{ "dbId" : 10329017, "stId" : "R-CFA-5696398", "speciesName" : "Canis familiaris", "nodes" : [ { "dbId" : 10230430, "stId" : "R-CFA-5688446", "displayName" : "GTF2H5 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MY59", "standardIdentifier" : "uniprot:A0A8I3MY59", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "GTF2H5" ], "parents" : [ 10295248, 10230432 ], "children" : [ ] }, { "dbId" : 427523, "stId" : "R-ALL-427523", "displayName" : "NAD+ [nucleoplasm]", "schemaClass" : "SimpleEntity", "speciesId" : 0, "diagramIds" : [ 98367 ], "identifier" : "57540", "standardIdentifier" : "chebi:57540", "referenceType" : "ReferenceMolecule", "parents" : [ ], "children" : [ ] }, { "dbId" : 10230426, "stId" : "R-CFA-65912", "displayName" : "GTF2H1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NYI3", "standardIdentifier" : "uniprot:A0A8I3NYI3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "GTF2H1" ], "parents" : [ 10295248, 10230432 ], "children" : [ ] }, { "dbId" : 9684123, "stId" : "R-ALL-9684123", "displayName" : "Partially open bubble damaged DNA template:trimmed nascent mRNA [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10298306 ], "children" : [ ] }, { "dbId" : 10230422, "stId" : "R-CFA-65918", "displayName" : "GTF2H4 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3N6L7", "standardIdentifier" : "uniprot:A0A8I3N6L7", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "GTF2H4" ], "parents" : [ 10295248, 10230432 ], "children" : [ ] }, { "dbId" : 10230418, "stId" : "R-CFA-65914", "displayName" : "LOC478089 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NN67", "standardIdentifier" : "uniprot:A0A8I3NN67", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "LOC478089" ], "parents" : [ 10295248, 10230432 ], "children" : [ ] }, { "dbId" : 10230414, "stId" : "R-CFA-65916", "displayName" : "GTF2H3 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3P9S2", "standardIdentifier" : "uniprot:A0A8I3P9S2", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "GTF2H3" ], "parents" : [ 10295248, 10230432 ], "children" : [ ] }, { "dbId" : 10226318, "stId" : "R-CFA-939871", "displayName" : "UBA52 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "P63050", "standardIdentifier" : "uniprot:P63050", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "UBA52" ], "parents" : [ 10226336 ], "children" : [ ] }, { "dbId" : 10230410, "stId" : "R-CFA-67439", "displayName" : "ERCC3 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PFQ7", "standardIdentifier" : "uniprot:A0A8I3PFQ7", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ERCC3" ], "parents" : [ 10295248, 10230432 ], "children" : [ ] }, { "dbId" : 10230406, "stId" : "R-CFA-67443", "displayName" : "ERCC2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MQT0", "standardIdentifier" : "uniprot:A0A8I3MQT0", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ERCC2" ], "parents" : [ 10295248, 10230432 ], "children" : [ ] }, { "dbId" : 10226310, "stId" : "R-CFA-939847", "displayName" : "RPS27A [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NFB9", "standardIdentifier" : "uniprot:A0A8I3NFB9", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RPS27A" ], "parents" : [ 10226336 ], "children" : [ ] }, { "dbId" : 10230400, "stId" : "R-CFA-59012", "displayName" : "MNAT1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PKV0", "standardIdentifier" : "uniprot:A0A8I3PKV0", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "MNAT1" ], "parents" : [ 10230402 ], "children" : [ ] }, { "dbId" : 10226306, "stId" : "R-CFA-939844", "displayName" : "UBA52(1-76) [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PFZ3", "standardIdentifier" : "uniprot:A0A8I3PFZ3", "referenceType" : "ReferenceGeneProduct", "parents" : [ 10226336 ], "children" : [ ] }, { "dbId" : 10230402, "stId" : "R-CFA-69221", "displayName" : "CAK [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10230432 ], "children" : [ 10230400, 10230392, 10230396 ] }, { "dbId" : 10281136, "stId" : "R-CFA-2984281", "displayName" : "SUMO3 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3S2C8", "standardIdentifier" : "uniprot:A0A8I3S2C8", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "SUMO3" ], "parents" : [ 10299335 ], "children" : [ ] }, { "dbId" : 10294953, "stId" : "R-CFA-62590", "displayName" : "RAD23B [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NK06", "standardIdentifier" : "uniprot:A0A8I3NK06", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RAD23B" ], "parents" : [ 10295361 ], "children" : [ ] }, { "dbId" : 10294949, "stId" : "R-CFA-5688076", "displayName" : "RAD23A [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NT37", "standardIdentifier" : "uniprot:A0A8I3NT37", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RAD23A" ], "parents" : [ 10295361 ], "children" : [ ] }, { "dbId" : 10226336, "stId" : "R-CFA-68524", "displayName" : "Ub [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "diagramIds" : [ 98385, 98421, 98395 ], "parents" : [ 10298190, 10298183, 10299358, 10299337, 10233775, 10295366 ], "children" : [ 10226302, 10226318, 10226310, 10226306 ] }, { "dbId" : 10230432, "stId" : "R-CFA-109634", "displayName" : "TFIIH [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98324 ], "parents" : [ 10295374, 10298155, 10298159, 10298185, 10298306, 10298317, 10298333, 10298345, 10298338, 10298340, 10298352 ], "children" : [ 10230414, 10230430, 10230410, 10230426, 10230406, 10230422, 10230402, 10230418 ] }, { "dbId" : 10281688, "stId" : "R-CFA-3215278", "displayName" : "USP7 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NH60", "standardIdentifier" : "uniprot:A0A8I3NH60", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "USP7" ], "parents" : [ 10298235 ], "children" : [ ] }, { "dbId" : 10295503, "stId" : "R-CFA-6782492", "displayName" : "UBA52 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "P63050", "standardIdentifier" : "uniprot:P63050", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "UBA52" ], "parents" : [ 10295521 ], "children" : [ ] }, { "dbId" : 10295497, "stId" : "R-CFA-6782489", "displayName" : "RPS27A [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NFB9", "standardIdentifier" : "uniprot:A0A8I3NFB9", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RPS27A" ], "parents" : [ 10295521 ], "children" : [ ] }, { "dbId" : 10233545, "stId" : "R-CFA-109943", "displayName" : "ERCC1:ERCC4 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98338 ], "parents" : [ 10298345, 10298333, 10298329, 10295901, 10295887, 10296134 ], "children" : [ 10233539, 10233543 ] }, { "dbId" : 10295493, "stId" : "R-CFA-6782503", "displayName" : "Ub-63-RPS27A(1-76) [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NUE4", "standardIdentifier" : "uniprot:A0A8I3NUE4", "referenceType" : "ReferenceGeneProduct", "parents" : [ 10295521 ], "children" : [ ] }, { "dbId" : 10295495, "stId" : "R-CFA-6782530", "displayName" : "Ub-63-UBA52(1-76) [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PFZ3", "standardIdentifier" : "uniprot:A0A8I3PFZ3", "referenceType" : "ReferenceGeneProduct", "parents" : [ 10295521 ], "children" : [ ] }, { "dbId" : 10233543, "stId" : "R-CFA-67445", "displayName" : "ERCC4 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "diagramIds" : [ 98360 ], "identifier" : "A0A8I3RYK6", "standardIdentifier" : "uniprot:A0A8I3RYK6", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ERCC4" ], "parents" : [ 10233545 ], "children" : [ ] }, { "dbId" : 10233539, "stId" : "R-CFA-54427", "displayName" : "ERCC1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "diagramIds" : [ 98361 ], "identifier" : "A0A8I3MX85", "standardIdentifier" : "uniprot:A0A8I3MX85", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ERCC1" ], "parents" : [ 10233545 ], "children" : [ ] }, { "dbId" : 10281208, "stId" : "R-CFA-2984269-3", "displayName" : "Homologues of SUMO3 [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "parents" : [ 10299335 ], "children" : [ 10281206, 10281204 ] }, { "dbId" : 10281204, "stId" : "R-CFA-2984269", "displayName" : "SUMO2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3Q1K4", "standardIdentifier" : "uniprot:A0A8I3Q1K4", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "SUMO2" ], "parents" : [ 10281208 ], "children" : [ ] }, { "dbId" : 10281206, "stId" : "R-CFA-2984269-2", "displayName" : "SUMO3 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3S2C8", "standardIdentifier" : "uniprot:A0A8I3S2C8", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "SUMO3" ], "parents" : [ 10281208 ], "children" : [ ] }, { "dbId" : 10295521, "stId" : "R-CFA-6782535", "displayName" : "K63-Ub [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "parents" : [ 10299358, 10299351 ], "children" : [ 10295495, 10295493, 10295497, 10295503 ] }, { "dbId" : 10233887, "stId" : "R-CFA-5651800", "displayName" : "POLD,POLE [nucleoplasm]", "schemaClass" : "CandidateSet", "speciesId" : 49646, "parents" : [ 10295893, 10295889 ], "children" : [ 10227067, 10226624 ] }, { "dbId" : 10295317, "stId" : "R-CFA-5689568", "displayName" : "INO80 complex [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98321 ], "parents" : [ ], "children" : [ 10295299, 10295303, 10282795, 10295307, 10260266, 10281801, 10295311, 10295279, 10295315, 10295283, 10295287, 10295291, 10287064, 10295295 ] }, { "dbId" : 10295315, "stId" : "R-CFA-5689552", "displayName" : "INO80E [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MYV9", "standardIdentifier" : "uniprot:A0A8I3MYV9", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "INO80E" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10295311, "stId" : "R-CFA-5689559", "displayName" : "INO80D [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PD42", "standardIdentifier" : "uniprot:A0A8I3PD42", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "INO80D" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10291214, "stId" : "R-CFA-53489", "displayName" : "DDB1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NKI4", "standardIdentifier" : "uniprot:A0A8I3NKI4", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "DDB1" ], "parents" : [ 