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</rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD50"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000113522"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:9816"/> </rdf:Bag> </bqbiol:isDescribedBy> <dcterms:modified rdf:parseType="Resource"/> </rdf:Description> </rdf:RDF> </body> </html> </celldesigner:notes> <celldesigner:annotation> <celldesigner:complexSpecies>s_id_csa24</celldesigner:complexSpecies> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa161</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> </celldesigner:state> </celldesigner:speciesIdentity> </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa160" name="MRE11"> <celldesigner:notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body> Symbol: MRE11 Name: MRE11 homolog, double strand break repair nuclease Previous Symbols: MRE11A Synonyms: ATLD HGNC_ID: 7230 EntrezGene_ID: 4361 RefSeq_ID: NM_005591 SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#"> <rdf:Description rdf:about="#s_id_sa160"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MRE11"/></rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:4361"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P49959"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000020922"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_005591"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:7230"/> </rdf:Bag> </bqbiol:isDescribedBy> <dcterms:modified rdf:parseType="Resource"/> </rdf:Description> </rdf:RDF> </body> </html> </celldesigner:notes> <celldesigner:annotation> <celldesigner:complexSpecies>s_id_csa24</celldesigner:complexSpecies> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa160</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> </celldesigner:state> </celldesigner:speciesIdentity> </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa159" name="dsDNA"> <celldesigner:notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body> SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#"> <rdf:Description rdf:about="#s_id_sa159"> <dcterms:modified rdf:parseType="Resource"/></rdf:Description> </rdf:RDF> </body> </html> </celldesigner:notes> <celldesigner:annotation> <celldesigner:complexSpecies>s_id_csa24</celldesigner:complexSpecies> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>dsDNA</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa125" name="RAD50"> <celldesigner:notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body> Symbol: RAD50 Name: RAD50 double strand break repair protein Synonyms: RAD50-2, hRad50 HGNC_ID: 9816 EntrezGene_ID: 10111 RefSeq_ID: NM_005732 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#"> <rdf:Description rdf:about="#s_id_sa125"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:10111"/></rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_005732"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:Q92878"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD50"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000113522"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:9816"/> </rdf:Bag> </bqbiol:isDescribedBy> <dcterms:modified rdf:parseType="Resource"/> </rdf:Description> </rdf:RDF> </body> </html> </celldesigner:notes> <celldesigner:annotation> <celldesigner:complexSpecies>s_id_csa10</celldesigner:complexSpecies> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa125</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> </celldesigner:state> </celldesigner:speciesIdentity> </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa123" name="dsDNA"> <celldesigner:notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body> SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#"> <rdf:Description rdf:about="#s_id_sa123"> <dcterms:modified rdf:parseType="Resource"/></rdf:Description> </rdf:RDF> </body> </html> </celldesigner:notes> <celldesigner:annotation> <celldesigner:complexSpecies>s_id_csa10</celldesigner:complexSpecies> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>dsDNA</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa124" name="MRE11"> <celldesigner:notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body> Symbol: MRE11 Name: MRE11 homolog, double strand break repair nuclease Previous Symbols: MRE11A Synonyms: ATLD HGNC_ID: 7230 EntrezGene_ID: 4361 RefSeq_ID: NM_005591 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#"> <rdf:Description rdf:about="#s_id_sa124"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MRE11"/></rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:4361"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P49959"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000020922"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_005591"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:7230"/> </rdf:Bag> </bqbiol:isDescribedBy> <dcterms:modified rdf:parseType="Resource"/> </rdf:Description> </rdf:RDF> </body> </html> </celldesigner:notes> <celldesigner:annotation> <celldesigner:complexSpecies>s_id_csa10</celldesigner:complexSpecies> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa124</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> </celldesigner:state> </celldesigner:speciesIdentity> </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s133" name=" RRM1"> <celldesigner:notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body/> </html> </celldesigner:notes> <celldesigner:annotation> <celldesigner:complexSpecies>s135</celldesigner:complexSpecies> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>pr61</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> </celldesigner:state> </celldesigner:speciesIdentity> </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s134" name="RRM2"> <celldesigner:notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body/> </html> </celldesigner:notes> <celldesigner:annotation> <celldesigner:complexSpecies>s135</celldesigner:complexSpecies> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>pr62</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> </celldesigner:state> </celldesigner:speciesIdentity> </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s139" name="TBK1"> <celldesigner:notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body> Symbol: