baseProducts>
<celldesigner:listOfReactantLinks>
<celldesigner:reactantLink alias="a7" reactant="s7" targetLineIndex="-1,0"/>
</celldesigner:listOfReactantLinks>
<celldesigner:listOfProductLinks>
<celldesigner:productLink alias="a8" product="s8" targetLineIndex="-1,1"/>
</celldesigner:listOfProductLinks>
<celldesigner:editPoints>0.33333333333333337,-4.440892098500626E-16 0.6666666666666666,-8.881784197001252E-16</celldesigner:editPoints>
<celldesigner:listOfModification>
<celldesigner:modification aliases="a39" editPoints="0.3333333333333339,-4.440892098500626E-16 0.666666666666667,-4.440892098500626E-16" modifiers="s29" targetLineIndex="-1,1" type="CATALYSIS"/>
</celldesigner:listOfModification>
</annotation>
<listOfReactants>
<speciesReference species="s1">
<annotation>
<celldesigner:alias>a1</celldesigner:alias>
</annotation>
</speciesReference>
<speciesReference species="s7">
<annotation>
<celldesigner:alias>a7</celldesigner:alias>
</annotation>
</speciesReference>
</listOfReactants>
<listOfProducts>
<speciesReference species="s11">
<annotation>
<celldesigner:alias>a11</celldesigner:alias>
</annotation>
</speciesReference>
<speciesReference species="s8">
<annotation>
<celldesigner:alias>a8</celldesigner:alias>
</annotation>
</speciesReference>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="s29">
<annotation>
<celldesigner:alias>a39</celldesigner:alias>
</annotation>
</modifierSpeciesReference>
</listOfModifiers>
</reaction>
<reaction id="r3" reversible="false">
<annotation>
<celldesigner:reactionType>STATE_TRANSITION</celldesigner:reactionType>
<celldesigner:baseReactants>s11</celldesigner:baseReactants>
<celldesigner:baseProducts>s2</celldesigner:baseProducts>
<celldesigner:listOfReactantLinks>
<celldesigner:reactantLink alias="a9" reactant="s9" targetLineIndex="-1,0"/>
</celldesigner:listOfReactantLinks>
<celldesigner:listOfProductLinks>
<celldesigner:productLink alias="a10" product="s10" targetLineIndex="-1,1"/>
</celldesigner:listOfProductLinks>
<celldesigner:editPoints>0.33333333333333304,0.0 0.6666666666666667,0.0</celldesigner:editPoints>
<celldesigner:listOfModification>
<celldesigner:modification aliases="a40" editPoints="0.33333333333333215,0.0 0.666666666666667,0.0" modifiers="s30" targetLineIndex="-1,1" type="CATALYSIS"/>
</celldesigner:listOfModification>
</annotation>
<listOfReactants>
<speciesReference species="s11">
<annotation>
<celldesigner:alias>a11</celldesigner:alias>
</annotation>
</speciesReference>
<speciesReference species="s9">
<annotation>
<celldesigner:alias>a9</celldesigner:alias>
</annotation>
</speciesReference>
</listOfReactants>
<listOfProducts>
<speciesReference species="s2">
<annotation>
<celldesigner:alias>a2</celldesigner:alias>
</annotation>
</speciesReference>
<speciesReference species="s10">
<annotation>
<celldesigner:alias>a10</celldesigner:alias>
</annotation>
</speciesReference>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="s30">
<annotation>
<celldesigner:alias>a40</celldesigner:alias>
</annotation>
</modifierSpeciesReference>
</listOfModifiers>
</reaction>
<reaction id="r4" reversible="false">
<annotation>
<celldesigner:reactionType>STATE_TRANSITION</celldesigner:reactionType>
<celldesigner:baseReactants>s2</celldesigner:baseReactants>
<celldesigner:baseProducts>s16</celldesigner:baseProducts>
<celldesigner:listOfReactantLinks>
<celldesigner:reactantLink alias="a31" reactant="s6" targetLineIndex="-1,0"/>
</celldesigner:listOfReactantLinks>
<celldesigner:listOfProductLinks>
<celldesigner:productLink alias="a32" product="s22" targetLineIndex="-1,1"/>
</celldesigner:listOfProductLinks>
<celldesigner:editPoints>0.3333333333333335,-8.881784197001252E-16 0.6666666666666665,0.0</celldesigner:editPoints>
<celldesigner:listOfModification>
<celldesigner:modification aliases="a41" editPoints="0.33333333333333215,0.0 0.6666666666666661,-8.881784197001252E-16" modifiers="s31" targetLineIndex="-1,1" type="CATALYSIS"/>
</celldesigner:listOfModification>
</annotation>
<listOfReactants>
<speciesReference species="s2">
<annotation>
<celldesigner:alias>a2</celldesigner:alias>
</annotation>
</speciesReference>
<speciesReference species="s6">
<annotation>
<celldesigner:alias>a31</celldesigner:alias>
</annotation>
</speciesReference>
</listOfReactants>
<listOfProducts>
<speciesReference species="s16">
<annotation>
<celldesigner:alias>a21</celldesigner:alias>
</annotation>
</speciesReference>
<speciesReference species="s22">
<annotation>
<celldesigner:alias>a32</celldesigner:alias>
</annotation>
</speciesReference>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference species="s31">
<annotation>
<celldesigner:alias>a41</celldesigner:alias>
</annotation>
</modifierSpeciesReference>
</listOfModifiers>
</reaction>
<reaction id="r5" reversible="false">
<annotation>
<celldesigner:reactionType>STATE_TRANSITION</celldesigner:reactionType>
<celldesigner:baseReactants>s16</celldesigner:baseReactants>
<celldesigner:baseProducts>s17</celldesigner:baseProducts>
<celldesigner:listOfReactantLinks>
<celldesigner:reactantLink alias="a29" reactant="s20" targetLineIndex="-1,0"/>
</celldesigner:listOfReactantLinks>
<celldesigner:listOfProductLinks>
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</sbml>