10298170, 10295259, 10296163 ], "children" : [ ] }, { "dbId" : 10291208, "stId" : "R-CFA-975973", "displayName" : "CUL4B [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PE50", "standardIdentifier" : "uniprot:A0A8I3PE50", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "CUL4B" ], "parents" : [ 10291210 ], "children" : [ ] }, { "dbId" : 10295307, "stId" : "R-CFA-5689542", "displayName" : "TFPT [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MNM3", "standardIdentifier" : "uniprot:A0A8I3MNM3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "TFPT" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10291210, "stId" : "R-CFA-976081", "displayName" : "CUL4 [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "parents" : [ 10298170, 10295261, 10296165 ], "children" : [ 10291204, 10291208 ] }, { "dbId" : 10291204, "stId" : "R-CFA-976006", "displayName" : "CUL4A [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PS79", "standardIdentifier" : "uniprot:A0A8I3PS79", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "CUL4A" ], "parents" : [ 10291210 ], "children" : [ ] }, { "dbId" : 10295303, "stId" : "R-CFA-4086091", "displayName" : "YY1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MKF1", "standardIdentifier" : "uniprot:A0A8I3MKF1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "YY1" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 6782202, "stId" : "R-ALL-6782202", "displayName" : "5'-incised damaged DNA:trimmed nascent mRNA [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10298345, 10298333 ], "children" : [ ] }, { "dbId" : 10295299, "stId" : "R-CFA-5689605", "displayName" : "INO80C [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MYN8", "standardIdentifier" : "uniprot:A0A8I3MYN8", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "INO80C" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10291252, "stId" : "R-CFA-5655487", "displayName" : "POLK [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NI78", "standardIdentifier" : "uniprot:A0A8I3NI78", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLK" ], "parents" : [ 10295895, 10295889 ], "children" : [ ] }, { "dbId" : 10234422, "stId" : "R-CFA-65748", "displayName" : "TCEA1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "diagramIds" : [ 98389 ], "identifier" : "A0A8I3S9G1", "standardIdentifier" : "uniprot:A0A8I3S9G1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "TCEA1" ], "parents" : [ 10298352, 10298340, 10298338, 10298345, 10298333, 10298323, 10298312, 10298271, 10298263 ], "children" : [ ] }, { "dbId" : 29358, "stId" : "R-ALL-29358", "displayName" : "ATP [nucleoplasm]", "schemaClass" : "SimpleEntity", "speciesId" : 0, "diagramIds" : [ 98327, 98429, 98397 ], "identifier" : "30616", "standardIdentifier" : "chebi:30616", "referenceType" : "ReferenceMolecule", "parents" : [ ], "children" : [ ] }, { "dbId" : 10277921, "stId" : "R-CFA-2186765", "displayName" : "RNF111 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "diagramIds" : [ 98427 ], "identifier" : "A0A8I3RZ38", "standardIdentifier" : "uniprot:A0A8I3RZ38", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RNF111" ], "parents" : [ ], "children" : [ ] }, { "dbId" : 10295901, "stId" : "R-CFA-5690214", "displayName" : "GG-NER incision complex:5'-incised damaged DNA:(PCNA:POLD,POLE),(MonoUb:K164-PCNA:POLK):RPA:RFC [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98346 ], "parents" : [ ], "children" : [ 10295248, 10295252, 10295242, 10295899, 5691056, 10233545, 10291161, 10295246, 10295261 ] }, { "dbId" : 10295897, "stId" : "R-CFA-6790534", "displayName" : "(PCNA:POLD,POLE),(MonoUb:K164-PCNA:POLK) [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "parents" : [ 10295899 ], "children" : [ 10295895, 10295893 ] }, { "dbId" : 10226777, "stId" : "R-CFA-1234142", "displayName" : "RBX1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NXW3", "standardIdentifier" : "uniprot:A0A8I3NXW3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RBX1" ], "parents" : [ 10298170, 10295261, 10296165 ], "children" : [ ] }, { "dbId" : 10295899, "stId" : "R-CFA-6790530", "displayName" : "(PCNA:POLD,POLE), (MonoUb:K164-PCNA:POLK):RPA:RFC [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98417 ], "parents" : [ 10298340, 10298338, 10298345, 10296150, 10296129, 10295901 ], "children" : [ 10227027, 10227082, 10295897 ] }, { "dbId" : 10277978, "stId" : "R-CFA-201568", "displayName" : "PARP1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3N694", "standardIdentifier" : "uniprot:A0A8I3N694", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "PARP1" ], "parents" : [ 10291122 ], "children" : [ ] }, { "dbId" : 10295893, "stId" : "R-CFA-6790531", "displayName" : "PCNA:POLD,POLE [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10295897 ], "children" : [ 10233887, 10227037 ] }, { "dbId" : 10295895, "stId" : "R-CFA-6790533", "displayName" : "MonoUb:K164-PCNA homotrimer:POLK [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10295897 ], "children" : [ 10233777, 10291252 ] }, { "dbId" : 10295889, "stId" : "R-CFA-6790535", "displayName" : "POLD,POLE,POLK [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "diagramIds" : [ 98345 ], "parents" : [ ], "children" : [ 10291252, 10233887 ] }, { "dbId" : 10295376, "stId" : "R-CFA-5689300", "displayName" : "Ub:XPC:RAD23:CETN2:Distorted dsDNA:PAR-UV-DDB:TFIIH Core:XPA:PAR-PARP1,PAR-PARP2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98370 ], "parents" : [ 10296141 ], "children" : [ 10295248, 10295246, 10295372 ] }, { "dbId" : 10295891, "stId" : "R-CFA-6790532", "displayName" : "PCNA homotrimer,MonoUb:K164-PCNA homotrimer [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "diagramIds" : [ 98343 ], "parents" : [ ], "children" : [ 10233777, 10227037 ] }, { "dbId" : 10295372, "stId" : "R-CFA-5696681", "displayName" : "Ub:XPC:RAD23:CETN2:Distorted dsDNA:PAR-UV-DDB:PAR-PARP1,PAR-PARP2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98323 ], "parents" : [ 10295376, 10295374 ], "children" : [ 10295370, 10291161 ] }, { "dbId" : 10295887, "stId" : "R-CFA-5691059", "displayName" : "GG-NER incision complex:5'-incised damaged DNA [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98341 ], "parents" : [ ], "children" : [ 10295248, 10295252, 10295242, 5691056, 10227082, 10233545, 10291161, 10295246, 10295261 ] }, { "dbId" : 110291, "stId" : "R-ALL-110291", "displayName" : "damaged DNA substrate:nascent mRNA hybrid [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10298185, 10298159 ], "children" : [ ] }, { "dbId" : 10295374, "stId" : "R-CFA-5689862", "displayName" : "Ub:XPC:RAD23:CETN2:Distorted dsDNA:PAR-UV-DDB:TFIIH:PAR-PARP1,PAR-PARP2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98325 ], "parents" : [ ], "children" : [ 10230432, 10295372 ] }, { "dbId" : 10295368, "stId" : "R-CFA-6782947", "displayName" : "Ub:XPC:RAD23:CETN2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10296143, 10295370, 10297613 ], "children" : [ 10295361, 10295366, 10284996 ] }, { "dbId" : 10295370, "stId" : "R-CFA-5696659", "displayName" : "Ub:XPC:RAD23:CETN2:Distorted dsDNA:PAR-UV-DDB [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10295372 ], "children" : [ 10295368, 5688114, 10295261 ] }, { "dbId" : 10295364, "stId" : "R-CFA-6782944", "displayName" : "XPC [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PYW1", "standardIdentifier" : "uniprot:A0A8I3PYW1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "XPC" ], "parents" : [ 10295366 ], "children" : [ ] }, { "dbId" : 10295366, "stId" : "R-CFA-6782951", "displayName" : "Ub:XPC [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10295368 ], "children" : [ 10226336, 10295364 ] }, { "dbId" : 10230343, "stId" : "R-CFA-54429", "displayName" : "ERCC6 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "diagramIds" : [ 98379 ], "identifier" : "A0A8I3PAF3", "standardIdentifier" : "uniprot:A0A8I3PAF3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ERCC6" ], "parents" : [ 10298352, 10298340, 10298338, 10298345, 10298333, 10298319, 10298308, 10298267, 10298164 ], "children" : [ ] }, { "dbId" : 10295361, "stId" : "R-CFA-5688130", "displayName" : "RAD23 [nucleoplasm]", "schemaClass" : "CandidateSet", "speciesId" : 49646, "diagramIds" : [ 98312 ], "parents" : [ 10299360, 10299339, 10295368, 10296157 ], "children" : [ 10294953, 10294949 ] }, { "dbId" : 10230396, "stId" : "R-CFA-69220", "displayName" : "CCNH [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3P7T2", "standardIdentifier" : "uniprot:A0A8I3P7T2", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "CCNH" ], "parents" : [ 10230402 ], "children" : [ ] }, { "dbId" : 10226302, "stId" : "R-CFA-939849", "displayName" : "RPS27A(1-76) [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NUE4", "standardIdentifier" : "uniprot:A0A8I3NUE4", "referenceType" : "ReferenceGeneProduct", "parents" : [ 10226336 ], "children" : [ ] }, { "dbId" : 10230392, "stId" : "R-CFA-69218", "displayName" : "Ghost homologue of CDK7 [nucleoplasm]", "schemaClass" : "GenomeEncodedEntity", "speciesId" : 49646, "parents" : [ 10230402 ], "children" : [ ] }, { "dbId" : 5691056, "stId" : "R-ALL-5691056", "displayName" : "damaged DNA with 5' incision [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10295901, 10295887 ], "children" : [ ] }, { "dbId" : 6782110, "stId" : "R-ALL-6782110", "displayName" : "Open bubble damaged DNA template:trimmed nascent mRNA [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10298317 ], "children" : [ ] }, { "dbId" : 10298269, "stId" : "R-CFA-6782068", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Damaged DNA template:nascent mRNA hybrid:TFIIH:ERCC6:ERCC8:DDB1:CUL4:RBX1 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298271 ], "children" : [ 10298170, 10298267 ] }, { "dbId" : 10298271, "stId" : "R-CFA-6782066", "displayName" : "TC-NER pre-incision complex [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98394 ], "parents" : [ ], "children" : [ 10234422, 10298261, 10298235, 10295246, 10298269 ] }, { "dbId" : 10298267, "stId" : "R-CFA-6782065", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Damaged DNA template:nascent mRNA hybrid:TFIIH:ERCC6 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298269 ], "children" : [ 10230343, 10298185 ] }, { "dbId" : 10298261, "stId" : "R-CFA-6781957", "displayName" : "XAB2 complex [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98390 ], "parents" : [ 10298352, 10298340, 10298338, 10298345, 10298333, 10298323, 10298312, 10298271, 10298263 ], "children" : [ 10298259, 10298243, 10298247, 10298251, 10298255, 10298239 ] }, { "dbId" : 10298263, "stId" : "R-CFA-6782063", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Damaged DNA template:nascent mRNA hybrid:TFIIH:Ub:ERCC6:ERCC8:DDB1:CUL4:RBX1:UVSSA:USP7:XAB2 complex:XPA:TCEA1:HMGN1:EP300 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98391 ], "parents" : [ ], "children" : [ 10298194, 10234422, 10298261, 10298235, 10295246 ] }, { "dbId" : 10298259, "stId" : "R-CFA-6781962", "displayName" : "ZNF830 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NBG5", "standardIdentifier" : "uniprot:A0A8I3NBG5", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ZNF830" ], "parents" : [ 10298261 ], "children" : [ ] }, { "dbId" : 10296205, "stId" : "R-CFA-5697031", "displayName" : "UV-DDB:COP9 Signalosome [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98318 ], "parents" : [ ], "children" : [ 10296165, 10296203 ] }, { "dbId" : 10229133, "stId" : "R-CFA-109909", "displayName" : "RNA Polymerase II holoenzyme complex (hyperphosphorylated) [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298159, 10298155 ], "children" : [ 10229090, 10229074, 10229094, 10229078, 10229062, 10229131, 10229082, 10229066, 10229096, 10229086, 10229070, 10229100 ] }, { "dbId" : 10296207, "stId" : "R-CFA-5691012", "displayName" : "XPC:RAD23:CETN2:Distorted dsDNA:UV-DDB [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98319 ], "parents" : [ ], "children" : [ 10296165, 5688114, 10296157 ] }, { "dbId" : 10298255, "stId" : "R-CFA-6781959", "displayName" : "PPIE [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3N8N8", "standardIdentifier" : "uniprot:A0A8I3N8N8", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "PPIE" ], "parents" : [ 10298261 ], "children" : [ ] }, { "dbId" : 10296201, "stId" : "R-CFA-5697025", "displayName" : "COPS7 [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "parents" : [ 10296203 ], "children" : [ 10296195, 10296199 ] }, { "dbId" : 10227082, "stId" : "R-CFA-68462", "displayName" : "RPA heterotrimer [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98335 ], "parents" : [ 10298333, 10298325, 10295899, 10295887, 10295265 ], "children" : [ 10226641, 10226647, 10226637 ] }, { "dbId" : 10296203, "stId" : "R-CFA-5697024", "displayName" : "COP9 signalosome [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98320 ], "parents" : [ 10298172, 10296205 ], "children" : [ 10296179, 10296183, 10296187, 10296201, 10296169, 10296191, 10296175, 10296173 ] }, { "dbId" : 10298251, "stId" : "R-CFA-6781963", "displayName" : "ISY1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "F1PV40", "standardIdentifier" : "uniprot:F1PV40", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ISY1" ], "parents" : [ 10298261 ], "children" : [ ] }, { "dbId" : 10229131, "stId" : "R-CFA-113420", "displayName" : "phospho-POLR2A [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PKJ4", "standardIdentifier" : "uniprot:A0A8I3PKJ4", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2A" ], "parents" : [ 10229133 ], "children" : [ ] }, { "dbId" : 10296199, "stId" : "R-CFA-5697023", "displayName" : "COPS7B [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PI71", "standardIdentifier" : "uniprot:A0A8I3PI71", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "COPS7B" ], "parents" : [ 10296201 ], "children" : [ ] }, { "dbId" : 10298247, "stId" : "R-CFA-5420907", "displayName" : "PRPF19 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PCM8", "standardIdentifier" : "uniprot:A0A8I3PCM8", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "PRPF19" ], "parents" : [ 10298261 ], "children" : [ ] }, { "dbId" : 6781820, "stId" : "R-ALL-6781820", "displayName" : "Damaged dsDNA with open transcription bubble [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10298155 ], "children" : [ ] }, { "dbId" : 10296195, "stId" : "R-CFA-5697011", "displayName" : "COPS7A [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PVM0", "standardIdentifier" : "uniprot:A0A8I3PVM0", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "COPS7A" ], "parents" : [ 10296201 ], "children" : [ ] }, { "dbId" : 10298243, "stId" : "R-CFA-6781960", "displayName" : "AQR [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3QBP2", "standardIdentifier" : "uniprot:A0A8I3QBP2", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "AQR" ], "parents" : [ 10298261 ], "children" : [ ] }, { "dbId" : 10226622, "stId" : "R-CFA-8866684", "displayName" : "POLE4 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3P0P6", "standardIdentifier" : "uniprot:A0A8I3P0P6", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLE4" ], "parents" : [ 10226624 ], "children" : [ ] }, { "dbId" : 10226618, "stId" : "R-CFA-8866685", "displayName" : "POLE3 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3N7G6", "standardIdentifier" : "uniprot:A0A8I3N7G6", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLE3" ], "parents" : [ 10226624 ], "children" : [ ] }, { "dbId" : 10291124, "stId" : "R-CFA-5649884", "displayName" : "PARP1,PARP2 dimers [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98363 ], "parents" : [ 10297615 ], "children" : [ 10291122 ] }, { "dbId" : 10226614, "stId" : "R-CFA-68482", "displayName" : "POLE2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MIQ9", "standardIdentifier" : "uniprot:A0A8I3MIQ9", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLE2" ], "parents" : [ 10226624 ], "children" : [ ] }, { "dbId" : 10233777, "stId" : "R-CFA-5651993", "displayName" : "MonoUb:K164-PCNA homotrimer [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10295895, 10295891 ], "children" : [ 10227035, 10233775 ] }, { "dbId" : 10291120, "stId" : "R-CFA-174874", "displayName" : "PARP2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3P8W2", "standardIdentifier" : "uniprot:A0A8I3P8W2", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "PARP2" ], "parents" : [ 10291122 ], "children" : [ ] }, { "dbId" : 10226610, "stId" : "R-CFA-68473", "displayName" : "POLE [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PWH5", "standardIdentifier" : "uniprot:A0A8I3PWH5", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLE" ], "parents" : [ 10226624 ], "children" : [ ] }, { "dbId" : 10291122, "stId" : "R-CFA-5649876", "displayName" : "PARP1,PARP2 [nucleoplasm]", "schemaClass" : "CandidateSet", "speciesId" : 49646, "parents" : [ 10291124 ], "children" : [ 10277978, 10291120 ] }, { "dbId" : 10233773, "stId" : "R-CFA-5651986", "displayName" : "PCNA [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3QKL0", "standardIdentifier" : "uniprot:A0A8I3QKL0", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "PCNA" ], "parents" : [ 10233775 ], "children" : [ ] }, { "dbId" : 10233775, "stId" : "R-CFA-5651984", "displayName" : "MonoUb:K164-PCNA [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10233777 ], "children" : [ 10226336, 10233773 ] }, { "dbId" : 10227111, "stId" : "R-CFA-53787", "displayName" : "LIG1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MKM1", "standardIdentifier" : "uniprot:A0A8I3MKM1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "LIG1" ], "parents" : [ 10298354 ], "children" : [ ] }, { "dbId" : 10295261, "stId" : "R-CFA-5696649", "displayName" : "PAR-UV-DDB [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98349 ], "parents" : [ 10295901, 10295887, 10295263, 10299341, 10296143, 10295370 ], "children" : [ 10291210, 10295259, 10226777 ] }, { "dbId" : 10298333, "stId" : "R-CFA-6782205", "displayName" : "TC-NER incision complex:5'-incised damaged DNA:trimmed nascent mRNA [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98407 ], "parents" : [ ], "children" : [ 6782202, 10230432, 10230343, 10298183, 10234422, 10298261, 10298170, 10295242, 10298235, 10227082, 10233545, 10295246 ] }, { "dbId" : 10299356, "stId" : "R-CFA-6790522", "displayName" : "XPC [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PYW1", "standardIdentifier" : "uniprot:A0A8I3PYW1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "XPC" ], "parents" : [ 10299358 ], "children" : [ ] }, { "dbId" : 10295263, "stId" : "R-CFA-6790517", "displayName" : "Open bubble-dsDNA:PAR-UV-DDB:TFIIH Core:XPA:PAR-PARP1, PAR-PARP2:CHD1L [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98333 ], "parents" : [ 10295265 ], "children" : [ 10295248, 10295252, 109944, 10291161, 10295246, 10295261 ] }, { "dbId" : 10299358, "stId" : "R-CFA-6790516", "displayName" : "Ub,SUMO,K63polyUb:XPC [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10299360 ], "children" : [ 10295521, 10226336, 10299335, 10299356 ] }, { "dbId" : 10295257, "stId" : "R-CFA-5696654", "displayName" : "DDB2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PWX3", "standardIdentifier" : "uniprot:A0A8I3PWX3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "DDB2" ], "parents" : [ 10295259 ], "children" : [ ] }, { "dbId" : 10291161, "stId" : "R-CFA-5651709", "displayName" : "PAR-PARP1,PAR-PARP2 dimers [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98353 ], "parents" : [ 10295901, 10295887, 10295263, 10299341, 10296145, 10295372 ], "children" : [ 10291159 ] }, { "dbId" : 10287064, "stId" : "R-CFA-3321990", "displayName" : "ACTG1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NE73", "standardIdentifier" : "uniprot:A0A8I3NE73", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ACTG1" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10299353, "stId" : "R-CFA-6790510", "displayName" : "K63polyUb:C87-UBE2N:UBE2V2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98423 ], "parents" : [ ], "children" : [ 10299351, 10227541 ] }, { "dbId" : 10298329, "stId" : "R-CFA-6782142", "displayName" : "TC-NER incision complex [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98405 ], "parents" : [ ], "children" : [ 10298325, 10233545 ] }, { "dbId" : 10295259, "stId" : "R-CFA-5696680", "displayName" : "DDB1:PAR-DDB2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10295261 ], "children" : [ 10295257, 10291214 ] }, { "dbId" : 10291157, "stId" : "R-CFA-5651715", "displayName" : "PARP2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3P8W2", "standardIdentifier" : "uniprot:A0A8I3P8W2", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "PARP2" ], "parents" : [ 10291159 ], "children" : [ ] }, { "dbId" : 10299349, "stId" : "R-CFA-6790511-3", "displayName" : "Homologues of K63polyUb-C87-UBE2N [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "parents" : [ 10299351 ], "children" : [ 10299347, 10299344 ] }, { "dbId" : 10298325, "stId" : "R-CFA-6782134", "displayName" : "TC-NER pre-incision complex:Open bubble damaged DNA template:RPA:ERCC5:trimmed nascent mRNA [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98403 ], "parents" : [ 10298329 ], "children" : [ 10298323, 10295242, 10227082 ] }, { "dbId" : 10295252, "stId" : "R-CFA-5688916", "displayName" : "CHD1L [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "diagramIds" : [ 98352 ], "identifier" : "A0A8I3N7P3", "standardIdentifier" : "uniprot:A0A8I3N7P3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "CHD1L" ], "parents" : [ 10295901, 10295887, 10295263, 10299341, 10296145, 10296141 ], "children" : [ ] }, { "dbId" : 10291159, "stId" : "R-CFA-5651712", "displayName" : "PAR-PARP1,PAR-PARP2 [nucleoplasm]", "schemaClass" : "CandidateSet", "speciesId" : 49646, "parents" : [ 10291161 ], "children" : [ 10291154, 10291157 ] }, { "dbId" : 10299351, "stId" : "R-CFA-6790509", "displayName" : "K63polyUb:C87-UBE2N [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10299353 ], "children" : [ 10295521, 10299349 ] }, { "dbId" : 10226647, "stId" : "R-CFA-68457", "displayName" : "RPA2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NHN6", "standardIdentifier" : "uniprot:A0A8I3NHN6", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RPA2" ], "parents" : [ 10227082 ], "children" : [ ] }, { "dbId" : 10298321, "stId" : "R-CFA-6782122", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Open bubble damaged DNA template:nascent mRNA hybrid:TFIIH:ERCC6:ERCC8:DDB1:CUL4:RBX1 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298323 ], "children" : [ 10298170, 10298319 ] }, { "dbId" : 10226641, "stId" : "R-CFA-68459", "displayName" : "RPA3 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PQZ7", "standardIdentifier" : "uniprot:A0A8I3PQZ7", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RPA3" ], "parents" : [ 10227082 ], "children" : [ ] }, { "dbId" : 10295248, "stId" : "R-CFA-5689624", "displayName" : "TFIIH Core [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98350 ], "parents" : [ 10295901, 10295887, 10295263, 10299341, 10296145, 10295376 ], "children" : [ 10230418, 10230422, 10230406, 10230426, 10230410, 10230430, 10230414 ] }, { "dbId" : 10299344, "stId" : "R-CFA-6790511", "displayName" : "UBE2N [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3P6I7", "standardIdentifier" : "uniprot:A0A8I3P6I7", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "UBE2N" ], "parents" : [ 10299349 ], "children" : [ ] }, { "dbId" : 10299347, "stId" : "R-CFA-6790511-2", "displayName" : "K63polyUb-C87-UBE2N [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PGB2", "standardIdentifier" : "uniprot:A0A8I3PGB2", "referenceType" : "ReferenceGeneProduct", "parents" : [ 10299349 ], "children" : [ ] }, { "dbId" : 10298323, "stId" : "R-CFA-6782111", "displayName" : "TC-NER pre-incision complex:Open bubble damaged DNA template:trimmed nascent mRNA [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98402 ], "parents" : [ 10298325 ], "children" : [ 10298321, 10234422, 10298261, 10298235, 10295246 ] }, { "dbId" : 10291154, "stId" : "R-CFA-5651713", "displayName" : "PARP1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3N694", "standardIdentifier" : "uniprot:A0A8I3N694", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "PARP1" ], "parents" : [ 10291159 ], "children" : [ ] }, { "dbId" : 10285004, "stId" : "R-CFA-67441", "displayName" : "XPC [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "diagramIds" : [ 98314 ], "identifier" : "A0A8I3PYW1", "standardIdentifier" : "uniprot:A0A8I3PYW1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "XPC" ], "parents" : [ 10296157 ], "children" : [ ] }, { "dbId" : 10299341, "stId" : "R-CFA-6790468", "displayName" : "Ub,SUMO:XPC:RAD23:CETN2:Open bubble-dsDNA:PAR-UV-DDB:TFIIH Core:XPA:PAR-PARP1, PAR-PARP2:CHD1L [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98424 ], "parents" : [ ], "children" : [ 10295248, 10295252, 109944, 10299339, 10291161, 10295246, 10295261 ] }, { "dbId" : 10298317, "stId" : "R-CFA-6782116", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Open bubble damaged DNA template:nascent mRNA hybrid:TFIIH [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298319 ], "children" : [ 10230432, 10298183, 6782110 ] }, { "dbId" : 10226637, "stId" : "R-CFA-68461", "displayName" : "RPA1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NHE9", "standardIdentifier" : "uniprot:A0A8I3NHE9", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RPA1" ], "parents" : [ 10227082 ], "children" : [ ] }, { "dbId" : 10298319, "stId" : "R-CFA-6782112", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Open bubble damaged DNA template:nascent mRNA hybrid:TFIIH:ERCC6 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298321 ], "children" : [ 10230343, 10298317 ] }, { "dbId" : 10295246, "stId" : "R-CFA-67437", "displayName" : "XPA [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "diagramIds" : [ 98351 ], "identifier" : "A0A8I3NWC3", "standardIdentifier" : "uniprot:A0A8I3NWC3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "XPA" ], "parents" : [ 10298345, 10298333, 10298323, 10298312, 10298271, 10298263, 10295901, 10295887, 10295263, 10299341, 10296145, 10295376 ], "children" : [ ] }, { "dbId" : 10299337, "stId" : "R-CFA-6790462", "displayName" : "Ub,SUMO:XPC [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10299339 ], "children" : [ 10226336, 10299335, 10299333 ] }, { "dbId" : 10298312, "stId" : "R-CFA-9684117", "displayName" : "TC-NER pre-incision complex:Partially open bubble damaged DNA template:trimmed nascent mRNA [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98398 ], "parents" : [ ], "children" : [ 10298310, 10234422, 10298261, 10298235, 10295246 ] }, { "dbId" : 10299339, "stId" : "R-CFA-6790461", "displayName" : "Ub,SUMO:XPC:RAD23:CETN2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10299341 ], "children" : [ 10295361, 10284996, 10299337 ] }, { "dbId" : 10295242, "stId" : "R-CFA-67447", "displayName" : "ERCC5 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "diagramIds" : [ 98334 ], "identifier" : "A0A8I3PZL5", "standardIdentifier" : "uniprot:A0A8I3PZL5", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ERCC5" ], "parents" : [ 10298345, 10298333, 10298325, 10295901, 10295887, 10295265 ], "children" : [ ] }, { "dbId" : 10284996, "stId" : "R-CFA-4570490", "displayName" : "CETN2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "diagramIds" : [ 98313 ], "identifier" : "A0A8I3PMD5", "standardIdentifier" : "uniprot:A0A8I3PMD5", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "CETN2" ], "parents" : [ 10299360, 10299339, 10295368, 10296157 ], "children" : [ ] }, { "dbId" : 10299333, "stId" : "R-CFA-6790460", "displayName" : "XPC [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PYW1", "standardIdentifier" : "uniprot:A0A8I3PYW1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "XPC" ], "parents" : [ 10299337 ], "children" : [ ] }, { "dbId" : 10298308, "stId" : "R-CFA-9684120", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Partially open bubble damaged DNA template:nascent mRNA hybrid:TFIIH:ERCC6 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298310 ], "children" : [ 10298306, 10230343 ] }, { "dbId" : 10299335, "stId" : "R-CFA-2990838", "displayName" : "SUMO1,2,3 [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "parents" : [ 10299358, 10299337 ], "children" : [ 10281136, 10281208, 10260780 ] }, { "dbId" : 30555, "stId" : "R-ALL-30555", "displayName" : "dNTP [nucleoplasm]", "schemaClass" : "SimpleEntity", "speciesId" : 0, "diagramIds" : [ 98356, 98413 ], "identifier" : "16516", "standardIdentifier" : "chebi:16516", "referenceType" : "ReferenceMolecule", "parents" : [ ], "children" : [ ] }, { "dbId" : 10298310, "stId" : "R-CFA-9684121", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Partially open bubble damaged DNA template:nascent mRNA hybrid:TFIIH:ERCC6:ERCC8:DDB1:CUL4:RBX1 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298312 ], "children" : [ 10298308, 10298170 ] }, { "dbId" : 10226624, "stId" : "R-CFA-68483", "displayName" : "DNA polymerase epsilon [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10233887 ], "children" : [ 10226610, 10226614, 10226618, 10226622 ] }, { "dbId" : 10298306, "stId" : "R-CFA-9684119", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Open bubble damaged DNA template:nascent mRNA hybrid:TFIIH [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298308 ], "children" : [ 10230432, 10298183, 9684123 ] }, { "dbId" : 10295295, "stId" : "R-CFA-5689599", "displayName" : "INO80B [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NYU9", "standardIdentifier" : "uniprot:A0A8I3NYU9", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "INO80B" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 6782213, "stId" : "R-ALL-6782213", "displayName" : "incised DNA without lesion:trimmed nascent mRNA [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10298338 ], "children" : [ ] }, { "dbId" : 6782212, "stId" : "R-ALL-6782212", "displayName" : "SSB-dsDNA:trimmed