TBK1 Name: TANK binding kinase 1 Synonyms: NAK HGNC_ID: 11584 EntrezGene_ID: 29110 RefSeq_ID: NM_013254 SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 </body> </html> </celldesigner:notes> <celldesigner:annotation> <celldesigner:complexSpecies>s_id_csa20</celldesigner:complexSpecies> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa80</celldesigner:proteinReference> </celldesigner:speciesIdentity> </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa149" name="STING_p"> <celldesigner:notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body> SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#"> <rdf:Description rdf:about="#s_id_sa149"> <dcterms:modified rdf:parseType="Resource"/></rdf:Description> </rdf:RDF> </body> </html> </celldesigner:notes> <celldesigner:annotation> <celldesigner:complexSpecies>s_id_csa20</celldesigner:complexSpecies> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa110</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> <celldesigner:listOfModifications> <celldesigner:modification residue="rs1" state="phosphorylated"/> 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<celldesigner:listOfInternalOperatorsInBlockDiagram/> <celldesigner:listOfInternalLinksInBlockDiagram/> </celldesigner:blockDiagram> </celldesigner:listOfBlockDiagrams> </celldesigner:extension> </annotation> <listOfUnitDefinitions> <unitDefinition metaid="length" id="length" name="length"> <listOfUnits> <unit metaid="CDMT00152" kind="metre"/> </listOfUnits> </unitDefinition> <unitDefinition metaid="time" id="time" name="time"> <listOfUnits> <unit metaid="CDMT00153" kind="second"/> </listOfUnits> </unitDefinition> <unitDefinition metaid="area" id="area" name="area"> <listOfUnits> <unit metaid="CDMT00154" kind="metre" exponent="2"/> </listOfUnits> </unitDefinition> <unitDefinition metaid="substance" id="substance" name="substance"> <listOfUnits> <unit metaid="CDMT00155" kind="mole"/> </listOfUnits> </unitDefinition> <unitDefinition metaid="volume" id="volume" name="volume"> <listOfUnits> <unit metaid="CDMT00156" kind="litre"/> </listOfUnits> </unitDefinition> </listOfUnitDefinitions> 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xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>SemanticZoomLevelVisibility: 0 SemanticZoomLevelTransparency: 1 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:name>pulmonary endothelial cell</celldesigner:name> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_ca10"> <bqbiol:is> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:mesh:D056809"/> </rdf:Bag> </bqbiol:is> </rdf:Description> </rdf:RDF> </annotation> </compartment> <compartment metaid="s_id_ca6" id="s_id_ca6" name="nucleus" size="1" units="volume" outside="s_id_ca10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 3 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:name>nucleus</celldesigner:name> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_ca6"> <bqbiol:isVersionOf> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.go:GO%3A0005634"/> </rdf:Bag> </bqbiol:isVersionOf> </rdf:Description> </rdf:RDF> </annotation> </compartment> <compartment metaid="s_id_ca5" id="s_id_ca5" name="endolysosome" size="1" units="volume" outside="s_id_ca10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 3 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<celldesigner:extension> <celldesigner:name>endoplasmic reticulum</celldesigner:name> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_ca4"> <bqbiol:isVersionOf> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.go:GO%3A0005783"/> </rdf:Bag> </bqbiol:isVersionOf> </rdf:Description> </rdf:RDF> </annotation> </compartment> <compartment metaid="s_id_ca3" id="s_id_ca3" name="Golgi apparatus" size="1" units="volume" outside="s_id_ca10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 3 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:name>Golgi 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Synonyms: 1-beta-D-Ribofuranosylcytosine, 1beta-D-ribofuranosylcytosine, 4-AMINO-1-BETA-D-RIBOFURANOSYL-2(1H)-PYRIMIDINONE, 4-amino-1-beta-D-ribofuranosylpyrimidin-2(1H)-one, 4-amino-1beta-D-ribofuranosyl-2(1H)-pyrimidinone, Cyd, Cytidin, Cytidine, Cytosine riboside, Zytidin, cytidine, cytosine-1beta-D-Ribofuranoside SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>cytidine</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa31"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A17562"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa8" id="s_id_sa8" name="H2O" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: water Synonyms: BOUND WATER, H2O, H2O, HOH, WATER, Wasser, Water, [OH2], acqua, agua, aqua, dihydridooxygen, dihydrogen oxide, eau, hydrogen hydroxide SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>H2O</celldesigner:name> </celldesigner:speciesIdentity> 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</bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_001571"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRF3"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:3661"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_csa4" id="s_id_csa4" name="cGAMP:STING" compartment="s_id_ca3" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 3 The cGAS-cGAMP-STING Pathway: A Molecular Link Between Immunity and Metabolism Diabetes 2019 Jun; 68(6): 1099-1108. </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>innerSurface</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>COMPLEX</celldesigner:class> <celldesigner:name>cGAMP:STING</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_csa4"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.go:GO%3A1990231"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa80" id="s_id_sa80" name="TBK1" compartment="s_id_ca3" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: TBK1 Name: TANK binding kinase 1 Synonyms: NAK HGNC_ID: 11584 EntrezGene_ID: 29110 RefSeq_ID: NM_013254 SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>transmembrane</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa80</celldesigner:proteinReference> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa80"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TBK1"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000183735"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:Q9UHD2"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_013254"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:11584"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:29110"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa78" id="s_id_sa78" name="cGAS" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: CGAS Name: cyclic GMP-AMP synthase Previous Symbols: C6orf150, MB21D1 HGNC_ID: 21367 EntrezGene_ID: 115004 RefSeq_ID: NM_138441 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 Autophagy induction via STING trafficking is a primordial function of the cGAS pathway Nature volume 567, pages 262–266 (2019) </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa78</celldesigner:proteinReference> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa78"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000164430"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:21367"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:115004"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:Q8N884"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CGAS"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_138441"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa27" id="s_id_sa27" name="UMP" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: uridine 5'-monophosphate(2-) Synonyms: 5'-uridylate, UMP, UMP dianion, UMP(2-), uridine 5'-phosphate SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>UMP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa27"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A57865"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa83" id="s_id_sa83" name="cGAMP" compartment="s_id_ca10" initialAmount="0" charge="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>cGAMP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa83"> <bqbiol:isVersionOf> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A75947"/> </rdf:Bag> </bqbiol:isVersionOf> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa93" id="s_id_sa93" name="WIPI2" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: WIPI2 Name: WD repeat domain, phosphoinositide interacting 2 Synonyms: ATG18B, ATG21, CGI-50, DKFZP434J154, DKFZp686P02188, FLJ12979, FLJ14217, FLJ42984 HGNC_ID: 32225 EntrezGene_ID: 26100 RefSeq_ID: NM_015610 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa93</celldesigner:proteinReference> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re59"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa93"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_015610"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:32225"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WIPI2"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000157954"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:26100"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:Q9Y4P8"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_csa3" id="s_id_csa3" name="cGAMP:STING" compartment="s_id_ca4" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 3 The cGAS-cGAMP-STING Pathway: A Molecular Link Between Immunity and Metabolism Diabetes 2019 Jun; 68(6): 1099-1108. </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>transmembrane</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>COMPLEX</celldesigner:class> <celldesigner:name>cGAMP:STING</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_csa3"> <bqbiol:isVersionOf> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.go:GO%3A1990231"/> </rdf:Bag> </bqbiol:isVersionOf> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa140" id="s_id_sa140" name="RNA_space_biosynthesis" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: RNA biosynthetic process SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 The chemical reactions and pathways resulting in the formation of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage. Includes polymerization of ribonucleotide monomers. Refers not only to transcription but also to e.g. viral RNA replication. </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PHENOTYPE</celldesigner:class> <celldesigner:name>RNA_space_biosynthesis</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa140"> <bqbiol:is> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.go:GO%3A0032774"/> </rdf:Bag> </bqbiol:is> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa143" id="s_id_sa143" name="virus_space_replication" compartment="s_id_ca10" initialAmount="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PHENOTYPE</celldesigner:class> <celldesigner:name>virus_space_replication</celldesigner:name> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re69"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa143"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.go:GO%3A0019079"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa46" id="s_id_sa46" name="dCDP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: dCDP Synonyms: 2'-Deoxycytidine 5'-diphosphate, 2'-Deoxycytidine diphosphate, D-1beta-Ribofuranosylcytosine diphosphate, dCDP, deoxycytidine diphosphate SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>dCDP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa46"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A28846"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa35" id="s_id_sa35" name="UDP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: UDP Synonyms: UDP, Uridine 5'-diphosphate, Uridine diphosphate SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>UDP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa35"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A17659"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_csa16" id="s_id_csa16" name="cGAMP_minus_STING" compartment="s_id_ca7" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 3 The cGAS-cGAMP-STING Pathway: A Molecular Link Between Immunity and Metabolism Diabetes 2019 Jun; 68(6): 