nascent mRNA [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10298340 ], "children" : [ ] }, { "dbId" : 5688114, "stId" : "R-ALL-5688114", "displayName" : "Distorted dsDNA [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "diagramIds" : [ 98317 ], "parents" : [ 10296207, 10297613, 10295370 ], "children" : [ ] }, { "dbId" : 10295291, "stId" : "R-CFA-5689565", "displayName" : "ACTR8 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3Q240", "standardIdentifier" : "uniprot:A0A8I3Q240", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ACTR8" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10295287, "stId" : "R-CFA-5688913", "displayName" : "ACTR5 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3Q254", "standardIdentifier" : "uniprot:A0A8I3Q254", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ACTR5" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10298352, "stId" : "R-CFA-6782230", "displayName" : "TC-NER post-incision complex:dsDNA with transcription bubble [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98418 ], "parents" : [ ], "children" : [ 10230432, 10230343, 10298183, 10234422, 10298261, 10298170, 10298235, 6782229 ] }, { "dbId" : 10295283, "stId" : "R-CFA-5688910", "displayName" : "INO80 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3SC62", "standardIdentifier" : "uniprot:A0A8I3SC62", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "INO80" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10298354, "stId" : "R-CFA-5690475", "displayName" : "LIG1,LIG3:XRCC1 [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "diagramIds" : [ 98419 ], "parents" : [ ], "children" : [ 10227111, 10230590 ] }, { "dbId" : 113518, "stId" : "R-ALL-113518", "displayName" : "H2O [nucleoplasm]", "schemaClass" : "SimpleEntity", "speciesId" : 0, "diagramIds" : [ 98393 ], "identifier" : "15377", "standardIdentifier" : "chebi:15377", "referenceType" : "ReferenceMolecule", "parents" : [ ], "children" : [ ] }, { "dbId" : 10295279, "stId" : "R-CFA-5689578", "displayName" : "NFRKB [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3N2S4", "standardIdentifier" : "uniprot:A0A8I3N2S4", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "NFRKB" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 6782229, "stId" : "R-ALL-6782229", "displayName" : "dsDNA with transcription bubble [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10298352 ], "children" : [ ] }, { "dbId" : 10298345, "stId" : "R-CFA-6782219", "displayName" : "TC-NER incision complex: 5'-incised damaged DNA:trimmed nascent mRNA:(PCNA:POLD,POLE), (MonoUb:K164-PCNA:POLK):RPA:RFC [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98409 ], "parents" : [ ], "children" : [ 6782202, 10230432, 10230343, 10298183, 10234422, 10298261, 10298170, 10295242, 10298235, 10295899, 10233545, 10295246 ] }, { "dbId" : 109944, "stId" : "R-ALL-109944", "displayName" : "damaged DNA with open bubble structure [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10295263, 10299341, 10296143 ], "children" : [ ] }, { "dbId" : 10298340, "stId" : "R-CFA-6782220", "displayName" : "TC-NER post-incision complex:SSB-dsDNA:trimmed nascent mRNA: (PCNA:POLD,POLE), (MonoUb:K164-PCNA:POLK):RPA:RFC [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98414 ], "parents" : [ ], "children" : [ 10230432, 10230343, 10298183, 10234422, 10298261, 10298170, 10295899, 10298235, 6782212 ] }, { "dbId" : 10295265, "stId" : "R-CFA-5691043", "displayName" : "GG-NER pre-incision complex:Open bubble-dsDNA [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98336 ], "parents" : [ 10296134 ], "children" : [ 10295242, 10227082, 10295263 ] }, { "dbId" : 10299360, "stId" : "R-CFA-6790519", "displayName" : "Ub,SUMO,K63polyUb:XPC:RAD23:CETN2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98425 ], "parents" : [ ], "children" : [ 10295361, 10284996, 10299358 ] }, { "dbId" : 10298338, "stId" : "R-CFA-6782222", "displayName" : "TC-NER post-incision complex:incised DNA without lesion:trimmed nascent mRNA:PCNA:(PCNA:POLD,POLE),(MonoUb:K164-PCNA:POLK):RPA:RFC [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98411 ], "parents" : [ ], "children" : [ 10230432, 10230343, 10298183, 10234422, 10298261, 10298170, 10295899, 10298235, 6782213 ] }, { "dbId" : 113541, "stId" : "R-ALL-113541", "displayName" : "PPi [nucleoplasm]", "schemaClass" : "SimpleEntity", "speciesId" : 0, "diagramIds" : [ 98375, 98358, 98415 ], "identifier" : "33019", "standardIdentifier" : "chebi:33019", "chebiIdentifier" : "chebi:33019", "referenceType" : "ReferenceMolecule", "parents" : [ ], "children" : [ ] }, { "dbId" : 109961, "stId" : "R-ALL-109961", "displayName" : "incised DNA without lesion [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "parents" : [ 10296129 ], "children" : [ ] }, { "dbId" : 109960, "stId" : "R-ALL-109960", "displayName" : "excised DNA fragment with lesion [nucleoplasm]", "schemaClass" : "OtherEntity", "speciesId" : 0, "diagramIds" : [ 98348 ], "parents" : [ ], "children" : [ ] }, { "dbId" : 113550, "stId" : "R-ALL-113550", "displayName" : "Pi [nucleoplasm]", "schemaClass" : "SimpleEntity", "speciesId" : 0, "diagramIds" : [ 98330, 98399 ], "identifier" : "43474", "standardIdentifier" : "chebi:43474", "referenceType" : "ReferenceMolecule", "parents" : [ ], "children" : [ ] }, { "dbId" : 10297613, "stId" : "R-CFA-6782948", "displayName" : "Ub:XPC:RAD23:CETN2:Distorted dsDNA:UV-DDB [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98364 ], "parents" : [ 10297615 ], "children" : [ 10296165, 10295368, 5688114 ] }, { "dbId" : 10297615, "stId" : "R-CFA-5696660", "displayName" : "Ub:XPC:RAD23:CETN2:Distorted dsDNA:UV-DDB:PARP1,PARP2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98365 ], "parents" : [ ], "children" : [ 10291124, 10297613 ] }, { "dbId" : 10230588, "stId" : "R-CFA-53789", "displayName" : "LIG3 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3N6S7", "standardIdentifier" : "uniprot:A0A8I3N6S7", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "LIG3" ], "parents" : [ 10230590 ], "children" : [ ] }, { "dbId" : 10298172, "stId" : "R-CFA-6781842", "displayName" : "ERCC8:DDB1:CUL4:RBX1:COP9 Signalosome [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98382 ], "parents" : [ ], "children" : [ 10298170, 10296203 ] }, { "dbId" : 10230590, "stId" : "R-CFA-110338", "displayName" : "LIG3:XRCC1 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298354 ], "children" : [ 10230584, 10230588 ] }, { "dbId" : 10298174, "stId" : "R-CFA-6781839", "displayName" : "Hyperphosphorylated RNA Pol II:Damaged DNA template:nascent mRNA hybrid:TFIIH:ERCC6:ERCC8:DDB1:CUL4:RBX1 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98383 ], "parents" : [ ], "children" : [ 10298164, 10298170 ] }, { "dbId" : 10230584, "stId" : "R-CFA-67455", "displayName" : "XRCC1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MFG7", "standardIdentifier" : "uniprot:A0A8I3MFG7", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "XRCC1" ], "parents" : [ 10230590 ], "children" : [ ] }, { "dbId" : 10298168, "stId" : "R-CFA-52835", "displayName" : "ERCC8 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MXB2", "standardIdentifier" : "uniprot:A0A8I3MXB2", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ERCC8" ], "parents" : [ 10298170 ], "children" : [ ] }, { "dbId" : 10298170, "stId" : "R-CFA-6781841", "displayName" : "ERCC8:DDB1:CUL4:RBX1 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298352, 10298340, 10298338, 10298345, 10298333, 10298321, 10298310, 10298269, 10298194, 10298174, 10298172 ], "children" : [ 10291210, 10298168, 10226777, 10291214 ] }, { "dbId" : 10230580, "stId" : "R-CFA-110340", "displayName" : "Ghost homologue of SSB-dsDNA [nucleoplasm]", "schemaClass" : "GenomeEncodedEntity", "speciesId" : 49646, "parents" : [ 10296150 ], "children" : [ ] }, { "dbId" : 10298164, "stId" : "R-CFA-6781837", "displayName" : "Hyperphosphorylated RNA Pol II:Damaged DNA template:nascent mRNA hybrid:TFIIH:ERCC6 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98380 ], "parents" : [ 10298174 ], "children" : [ 10230343, 10298159 ] }, { "dbId" : 113582, "stId" : "R-ALL-113582", "displayName" : "ADP [nucleoplasm]", "schemaClass" : "SimpleEntity", "speciesId" : 0, "diagramIds" : [ 98400, 98331 ], "identifier" : "456216", "standardIdentifier" : "chebi:456216", "referenceType" : "ReferenceMolecule", "parents" : [ ], "children" : [ ] }, { "dbId" : 10260780, "stId" : "R-CFA-877304", "displayName" : "SUMO1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NZS0", "standardIdentifier" : "uniprot:A0A8I3NZS0", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "SUMO1" ], "parents" : [ 10299335 ], "children" : [ ] }, { "dbId" : 10298159, "stId" : "R-CFA-6781822", "displayName" : "Hyperphosphorylated RNA Pol II:Damaged DNA template:nascent mRNA hybrid:TFIIH [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98374 ], "parents" : [ 10298164 ], "children" : [ 10230432, 110291, 10229133 ] }, { "dbId" : 10260266, "stId" : "R-CFA-418323", "displayName" : "RUVBL1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3P6G1", "standardIdentifier" : "uniprot:A0A8I3P6G1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RUVBL1" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10298155, "stId" : "R-CFA-6781821", "displayName" : "Damaged dsDNA with open transcription bubble:Hyperphosphorylated RNA Pol II:TFIIH [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98373 ], "parents" : [ ], "children" : [ 10230432, 6781820, 10229133 ] }, { "dbId" : 10282795, "stId" : "R-CFA-3321849", "displayName" : "MCRS1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NZS1", "standardIdentifier" : "uniprot:A0A8I3NZS1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "MCRS1" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10296157, "stId" : "R-CFA-5691010", "displayName" : "XPC:RAD23:CETN2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98315 ], "parents" : [ 10296207 ], "children" : [ 10295361, 10284996, 10285004 ] }, { "dbId" : 10227037, "stId" : "R-CFA-68440", "displayName" : "PCNA homotrimer [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10295893, 10295891 ], "children" : [ 10227035 ] }, { "dbId" : 10229086, "stId" : "R-CFA-63523", "displayName" : "POLR2H [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3S6Q1", "standardIdentifier" : "uniprot:A0A8I3S6Q1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2H" ], "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] }, { "dbId" : 10229082, "stId" : "R-CFA-63506", "displayName" : "POLR2C [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MS03", "standardIdentifier" : "uniprot:A0A8I3MS03", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2C" ], "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] }, { "dbId" : 10227035, "stId" : "R-CFA-68439", "displayName" : "PCNA [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3QKL0", "standardIdentifier" : "uniprot:A0A8I3QKL0", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "PCNA" ], "parents" : [ 10233777, 10227037 ], "children" : [ ] }, { "dbId" : 10227541, "stId" : "R-CFA-5682543", "displayName" : "LOC119868036 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3QGD6", "standardIdentifier" : "uniprot:A0A8I3QGD6", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "LOC119868036" ], "parents" : [ 10299353, 10227543 ], "children" : [ ] }, { "dbId" : 10229078, "stId" : "R-CFA-63517", "displayName" : "POLR2G [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MXA2", "standardIdentifier" : "uniprot:A0A8I3MXA2", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2G" ], "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] }, { "dbId" : 10227543, "stId" : "R-CFA-5682542", "displayName" : "UBE2N:UBE2V2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98426 ], "parents" : [ ], "children" : [ 10227537, 10227541 ] }, { "dbId" : 10296150, "stId" : "R-CFA-5690470", "displayName" : "(PCNA:POLD,POLE), (MonoUb:K164-PCNA:POLK):RPA:RFC:SSB-dsDNA [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98357 ], "parents" : [ ], "children" : [ 10230580, 10295899 ] }, { "dbId" : 10296145, "stId" : "R-CFA-5691018", "displayName" : "Ub:XPC:RAD23:CETN2:Open bubble-dsDNA:PAR-UV-DDB:TFIIH Core:XPA:PAR-PARP1,PAR-PARP2:CHD1L [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98329 ], "parents" : [ ], "children" : [ 10295248, 10295252, 10291161, 10295246, 10296143 ] }, { "dbId" : 10227025, "stId" : "R-CFA-68435", "displayName" : "RFC1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MLM2", "standardIdentifier" : "uniprot:A0A8I3MLM2", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RFC1" ], "parents" : [ 10227027 ], "children" : [ ] }, { "dbId" : 10227537, "stId" : "R-CFA-5682541-3", "displayName" : "Homologues of UBE2N [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "parents" : [ 10227543 ], "children" : [ 10227531, 10227535 ] }, { "dbId" : 10298192, "stId" : "R-CFA-6781848", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Damaged DNA template:nascent mRNA hybrid:TFIIH:Ub:ERCC6 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298194 ], "children" : [ 10298185, 10298190 ] }, { "dbId" : 10229074, "stId" : "R-CFA-63508", "displayName" : "POLR2D [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3P8V7", "standardIdentifier" : "uniprot:A0A8I3P8V7", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2D" ], "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] }, { "dbId" : 10227027, "stId" : "R-CFA-68436", "displayName" : "RFC Heteropentamer [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98344 ], "parents" : [ 10295899 ], "children" : [ 10227025, 10227009, 10227013, 10227017, 10227021 ] }, { "dbId" : 10298194, "stId" : "R-CFA-6781866", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Damaged DNA template:nascent mRNA hybrid:TFIIH:Ub:ERCC6:ERCC8:DDB1:CUL4:RBX1 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98386 ], "parents" : [ 10298263 ], "children" : [ 10298192, 10298170 ] }, { "dbId" : 10296141, "stId" : "R-CFA-5696652", "displayName" : "Ub:XPC:RAD23:CETN2:Distorted dsDNA:PAR-UV-DDB:TFIIH Core:XPA:PAR-PARP1,PAR-PARP2:CHD1L [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98328 ], "parents" : [ ], "children" : [ 10295376, 10295252 ] }, { "dbId" : 10227021, "stId" : "R-CFA-68433", "displayName" : "RFC2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MFP3", "standardIdentifier" : "uniprot:A0A8I3MFP3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RFC2" ], "parents" : [ 10227027 ], "children" : [ ] }, { "dbId" : 10298188, "stId" : "R-CFA-6781853", "displayName" : "ERCC6 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PAF3", "standardIdentifier" : "uniprot:A0A8I3PAF3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ERCC6" ], "parents" : [ 10298190 ], "children" : [ ] }, { "dbId" : 10296143, "stId" : "R-CFA-5689297", "displayName" : "Ub:XPC:RAD23:CETN2:Open bubble-dsDNA:PAR-UV-DDB [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10296145 ], "children" : [ 109944, 10295368, 10295261 ] }, { "dbId" : 10229070, "stId" : "R-CFA-63504", "displayName" : "POLR2B [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NPE6", "standardIdentifier" : "uniprot:A0A8I3NPE6", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2B" ], "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] }, { "dbId" : 10227535, "stId" : "R-CFA-5682541-2", "displayName" : "UBE2N [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PGB2", "standardIdentifier" : "uniprot:A0A8I3PGB2", "referenceType" : "ReferenceGeneProduct", "parents" : [ 10227537 ], "children" : [ ] }, { "dbId" : 10298190, "stId" : "R-CFA-6781849", "displayName" : "Ub:ERCC6 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298192 ], "children" : [ 10226336, 10298188 ] }, { "dbId" : 10298185, "stId" : "R-CFA-6781861", "displayName" : "Ubiquitinated,hyperphosphorylated RNA Pol II:Damaged DNA template:nascent mRNA hybrid:TFIIH [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298267, 10298192 ], "children" : [ 10230432, 10298183, 110291 ] }, { "dbId" : 10227017, "stId" : "R-CFA-68431", "displayName" : "RFC3 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3Q6A8", "standardIdentifier" : "uniprot:A0A8I3Q6A8", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RFC3" ], "parents" : [ 10227027 ], "children" : [ ] }, { "dbId" : 10281801, "stId" : "R-CFA-2980912", "displayName" : "ACTL6A [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3RZ83", "standardIdentifier" : "uniprot:A0A8I3RZ83", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "ACTL6A" ], "parents" : [ 10295317 ], "children" : [ ] }, { "dbId" : 10229066, "stId" : "R-CFA-63525", "displayName" : "POLR2I [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MHN7", "standardIdentifier" : "uniprot:A0A8I3MHN7", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2I" ], "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] }, { "dbId" : 10227531, "stId" : "R-CFA-5682541", "displayName" : "UBE2N [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3P6I7", "standardIdentifier" : "uniprot:A0A8I3P6I7", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "UBE2N" ], "parents" : [ 10227537 ], "children" : [ ] }, { "dbId" : 10298181, "stId" : "R-CFA-6781855", "displayName" : "phospho-POLR2A [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PKJ4", "standardIdentifier" : "uniprot:A0A8I3PKJ4", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2A" ], "parents" : [ 10298183 ], "children" : [ ] }, { "dbId" : 10227013, "stId" : "R-CFA-68429", "displayName" : "RFC4 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PDB8", "standardIdentifier" : "uniprot:A0A8I3PDB8", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RFC4" ], "parents" : [ 10227027 ], "children" : [ ] }, { "dbId" : 10298183, "stId" : "R-CFA-6781851", "displayName" : "Ubiquitinated RNA Polymerase II holoenzyme complex (hyperphosphorylated) [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10298352, 10298340, 10298338, 10298345, 10298333, 10298317, 10298306, 10298185 ], "children" : [ 10229090, 10226336, 10229094, 10229062, 10298181, 10229066, 10229096, 10229070, 10229100, 10229074, 10229078, 10229082, 10229086 ] }, { "dbId" : 10229062, "stId" : "R-CFA-63531", "displayName" : "POLR2J [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MNX8", "standardIdentifier" : "uniprot:A0A8I3MNX8", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2J" ], "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] }, { "dbId" : 10296134, "stId" : "R-CFA-5691046", "displayName" : "GG-NER incision complex:Open bubble dsDNA [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98339 ], "parents" : [ ], "children" : [ 10295265, 10233545 ] }, { "dbId" : 10296129, "stId" : "R-CFA-5690478", "displayName" : "(PCNA:POLD,POLE), (MonoUb:K164-PCNA:POLK):RPA:RFC:Incised DNA without lesion [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98354 ], "parents" : [ ], "children" : [ 109961, 10295899 ] }, { "dbId" : 10227009, "stId" : "R-CFA-68427", "displayName" : "RFC5 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3SAL9", "standardIdentifier" : "uniprot:A0A8I3SAL9", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "RFC5" ], "parents" : [ 10227027 ], "children" : [ ] }, { "dbId" : 10296191, "stId" : "R-CFA-5697010", "displayName" : "GPS1 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NIR2", "standardIdentifier" : "uniprot:A0A8I3NIR2", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "GPS1" ], "parents" : [ 10296203 ], "children" : [ ] }, { "dbId" : 10298239, "stId" : "R-CFA-67411", "displayName" : "XAB2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3Q207", "standardIdentifier" : "uniprot:A0A8I3Q207", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "XAB2" ], "parents" : [ 10298261 ], "children" : [ ] }, { "dbId" : 6781829, "stId" : "R-ALL-6781829", "displayName" : "ribonucleoside triphosphate [nucleoplasm]", "schemaClass" : "SimpleEntity", "speciesId" : 0, "diagramIds" : [ 98372 ], "identifier" : "17972", "standardIdentifier" : "chebi:17972", "referenceType" : "ReferenceMolecule", "parents" : [ ], "children" : [ ] }, { "dbId" : 10298233, "stId" : "R-CFA-5688915", "displayName" : "UVSSA [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MKA5", "standardIdentifier" : "uniprot:A0A8I3MKA5", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "UVSSA" ], "parents" : [ 10298235 ], "children" : [ ] }, { "dbId" : 10227065, "stId" : "R-CFA-68449", "displayName" : "Ghost homologue of POLD1 [nucleoplasm]", "schemaClass" : "GenomeEncodedEntity", "speciesId" : 49646, "parents" : [ 10227067 ], "children" : [ ] }, { "dbId" : 10296187, "stId" : "R-CFA-5697014", "displayName" : "COPS8 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PVK3", "standardIdentifier" : "uniprot:A0A8I3PVK3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "COPS8" ], "parents" : [ 10296203 ], "children" : [ ] }, { "dbId" : 10298235, "stId" : "R-CFA-6781845", "displayName" : "UVSSA:USP7 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98388 ], "parents" : [ 10298352, 10298340, 10298338, 10298345, 10298333, 10298323, 10298312, 10298271, 10298263 ], "children" : [ 10298233, 10281688 ] }, { "dbId" : 10227067, "stId" : "R-CFA-68450", "displayName" : "DNA Polymerase delta tetramer [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10233887 ], "children" : [ 10227063, 10227065, 10227049, 10227053 ] }, { "dbId" : 10227061, "stId" : "R-CFA-68447-2", "displayName" : "POLD4 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PSC0", "standardIdentifier" : "uniprot:A0A8I3PSC0", "referenceType" : "ReferenceGeneProduct", "parents" : [ 10227063 ], "children" : [ ] }, { "dbId" : 10296183, "stId" : "R-CFA-5697026", "displayName" : "COPS6 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3N399", "standardIdentifier" : "uniprot:A0A8I3N399", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "COPS6" ], "parents" : [ 10296203 ], "children" : [ ] }, { "dbId" : 10227063, "stId" : "R-CFA-68447-3", "displayName" : "Homologues of POLD4 [nucleoplasm]", "schemaClass" : "DefinedSet", "speciesId" : 49646, "parents" : [ 10227067 ], "children" : [ 10227057, 10227061 ] }, { "dbId" : 10227057, "stId" : "R-CFA-68447", "displayName" : "POLD4 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3P972", "standardIdentifier" : "uniprot:A0A8I3P972", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLD4" ], "parents" : [ 10227063 ], "children" : [ ] }, { "dbId" : 10296179, "stId" : "R-CFA-5697019", "displayName" : "COPS5 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PK82", "standardIdentifier" : "uniprot:A0A8I3PK82", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "COPS5" ], "parents" : [ 10296203 ], "children" : [ ] }, { "dbId" : 427497, "stId" : "R-ALL-427497", "displayName" : "NAM [nucleoplasm]", "schemaClass" : "SimpleEntity", "speciesId" : 0, "diagramIds" : [ 98368 ], "identifier" : "17154", "standardIdentifier" : "chebi:17154", "referenceType" : "ReferenceMolecule", "parents" : [ ], "children" : [ ] }, { "dbId" : 10296173, "stId" : "R-CFA-5697017", "displayName" : "COPS3 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PRS1", "standardIdentifier" : "uniprot:A0A8I3PRS1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "COPS3" ], "parents" : [ 10296203 ], "children" : [ ] }, { "dbId" : 10229100, "stId" : "R-CFA-83715", "displayName" : "POLR2L [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3RTI9", "standardIdentifier" : "uniprot:A0A8I3RTI9", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2L" ], "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] }, { "dbId" : 10227053, "stId" : "R-CFA-68445", "displayName" : "POLD3 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MUH3", "standardIdentifier" : "uniprot:A0A8I3MUH3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLD3" ], "parents" : [ 10227067 ], "children" : [ ] }, { "dbId" : 10296175, "stId" : "R-CFA-5697020", "displayName" : "Ghost homologue of COPS4 [nucleoplasm]", "schemaClass" : "GenomeEncodedEntity", "speciesId" : 49646, "parents" : [ 10296203 ], "children" : [ ] }, { "dbId" : 10296169, "stId" : "R-CFA-5697012", "displayName" : "COPS2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PCP2", "standardIdentifier" : "uniprot:A0A8I3PCP2", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "COPS2" ], "parents" : [ 10296203 ], "children" : [ ] }, { "dbId" : 10229096, "stId" : "R-CFA-83714", "displayName" : "Ghost homologue of POLR2F [nucleoplasm]", "schemaClass" : "GenomeEncodedEntity", "speciesId" : 49646, "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] }, { "dbId" : 10227049, "stId" : "R-CFA-68443", "displayName" : "POLD2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3N1Z1", "standardIdentifier" : "uniprot:A0A8I3N1Z1", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLD2" ], "parents" : [ 10227067 ], "children" : [ ] }, { "dbId" : 10296165, "stId" : "R-CFA-5689119", "displayName" : "UV-DDB [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10297613, 10296207, 10296205 ], "children" : [ 10296163, 10291210, 10226777 ] }, { "dbId" : 10230629, "stId" : "R-CFA-63502", "displayName" : "POLR2A [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PKJ4", "standardIdentifier" : "uniprot:A0A8I3PKJ4", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2A" ], "parents" : [ 10230631 ], "children" : [ ] }, { "dbId" : 10229094, "stId" : "R-CFA-83713", "displayName" : "POLR2E [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3NR02", "standardIdentifier" : "uniprot:A0A8I3NR02", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "POLR2E" ], "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] }, { "dbId" : 10230631, "stId" : "R-CFA-113401", "displayName" : "RNA Polymerase II holoenzyme complex (unphosphorylated) [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "diagramIds" : [ 98377 ], "parents" : [ ], "children" : [ 10229090, 10229074, 10229094, 10229078, 10229062, 10230629, 10229082, 10229066, 10229096, 10229086, 10229070, 10229100 ] }, { "dbId" : 10296161, "stId" : "R-CFA-53491", "displayName" : "DDB2 [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3PWX3", "standardIdentifier" : "uniprot:A0A8I3PWX3", "referenceType" : "ReferenceGeneProduct", "geneNames" : [ "DDB2" ], "parents" : [ 10296163 ], "children" : [ ] }, { "dbId" : 10296163, "stId" : "R-CFA-5688955", "displayName" : "DDB1:DDB2 [nucleoplasm]", "schemaClass" : "Complex", "speciesId" : 49646, "parents" : [ 10296165 ], "children" : [ 10296161, 10291214 ] }, { "dbId" : 10229090, "stId" : "R-CFA-63537", "displayName" : "POLR2K [nucleoplasm]", "schemaClass" : "EntityWithAccessionedSequence", "speciesId" : 49646, "identifier" : "A0A8I3MSU0", "standardIdentifier" : "uniprot:A0A8I3MSU0", "referenceType" : "ReferenceGeneProduct", "parents" : [ 10298183, 10229133, 10230631 ], "children" : [ ] } ], "edges" : [ { "dbId" : 10295903, "stId" : "R-CFA-5690213", "displayName" : "DNA polymerases delta, epsilon or kappa bind the GG-NER site", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10296137 ], "following" : [ 10296132 ], "inputs" : [ 10227027, 10295891, 10295889, 10295887 ], "outputs" : [ 10295901 ], "efs" : [ ], "diagramIds" : [ 98342 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10296159, "stId" : "R-CFA-5691004", "displayName" : "XPC binds RAD23 and CETN2", "schemaClass" : "Reaction", "speciesId" : 0, "following" : [ 10296209 ], "inputs" : [ 10295361, 10284996, 10285004 ], "outputs" : [ 10296157 ], "efs" : [ ], "diagramIds" : [ 98311 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298265, "stId" : "R-CFA-6782004", "displayName" : "Assembly of the pre-incision complex in TC-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298197 ], "following" : [ 10298274 ], "inputs" : [ 10298194, 10234422, 10298261, 10298235, 10295246 ], "outputs" : [ 10298263 ], "efs" : [ ], "diagramIds" : [ 98387 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10296152, "stId" : "R-CFA-5691000", "displayName" : "TFIIH binds GG-NER site to form a verification complex", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10297617 ], "inputs" : [ 10230432, 10295372 ], "outputs" : [ 10295374 ], "efs" : [ ], "diagramIds" : [ 98322 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10296155, "stId" : "R-CFA-5691001", "displayName" : "Repair DNA synthesis of ~27-30 bases long patch by POLD, POLE or POLK in GG-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10296132 ], "inputs" : [ 10296129, 30555 ], "outputs" : [ 10296150, 113541 ], "catalysts" : [ 10296129 ], "efs" : [ ], "diagramIds" : [ 98355 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298331, "stId" : "R-CFA-6782141", "displayName" : "Binding of ERCC1:ERCC4 (ERCC1:XPF) to pre-incision complex in TC-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298327 ], "following" : [ 10298336 ], "inputs" : [ 10298325, 10233545 ], "outputs" : [ 10298329 ], "efs" : [ ], "diagramIds" : [ 98404 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10297621, "stId" : "R-CFA-5696670", "displayName" : "CHD1L is recruited to GG-NER site", "schemaClass" : "Reaction", "speciesId" : 0, "following" : [ 10296148 ], "inputs" : [ 10295376, 10295252 ], "outputs" : [ 10296141 ], "efs" : [ ], "diagramIds" : [ 98369 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298197, "stId" : "R-CFA-6781867", "displayName" : "ERCC8:DDB1:CUL4:RBX1 ubiquitinates ERCC6 and RNA Pol II", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298176 ], "following" : [ 10298265 ], "inputs" : [ 10226336, 10298174 ], "outputs" : [ 10298194 ], "catalysts" : [ 10298174 ], "efs" : [ ], "diagramIds" : [ 98384 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10296148, "stId" : "R-CFA-5690996", "displayName" : "ERCC2 and ERCC3 DNA helicases form an open bubble structure in damaged DNA", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10297621 ], "inputs" : [ 29358, 10296141 ], "outputs" : [ 113550, 113582, 10296145 ], "catalysts" : [ 10296141 ], "efs" : [ ], "diagramIds" : [ 98326 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298327, "stId" : "R-CFA-6782138", "displayName" : "ERCC5 and RPA bind TC-NER site", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298315 ], "following" : [ 10298331 ], "inputs" : [ 10298323, 10295242, 10227082 ], "outputs" : [ 10298325 ], "efs" : [ ], "diagramIds" : [ 98401 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10296209, "stId" : "R-CFA-5691006", "displayName" : "XPC:RAD23:CETN2 and UV-DDB bind distorted dsDNA site", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10296159 ], "following" : [ 10298384 ], "inputs" : [ 5688114, 10296205, 10296157 ], "outputs" : [ 10296203, 10296207 ], "efs" : [ ], "activators" : [ 10295317 ], "diagramIds" : [ 98316 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10297617, "stId" : "R-CFA-5696655", "displayName" : "PARP1 or PARP2 PARylates DDB2 and autoPARylates", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10297619 ], "following" : [ 10296152 ], "inputs" : [ 427523, 10297615 ], "outputs" : [ 427497, 10295372 ], "efs" : [ ], "diagramIds" : [ 98366 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298384, "stId" : "R-CFA-6782943", "displayName" : "UV-DDB ubiquitinates XPC", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10296209 ], "following" : [ 10297619 ], "inputs" : [ 10226336, 10296207 ], "outputs" : [ 10297613 ], "catalysts" : [ 10296207 ], "efs" : [ ], "diagramIds" : [ 98420 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10297619, "stId" : "R-CFA-5696664", "displayName" : "PARP1 or PARP2 binds DDB2 at GG-NER site", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298384 ], "following" : [ 10297617 ], "inputs" : [ 10291124, 10297613 ], "outputs" : [ 10297615 ], "efs" : [ ], "diagramIds" : [ 98362 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10296137, "stId" : "R-CFA-5690990", "displayName" : "5'- incision of DNA by ERCC1:ERCC4 in GG-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10296139 ], "following" : [ 10295903 ], "inputs" : [ 10296134 ], "outputs" : [ 10295887 ], "catalysts" : [ 10296134 ], "efs" : [ ], "diagramIds" : [ 98340 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10296139, "stId" : "R-CFA-5690991", "displayName" : "Binding of ERCC1:ERCC4 (ERCC1:XPF) to pre-incision complex in GG-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10295267, 10233547 ], "following" : [ 10296137 ], "inputs" : [ 10295265, 10233545 ], "outputs" : [ 10296134 ], "efs" : [ ], "diagramIds" : [ 98337 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298315, "stId" : "R-CFA-6782131", "displayName" : "ERCC2-facilitated RNA Pol II backtracking in TC-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298274 ], "following" : [ 10298327, 10320234 ], "inputs" : [ 29358, 10298271 ], "outputs" : [ 113550, 113582, 10298312 ], "catalysts" : [ 10298271 ], "efs" : [ ], "diagramIds" : [ 98396 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10233547, "stId" : "R-CFA-109955", "displayName" : "Formation of ERCC1:XPF heterodimeric complex", "schemaClass" : "Reaction", "speciesId" : 0, "following" : [ 10296139 ], "inputs" : [ 10233539, 10233543 ], "outputs" : [ 10233545 ], "efs" : [ ], "diagramIds" : [ 98359 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10296132, "stId" : "R-CFA-5690988", "displayName" : "3'-incision of DNA by ERCC5 (XPG) in GG-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10295903 ], "following" : [ 10296155 ], "inputs" : [ 10295901 ], "outputs" : [ 10295248, 10296129, 10295252, 109960, 10295242, 10233545, 10291161, 10295246, 10295261 ], "catalysts" : [ 10295901 ], "efs" : [ ], "diagramIds" : [ 98347 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298176, "stId" : "R-CFA-6781833", "displayName" : "ERCC8 (CSA) binds stalled RNA Pol II", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298178 ], "following" : [ 10298197 ], "inputs" : [ 10298164, 10298172 ], "outputs" : [ 10296203, 10298174 ], "efs" : [ ], "diagramIds" : [ 98381 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298178, "stId" : "R-CFA-6781840", "displayName" : "ERCC6 binds stalled RNA Pol II", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298162 ], "following" : [ 10298176 ], "inputs" : [ 10230343, 10298159 ], "outputs" : [ 10298164 ], "efs" : [ ], "diagramIds" : [ 98378 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298357, "stId" : "R-CFA-6782227", "displayName" : "Ligation of newly synthesized repair patch to incised DNA in TC-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298343 ], "inputs" : [ 10298340 ], "outputs" : [ 10298352, 10295899 ], "catalysts" : [ 10298354 ], "efs" : [ ], "diagramIds" : [ 98416 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298162, "stId" : "R-CFA-6781824", "displayName" : "Active RNA Pol II complex transcribes lesion-containing DNA template", "schemaClass" : "BlackBoxEvent", "speciesId" : 0, "preceding" : [ 10298157 ], "following" : [ 10298178 ], "inputs" : [ 10298155, 6781829 ], "outputs" : [ 113541, 10298159 ], "catalysts" : [ 10298155 ], "efs" : [ ], "diagramIds" : [ 98371 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298157, "stId" : "R-CFA-6781818", "displayName" : "RNA Pol II initiates transcription from damaged DNA template", "schemaClass" : "BlackBoxEvent", "speciesId" : 0, "following" : [ 10298162 ], "inputs" : [ 10230432, 10230631, 5688114 ], "outputs" : [ 10298155 ], "efs" : [ ], "diagramIds" : [ 98376 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298350, "stId" : "R-CFA-6782224", "displayName" : "3' incision by ERCC5 (XPG) in TC-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298347 ], "following" : [ 10298343 ], "inputs" : [ 10298345 ], "outputs" : [ 10298338, 10295242, 10233545, 10295246 ], "catalysts" : [ 10298345 ], "efs" : [ ], "diagramIds" : [ 98410 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298347, "stId" : "R-CFA-6782211", "displayName" : "DNA polymerases delta, epsilon or kappa bind the TC-NER site", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298336 ], "following" : [ 10298350 ], "inputs" : [ 10227027, 10295891, 10295889, 10298333 ], "outputs" : [ 10298345 ], "efs" : [ ], "diagramIds" : [ 98408 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10320234, "stId" : "R-CFA-9684118", "displayName" : "ERCC3-facilitated RNA Pol II backtracking in TC-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298315 ], "inputs" : [ 29358, 10298312 ], "outputs" : [ 113550, 113582, 10298323 ], "catalysts" : [ 10298312 ], "efs" : [ ], "diagramIds" : [ 98428 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298343, "stId" : "R-CFA-6782208", "displayName" : "Repair DNA synthesis of ~27-30 bases long patch by POLD, POLE or POLK in TC-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298350 ], "following" : [ 10298357 ], "inputs" : [ 10298338, 30555 ], "outputs" : [ 10298340, 113541 ], "catalysts" : [ 10298338 ], "efs" : [ ], "diagramIds" : [ 98412 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298336, "stId" : "R-CFA-6782204", "displayName" : "5' incision of damaged DNA strand by ERCC1:ERCC4 in TC-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298331 ], "following" : [ 10298347 ], "inputs" : [ 10298329 ], "outputs" : [ 10298333 ], "catalysts" : [ 10298329 ], "efs" : [ ], "diagramIds" : [ 98406 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10299363, "stId" : "R-CFA-6790487", "displayName" : "RNF111 ubiquitinates SUMOylated XPC", "schemaClass" : "Reaction", "speciesId" : 0, "following" : [ 10295267 ], "inputs" : [ 10299353, 10299341 ], "outputs" : [ 10299360, 10227543, 10295263 ], "catalysts" : [ 10277921 ], "efs" : [ ], "diagramIds" : [ 98422 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10295267, "stId" : "R-CFA-5689317", "displayName" : "Formation of the pre-incision complex in GG-NER", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10299363 ], "following" : [ 10296139 ], "inputs" : [ 10295242, 10227082, 10295263 ], "outputs" : [ 10295265 ], "efs" : [ ], "diagramIds" : [ 98332 ], "entityFunctionalStatus" : [ ] }, { "dbId" : 10298274, "stId" : "R-CFA-6782069", "displayName" : "UVSSA:USP7 deubiquitinates ERCC6", "schemaClass" : "Reaction", "speciesId" : 0, "preceding" : [ 10298265 ], "following" : [ 10298315 ], "inputs" : [ 113518, 10298263 ], "outputs" : [ 10226336, 10298271 ], "catalysts" : [ 10298263 ], "efs" : [ ], "diagramIds" : [ 98392 ], "entityFunctionalStatus" : [ ] } ], "subpathways" : [ { "dbId" : 10331347, "stId" : "R-CFA-6781827", "displayName" : "Transcription-Coupled Nucleotide Excision Repair (TC-NER)", "events" : [ 10298350, 10298315, 10298331, 10298347, 10320234, 10298327, 10298336, 10298357, 10298343, 10298157, 10298265, 10298197, 10298176, 10298162, 10298178, 10298274 ] }, { "dbId" : 10331333, "stId" : "R-CFA-5696394", "displayName" : "DNA Damage Recognition in GG-NER", "events" : [ 10296159, 10296209, 10297617, 10298384, 10297619 ] }, { "dbId" : 10331345, "stId" : "R-CFA-6781823", "displayName" : "Formation of TC-NER Pre-Incision Complex", "events" : [ 10298157, 10298265, 10298197, 10298176, 10298162, 10298178, 10298274 ] }, { "dbId" : 10331349, "stId" : "R-CFA-6782135", "displayName" : "Dual incision in TC-NER", "events" : [ 10298350, 10298315, 10298331, 10298347, 10320234, 10298327, 10298336 ] }, { "dbId" : 10331351, "stId" : "R-CFA-6782210", "displayName" : "Gap-filling DNA repair synthesis and ligation in TC-NER", "events" : [ 10298357, 10298343 ] }, { "dbId" : 10329015, "stId" : "R-CFA-5696399", "displayName" : "Global Genome Nucleotide Excision Repair (GG-NER)", "events" : [ 10295903, 10296137, 10296132, 10296159, 10296209, 10297617, 10298384, 10297619, 10296152, 10296139, 10233547, 10297621, 10296148, 10299363, 10295267, 10296155 ] }, { "dbId" : 10331325, "stId" : "R-CFA-5696400", "displayName" : "Dual Incision in GG-NER", "events" : [ 10295903, 10296137, 10296132 ] }, { "dbId" : 10331331, "stId" : "R-CFA-5696397", "displayName" : "Gap-filling DNA repair synthesis and ligation in GG-NER", "events" : [ 10296155 ] }, { "dbId" : 10329013, "stId" : "R-CFA-5696395", "displayName" : "Formation of Incision Complex in GG-NER", "events" : [ 10296152, 10296139, 10233547, 10297621, 10296148, 10299363, 10295267 ] } ] }