1099-1108. </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>transmembrane</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>COMPLEX</celldesigner:class> <celldesigner:name>cGAMP_minus_STING</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> </annotation> </species> <species metaid="s_id_sa141" id="s_id_sa141" name="DNA_space_biosynthesis" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: DNA biosynthetic process SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 The cellular DNA metabolic process resulting in the formation of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one. </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PHENOTYPE</celldesigner:class> <celldesigner:name>DNA_space_biosynthesis</celldesigner:name> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re69"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa141"> <bqbiol:is> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.go:GO%3A0071897"/> </rdf:Bag> </bqbiol:is> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa58" id="s_id_sa58" name="dTMP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: dTMP Synonyms: (dT)1, 5'-TMP, 5'-Thymidylic acid, 5-methyl-dUMP, THYMIDINE-5'-PHOSPHATE, TMP, Thymidine 5'-phosphate, Thymidine monophosphate, Thymidylate, Thymidylic acid, deoxyribosylthymine monophosphate, ribothymidine 5'-monophosphate, thymidine 5'-(dihydrogen phosphate), thymidine 5'-phosphoric acid, thymidine-5'-monophosphoric acid SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>dTMP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa58"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A17013"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa97" id="s_id_sa97" name="RAD50" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: RAD50 Name: RAD50 double strand break repair protein Synonyms: RAD50-2, hRad50 HGNC_ID: 9816 EntrezGene_ID: 10111 RefSeq_ID: NM_005732 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa97</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> </celldesigner:state> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa97"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:10111"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_005732"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:Q92878"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD50"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000113522"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:9816"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_csa13" id="s_id_csa13" name="cGAMP:STING:LC3" compartment="s_id_ca9" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 1 Autophagy induction via STING trafficking is a primordial function of the cGAS pathway Nature volume 567, pages262–266(2019) https://doi.org/10.1038/s41586-019-1006-9 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>transmembrane</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>COMPLEX</celldesigner:class> <celldesigner:name>cGAMP:STING:LC3</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> </annotation> </species> <species metaid="s_id_sa90" id="s_id_sa90" name="IFNA1" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: IFNA1 Name: interferon alpha 1 Synonyms: IFL, IFN, IFN-ALPHA, IFN-alphaD, IFNA13, IFNA@ HGNC_ID: 5417 EntrezGene_ID: 3439 RefSeq_ID: NM_024013 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa90</celldesigner:proteinReference> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa90"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNA1"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:3439"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_024013"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P01562"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:5417"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000197919"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_csa1" id="s_id_csa1" name="cGAS:dsDNA" compartment="s_id_ca10" initialAmount="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>COMPLEX</celldesigner:class> <celldesigner:name>cGAS:dsDNA</celldesigner:name> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re39"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" 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0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>ADP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa13"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A16761"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa94" id="s_id_sa94" name="LC3" compartment="s_id_ca10" initialAmount="0" charge="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa94</celldesigner:proteinReference> </celldesigner:speciesIdentity> </celldesigner:extension> </annotation> </species> <species metaid="s_id_sa81" id="s_id_sa81" name="ATP" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: ATP Synonyms: ADENOSINE-5'-TRIPHOSPHATE, ATP, Adenosine 5'-triphosphate, Adenosine triphosphate, Adephos, Adetol, Adynol, Atipi, Atriphos, Cardenosine, Fosfobion, Glucobasin, H4atp, Myotriphos, Triadenyl, Triphosphaden SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>ATP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa81"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A15422"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_csa6" id="s_id_csa6" name="NF_minus_kB" compartment="s_id_ca5" initialAmount="0" charge="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>COMPLEX</celldesigner:class> <celldesigner:name>NF_minus_kB</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> </annotation> </species> <species metaid="s_id_sa32" id="s_id_sa32" name="CDA" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: CDA Name: cytidine deaminase Synonyms: CDD HGNC_ID: 1712 EntrezGene_ID: 978 RefSeq_ID: NM_001785 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa32</celldesigner:proteinReference> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re11"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa32"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P32320"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:978"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_001785"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000158825"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDA"/> </rdf:Bag> </bqbiol:isDescribedBy> 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Diabetes 2019 Jun; 68(6): 1099-1108. </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>transmembrane</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>COMPLEX</celldesigner:class> <celldesigner:name>cGAMP_minus_STING</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> </annotation> </species> <species metaid="s_id_sa36" id="s_id_sa36" name="CDP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: CDP Synonyms: 5'-CDP, CDP, CYTIDINE-5'-DIPHOSPHATE, Cytidine 5'-diphosphate, Cytidine 5'-diphosphoric acid, Cytidine 5'-pyrophosphate, Cytidine diphosphate, Cytidine, 5'-(trihydrogen pyrophosphate) SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>CDP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa36"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A17239"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa92" id="s_id_sa92" name="SAR1A" compartment="s_id_ca4" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: SAR1A Name: secretion associated Ras related GTPase 1A Previous Symbols: SARA1 Synonyms: SAR1, Sara HGNC_ID: 10534 EntrezGene_ID: 56681 RefSeq_ID: NM_001142648 SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>transmembrane</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa92</celldesigner:proteinReference> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re58"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description 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</head> <body>Name: ubiquinones Synonyms: CoQ, Coenzym Q, Coenzyme Q, Koenzym Q, Q, Ubichinon, Ubiquinone, Ubiquinones, a ubiquinone, coenzyme Q, coenzymes Q, mitochondrial ubiquinone, mitochondrial ubiquinones, mitoquinones SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>innerSurface</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>CoQ</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa21"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A16389"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa25" id="s_id_sa25" name="UMPS" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: UMPS Name: uridine monophosphate synthetase HGNC_ID: 12563 EntrezGene_ID: 7372 RefSeq_ID: NM_000373 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa25</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> </celldesigner:state> </celldesigner:speciesIdentity> 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</bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000114491"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P11172"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa87" id="s_id_sa87" name="IFNB1" compartment="c10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: IFNB1 Name: interferon beta 1 Previous Symbols: IFNB Synonyms: IFB, IFF HGNC_ID: 5434 EntrezGene_ID: 3456 RefSeq_ID: NM_002176 SemanticZoomLevelVisibility: 0 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa87</celldesigner:proteinReference> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa87"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000171855"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNB1"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:5434"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P01574"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_002176"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:3456"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa19" id="s_id_sa19" name="CAD" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: CAD Name: carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase Synonyms: GATD4 HGNC_ID: 1424 EntrezGene_ID: 790 RefSeq_ID: NM_001306079 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa19</celldesigner:proteinReference> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re2"/> <celldesigner:catalyzed reaction="re4"/> <celldesigner:catalyzed reaction="re3"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa19"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_001306079"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:1424"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAD"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P27708"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:790"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000084774"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa43" id="s_id_sa43" name="CTPS1" compartment="s_id_ca10" initialAmount="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa43</celldesigner:proteinReference> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re21"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa43"> <bqbiol:isVersionOf> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:HGNC%3A2519"/> </rdf:Bag> </bqbiol:isVersionOf> <bqmodel:is> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P17812"/> </rdf:Bag> </bqmodel:is> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa142" id="s_id_sa142" name="DNA" compartment="s_id_ca10" initialAmount="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>GENE</celldesigner:class> <celldesigner:geneReference>g_s_id_sa142</celldesigner:geneReference> </celldesigner:speciesIdentity> </celldesigner:extension> </annotation> </species> <species metaid="s_id_sa60" id="s_id_sa60" name="dTDP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: dTDP Synonyms: 2'-deoxyribosylthymine 5'-(trihydrogen diphosphate), Deoxythymidine 5'-diphosphate, THYMIDINE-5'- DIPHOSPHATE, dTDP, deoxy-TDP, thymidine 5'-diphosphate, thymidine 5'-pyrophosphate SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>dTDP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa60"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A18075"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa77" id="s_id_sa77" name="dsDNA" compartment="s_id_ca10" initialAmount="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>dsDNA</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa77"> <bqbiol:isVersionOf> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A75909"/> </rdf:Bag> </bqbiol:isVersionOf> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa88" id="s_id_sa88" name="IFNA1" compartment="s_id_ca6" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: IFNA1 Name: interferon alpha 1 Synonyms: IFL, IFN, IFN-ALPHA, IFN-alphaD, IFNA13, IFNA@ HGNC_ID: 5417 EntrezGene_ID: 3439 RefSeq_ID: NM_024013 SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>RNA</celldesigner:class> <celldesigner:rnaReference>r_s_id_sa88</celldesigner:rnaReference> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa88"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNA1"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:3439"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_024013"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P01562"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:5417"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000197919"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa40" id="s_id_sa40" name="UTP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: UTP Synonyms: 5'-UTP, H4utp, UTP, Uridine 5'-triphosphate, Uridine triphosphate, uridine 5'-triphosphoric acid SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>UTP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa40"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A15713"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa62" id="s_id_sa62" name="dTTP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: dTTP Synonyms: 2'-deoxythymidine triphosphate, 5'-TTP, Deoxythymidine 5'-triphosphate, Deoxythymidine triphosphate, THYMIDINE-5'-TRIPHOSPHATE, TTP, dTTP, dThd5'PPP, deoxy-TTP, pppdT, thymidine 5'-triphosphate SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>dTTP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa62"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A18077"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa37" id="s_id_sa37" name="uridine" compartment="c10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: uridine Synonyms: 1-beta-D-ribofuranosylpyrimidine-2,4(1H,3H)-dione, 1-beta-D-ribofuranosyluracil, URIDINE, Urd, Uridin, Uridine, beta-Uridine, u, uridine SemanticZoomLevelVisibility: 0 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>uridine</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa37"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A16704"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa98" id="s_id_sa98" name="STING" compartment="s_id_ca4" initialAmount="0" hasOnlySubstanceUnits="true" charge="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>innerSurface</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa98</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> </celldesigner:state> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa98"> <bqbiol:isVersionOf> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:Q86WV6"/> </rdf:Bag> </bqbiol:isVersionOf> <bqbiol:isVersionOf> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:HGNC%3A27962"/> </rdf:Bag> </bqbiol:isVersionOf> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa10" id="s_id_sa10" name="L_minus_Glu" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: L-glutamic acid Synonyms: (S)-2-aminopentanedioic acid, (S)-glutamic acid, E, GLUTAMIC ACID, Glu, Glutamate, L-Glu, L-Glutamic acid, L-Glutaminic acid, L-Glutaminsaeure, acide glutamique, acido glutamico, acidum glutamicum, glutamic acid SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>L_minus_Glu</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa10"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A16015"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa30" id="s_id_sa30" name="uridine" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: uridine Synonyms: 1-beta-D-ribofuranosylpyrimidine-2,4(1H,3H)-dione, 1-beta-D-ribofuranosyluracil, URIDINE, Urd, Uridin, Uridine, beta-Uridine, u, uridine SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>uridine</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa30"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A16704"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa91" id="s_id_sa91" name="IFNB1" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: IFNB1 Name: interferon beta 1 Previous Symbols: IFNB Synonyms: IFB, IFF HGNC_ID: 5434 EntrezGene_ID: 3456 RefSeq_ID: NM_002176 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa91</celldesigner:proteinReference> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa91"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000171855"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNB1"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:5434"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P01574"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_002176"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:3456"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa64" id="s_id_sa64" name="P1788" compartment="s_id_ca10" initialAmount="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>P1788</celldesigner:name> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re5"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa64"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:31740051"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa86" id="s_id_sa86" name="IFNA1" compartment="c10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: IFNA1 Name: interferon alpha 1 Synonyms: IFL, IFN, IFN-ALPHA, IFN-alphaD, IFNA13, IFNA@ HGNC_ID: 5417 EntrezGene_ID: 3439 RefSeq_ID: NM_024013 SemanticZoomLevelVisibility: 0 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa86</celldesigner:proteinReference> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa86"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNA1"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:3439"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_024013"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P01562"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:5417"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000197919"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_csa5" id="s_id_csa5" name="STING:TBK1" compartment="s_id_ca5" initialAmount="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>COMPLEX</celldesigner:class> <celldesigner:name>STING:TBK1</celldesigner:name> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re57"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_csa5"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:30842653"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa53" id="s_id_sa53" name="dCTP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: dCTP Synonyms: 2'-Deoxycytidine 5'-triphosphate, Deoxycytidine 5'-triphosphate, Deoxycytidine triphosphate, dCTP SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>dCTP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa53"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A16311"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa29" id="s_id_sa29" name="PRPP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: 5-O-phosphono-alpha-D-ribofuranosyl diphosphate Synonyms: 5-Phospho-alpha-D-ribose 1-diphosphate, 5-Phosphoribosyl 1-pyrophosphate, 5-Phosphoribosyl diphosphate, ALPHA-PHOSPHORIBOSYLPYROPHOSPHORIC ACID, PRPP, PRib-PP, alpha-D-ribofuranose 5-(dihydrogen phosphate) 1-(trihydrogen diphosphate), phosphoribosyl pyrophosphate, phosphoribosylpyrophosphate SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>PRPP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa29"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A17111"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa146" id="s_id_sa146" name="IFNA1" compartment="s_id_ca6" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: IFNA1 Name: interferon alpha 1 Synonyms: IFL, IFN, IFN-ALPHA, IFN-alphaD, IFNA13, IFNA@ HGNC_ID: 5417 EntrezGene_ID: 3439 RefSeq_ID: NM_024013 SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>GENE</celldesigner:class> <celldesigner:geneReference>g_s_id_sa146</celldesigner:geneReference> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa146"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNA1"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:3439"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_024013"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P01562"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:5417"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000197919"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa100" id="s_id_sa100" name="STING" compartment="s_id_ca3" initialAmount="0" charge="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>transmembrane</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa100</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> </celldesigner:state> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa100"> <bqbiol:isVersionOf> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:Q86WV6"/> </rdf:Bag> </bqbiol:isVersionOf> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa38" id="s_id_sa38" name="cytidine" compartment="c10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: cytidine Synonyms: 1-beta-D-Ribofuranosylcytosine, 1beta-D-ribofuranosylcytosine, 4-AMINO-1-BETA-D-RIBOFURANOSYL-2(1H)-PYRIMIDINONE, 4-amino-1-beta-D-ribofuranosylpyrimidin-2(1H)-one, 4-amino-1beta-D-ribofuranosyl-2(1H)-pyrimidinone, Cyd, Cytidin, Cytidine, Cytosine riboside, Zytidin, cytidine, cytosine-1beta-D-Ribofuranoside SemanticZoomLevelVisibility: 0 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>cytidine</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa38"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A17562"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa82" id="s_id_sa82" name="GTP" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: GTP Synonyms: 5'-GTP, GTP, GUANOSINE-5'-TRIPHOSPHATE, Guanosine 5'-triphosphate, H4gtp, guanosine 5'-triphosphoric acid, guanosine triphosphate SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>GTP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa82"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A15996"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa76" id="s_id_sa76" name="Teriflunomide" compartment="s_id_ca10" initialAmount="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>DRUG</celldesigner:class> <celldesigner:name>Teriflunomide</celldesigner:name> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re5"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa76"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:drugbank:DB08880"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa85" id="s_id_sa85" name="IRF3" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: IRF3 Name: interferon regulatory factor 3 HGNC_ID: 6118 EntrezGene_ID: 3661 RefSeq_ID: NM_001571 SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>PROTEIN</celldesigner:class> <celldesigner:proteinReference>p_s_id_sa84</celldesigner:proteinReference> <celldesigner:state> <celldesigner:homodimer>2</celldesigner:homodimer> <celldesigner:listOfModifications> <celldesigner:modification residue="rs1" state="phosphorylated"/> </celldesigner:listOfModifications> </celldesigner:state> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa85"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:6118"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:Q14653"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000126456"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_001571"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRF3"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:3661"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa20" id="s_id_sa20" name="QH2" compartment="s_id_ca2" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: ubiquinol Synonyms: CoQH2, QH(2), QH2, Ubiquinol, a ubiquinol, coenzymes QH2, reduced ubiquinone, ubiquinols SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>innerSurface</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>QH2</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa20"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A17976"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa23" id="s_id_sa23" name="orotidine_space_5'_minus_monophosphate" compartment="s_id_ca10" initialAmount="0" charge="0"> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>orotidine_space_5'_minus_monophosphate</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa23"> <bqbiol:isVersionOf> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A15842"/> </rdf:Bag> </bqbiol:isVersionOf> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa47" id="s_id_sa47" name="dUTP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: dUTP Synonyms: 2'-Deoxyuridine 5'-triphosphate, 2'-deoxyuridine 5'-triphosphate, dUTP, deoxyuridine triphosphate SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>dUTP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa47"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A17625"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_csa24" id="s_id_csa24" name="MRE11:RAD50:DNA" compartment="s_id_ca4" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 3 DNA damage sensor MRE11 recognizes cytosolic double-stranded DNA and induces type I interferon by regulating STING trafficking https://doi.org/10.1073/pnas.1222694110 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>transmembrane</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>COMPLEX</celldesigner:class> <celldesigner:name>MRE11:RAD50:DNA</celldesigner:name> </celldesigner:speciesIdentity> <celldesigner:listOfCatalyzedReactions> <celldesigner:catalyzed reaction="re62"/> </celldesigner:listOfCatalyzedReactions> </celldesigner:extension> </annotation> </species> <species metaid="s_id_sa6" id="s_id_sa6" name="orotate" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: orotate Synonyms: orotate SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>orotate</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa6"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A30839"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa26" id="s_id_sa26" name="CO2" compartment="s_id_ca10" initialAmount="0" charge="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: carbon dioxide Synonyms: CARBON DIOXIDE, CO2, CO2, Carbon dioxide, E 290, E-290, E290, R-744, [CO2], carbonic anhydride SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 Charge: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>CO2</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa26"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A16526"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa41" id="s_id_sa41" name="CTP" compartment="s_id_ca10" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Name: CTP Synonyms: 5'-CTP, CTP, CYTIDINE-5'-TRIPHOSPHATE, Cytidine 5'-triphosphate, Cytidine triphosphate, H4ctp SemanticZoomLevelVisibility: 1 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> <celldesigner:name>CTP</celldesigner:name> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa41"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:obo.chebi:CHEBI%3A17677"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa147" id="s_id_sa147" name="IFNB1" compartment="s_id_ca6" initialAmount="0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Symbol: IFNB1 Name: interferon beta 1 Previous Symbols: IFNB Synonyms: IFB, IFF HGNC_ID: 5434 EntrezGene_ID: 3456 RefSeq_ID: NM_002176 SemanticZoomLevelVisibility: 3 SemanticZoomLevelTransparency: 0 </body> </html> </notes> <annotation> <celldesigner:extension> <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment> <celldesigner:speciesIdentity> <celldesigner:class>GENE</celldesigner:class> <celldesigner:geneReference>g_s_id_sa147</celldesigner:geneReference> </celldesigner:speciesIdentity> </celldesigner:extension> <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#s_id_sa147"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ensembl:ENSG00000171855"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNB1"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc:5434"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:uniprot:P01574"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:refseq:NM_002176"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:ncbigene:3456"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </species> <species metaid="s_id_sa22" id="s_id_sa22" name="dihydroorotate_space_dehydrogenase_space_holoenzyme" compartment="s_id_ca2" initialAmount="0" charge="0"> <annotation> 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The purified human protein is active in several different oligomerization states, as is its Syrian hamster homologue. 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cytosolic trifunctional CAD (carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase) protein (Ito and Uchino 1973; Iwahana et al. 1996). The purified human protein is active in several different oligomerization states, as is its Syrian hamster homologue. 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(id=reaction_glyph_7__reaction_73577, name=L-glutamine + 2 ATP + HCO3- + H2O => carbamoyl phosphate + L-glutamate + 2 ADP + orthophosphate; R-HSA-8956320_pyrimidine_biosynth-fixed.xml) <notes> <p>The synthesis of carbamoyl phosphate from glutamine, bicarbonate, and ATP is catalyzed by the carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity of cytosolic trifunctional CAD (carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase) protein (Ito and Uchino 1973; Iwahana et al. 1996). The purified human protein is active in several different oligomerization states, as is its Syrian hamster homologue. 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<celldesigner:alias>sa93</celldesigner:alias> </celldesigner:extension> </annotation> </modifierSpeciesReference> </listOfModifiers> </reaction><reaction metaid="re3" id="re3" reversible="false"> <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <head> <title/> </head> <body>Reaction (id=reaction_glyph_7__reaction_73577, name=L-glutamine + 2 ATP + HCO3- + H2O => carbamoyl phosphate + L-glutamate + 2 ADP + orthophosphate; R-HSA-8956320_pyrimidine_biosynth-fixed.xml) <notes> <p>The synthesis of carbamoyl phosphate from glutamine, bicarbonate, and ATP is catalyzed by the carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity of cytosolic trifunctional CAD (carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase) protein (Ito and Uchino 1973; Iwahana et al. 1996). The purified human protein is active in several different oligomerization states, as is its Syrian hamster homologue. 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