NUCLEOTIDE EXCISION REPAIR PATHWAY (PW:0000130)

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Description

DNA lesions, induced by endogenous or exogenous agents, affect the faithful replication of the genome resulting in genetic aberrations that can be deleterious to the cell and organism. Multiple systems have evolved to detect single and double-strand DNA lesions, initiate signals that can be amplified and propagated, and set in motion effectors that can impinge upon DNA repair and checkpoint, various signaling and/or regulatory pathways, as necessary. Together, this vast response mechanism is kn

Pathway Diagram:

Ariadne Genomics Inc. pold complex Rpa complex Ercc5 Ercc4 Hmgn1 Gtf2h1 Ercc3 Ercc2 Ddb2 pole complex Ercc8 ---- Gtf2h2 Ercc8 stalled polrII complex Gtf2h1 ---- Xpc Ercc3 ---- Xpc pole complex ---- Rpa complex pold complex ---- Rpa complex Polk ---- Rpa complex Ercc5 ---- Rpa complex Xrcc1 Lig1 Lig3 ---- Xrcc1 Lig3 Ercc1 ---- Ercc4 Ercc6 ---- Ercc8 DNA incision helix unwinding Ercc8 ---- Xab2 Ercc8 ---- Hmgn1 Ercc6 ---- stalled polrII complex TFIIH complex Ercc6 Xab2 Pcna ---- Rfc complex Pcna ---- pole complex Ddb1 ---- Ddb2 Ddb1 Rad23b ---- Xpc Xpc Cetn2 Cetn2 ---- Xpc Rad23b Pcna ---- pold complex Pcna Polk Pcna ---- Polk Ercc4 ---- Rpa complex Rpa complex ---- Xpa Xpa Ercc1 Ercc1 ---- Xpa Gtf2h2 Rfc complex chromatin modification/remodeling pathway
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Genes in Pathway:

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nucleotide excision repair pathway term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Ccnh cyclin H JBrowse link 2 13,593,100 13,613,910 RGD:6907045
G Cdk7 cyclin-dependent kinase 7 JBrowse link 2 30,710,642 30,735,522 RGD:6907045
G Cetn2 centrin 2 JBrowse link X 152,927,852 152,933,095 RGD:6907045
RGD:7246920
G Cul4a cullin 4A JBrowse link 16 81,718,784 81,756,653 RGD:6907045
G Cul4b cullin 4B JBrowse link X 124,831,391 124,870,329 RGD:6907045
G Ddb1 damage-specific DNA binding protein 1 JBrowse link 1 226,657,561 226,683,356 RGD:6907045
RGD:7246920
G Ddb2 damage specific DNA binding protein 2 JBrowse link 3 80,030,437 80,052,984 RGD:7246920
G Ercc1 ERCC excision repair 1, endonuclease non-catalytic subunit JBrowse link 1 80,256,973 80,268,198 RGD:6907045
RGD:7246926
G Ercc2 ERCC excision repair 2, TFIIH core complex helicase subunit JBrowse link 1 80,293,574 80,307,334 RGD:6907045
RGD:10402751
RGD:7246920
G Ercc3 ERCC excision repair 3, TFIIH core complex helicase subunit JBrowse link 18 25,037,668 25,068,380 RGD:6907045
RGD:7246920
G Ercc4 ERCC excision repair 4, endonuclease catalytic subunit JBrowse link 10 2,010,140 2,037,953 RGD:6907045
RGD:10402751
RGD:7246926
G Ercc4l1 excision repair cross-complementing rodent repair deficiency, complementation group 4-like 1 JBrowse link 10 92,631 117,648 RGD:6907045
G Ercc5 ERCC excision repair 5, endonuclease JBrowse link 9 50,928,847 50,970,962 RGD:6907045
RGD:10402751
RGD:7246926
G Ercc6 ERCC excision repair 6, chromatin remodeling factor JBrowse link 16 8,734,028 8,804,610 RGD:6907045
RGD:7246923
RGD:7246919
G Ercc8 ERCC excision repair 8, CSA ubiquitin ligase complex subunit JBrowse link 2 39,434,617 39,473,392 RGD:6907045
RGD:7246923
RGD:7246919
G Gtf2h1 general transcription factor IIH subunit 1 JBrowse link 1 102,849,618 102,877,939 RGD:6907045
RGD:7246920
G Gtf2h2 general transcription factor IIH subunit 2 JBrowse link 2 30,494,718 30,522,716 RGD:6907045
RGD:7246922
G Gtf2h3 general transcription factor IIH subunit 3 JBrowse link 12 37,427,556 37,444,027 RGD:6907045
G Gtf2h4 general transcription factor 2H subunit 4 JBrowse link 20 3,582,688 3,588,373 RGD:6907045
G Gtf2h5 general transcription factor IIH subunit 5 JBrowse link 1 46,978,345 46,985,032 RGD:6907045
G Hmgn1 high mobility group nucleosome binding domain 1 JBrowse link 11 36,474,028 36,479,947 RGD:7246919
G Lig1 DNA ligase 1 JBrowse link 1 75,356,212 75,394,757 RGD:1358139
RGD:10402751
RGD:7246935
RGD:6907045
G Lig3 DNA ligase 3 JBrowse link 10 70,134,734 70,158,051 RGD:7246935
G LOC100362333 DNA-directed DNA polymerase epsilon 3 JBrowse link 7 118,816,053 118,816,725 RGD:7246936
G Mnat1 MNAT1, CDK activating kinase assembly factor JBrowse link 6 95,995,341 96,153,331 RGD:6907045
G Papd7 poly(A) RNA polymerase D7, non-canonical JBrowse link 1 36,400,056 36,433,238 RGD:10402751
G Pcna proliferating cell nuclear antigen JBrowse link 3 124,880,698 124,884,570 RGD:6907045
RGD:10402751
RGD:7246932
RGD:7246931
G Pold1 DNA polymerase delta 1, catalytic subunit JBrowse link 1 100,538,066 100,554,105 RGD:1358139
RGD:7246935
RGD:6907045
G Pold2 DNA polymerase delta 2, accessory subunit JBrowse link 14 86,111,416 86,117,578 RGD:6907045
RGD:7246935
G Pold3 DNA polymerase delta 3, accessory subunit JBrowse link 1 165,085,142 165,122,385 RGD:6907045
RGD:7246935
G Pold4 DNA polymerase delta 4, accessory subunit JBrowse link 1 219,480,841 219,483,244 RGD:6907045
RGD:7246935
G Pole DNA polymerase epsilon, catalytic subunit JBrowse link 12 52,403,533 52,452,075 RGD:6907045
RGD:10402751
RGD:7246935
RGD:7246936
G Pole2 DNA polymerase epsilon 2, accessory subunit JBrowse link 6 91,494,348 91,532,355 RGD:6907045
RGD:7246936
G Pole3 DNA polymerase epsilon 3, accessory subunit JBrowse link 5 78,380,813 78,384,047 RGD:6907045
RGD:7246936
G Pole4 DNA polymerase epsilon 4, accessory subunit JBrowse link 4 113,491,644 113,497,455 RGD:6907045
RGD:7246936
G Polk DNA polymerase kappa JBrowse link 2 27,305,718 27,364,906 RGD:7246935
G Polr1a RNA polymerase I subunit A JBrowse link 4 99,822,964 99,903,969 RGD:10402751
G Rad23a RAD23 homolog A, nucleotide excision repair protein JBrowse link 19 25,949,488 25,956,677 RGD:6907045
RGD:10402751
G Rad23b RAD23 homolog B, nucleotide excision repair protein JBrowse link 5 72,103,704 72,141,701 RGD:6907045
RGD:7246920
G Rbx1 ring-box 1 JBrowse link 7 122,700,849 122,710,907 RGD:6907045
G Rfc1 replication factor C subunit 1 JBrowse link 14 44,627,528 44,702,205 RGD:6907045
RGD:10402751
RGD:7246932
G Rfc2 replication factor C subunit 2 JBrowse link 12 25,130,375 25,143,480 RGD:6907045
RGD:7246932
G Rfc3 replication factor C subunit 3 JBrowse link 12 1,460,581 1,471,344 RGD:6907045
RGD:7246932
G Rfc4 replication factor C subunit 4 JBrowse link 11 81,358,592 81,373,044 RGD:6907045
RGD:7246932
G Rfc5 replication factor C subunit 5 JBrowse link 12 44,931,494 44,941,051 RGD:6907045
RGD:7246932
G Rpa1 replication protein A1 JBrowse link 10 62,140,419 62,191,518 RGD:6907045
RGD:7246926
G Rpa2 replication protein A2 JBrowse link 5 150,957,041 150,967,597 RGD:6907045
RGD:7246926
G Rpa3 replication protein A3 JBrowse link 4 34,279,320 34,282,351 RGD:6907045
RGD:7246926
G Xab2 XPA binding protein 2 JBrowse link 12 2,158,391 2,170,397 RGD:7246919
G Xpa XPA, DNA damage recognition and repair factor JBrowse link 5 61,749,767 61,793,641 RGD:6907045
RGD:10402751
RGD:7246926
G Xpc XPC complex subunit, DNA damage recognition and repair factor JBrowse link 4 123,134,457 123,161,985 RGD:6907045
RGD:7246922
RGD:7246920
G Xrcc1 X-ray repair cross complementing 1 JBrowse link 1 81,412,635 81,441,680 RGD:7246935
altered nucleotide excision repair pathway term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Ddb1 damage-specific DNA binding protein 1 JBrowse link 1 226,657,561 226,683,356 RGD:7246919
G Ercc2 ERCC excision repair 2, TFIIH core complex helicase subunit JBrowse link 1 80,293,574 80,307,334 RGD:7246919
G Ercc3 ERCC excision repair 3, TFIIH core complex helicase subunit JBrowse link 18 25,037,668 25,068,380 RGD:7246919
G Ercc4 ERCC excision repair 4, endonuclease catalytic subunit JBrowse link 10 2,010,140 2,037,953 RGD:7246919
RGD:9588971
G Ercc5 ERCC excision repair 5, endonuclease JBrowse link 9 50,928,847 50,970,962 RGD:7246919
G Ercc6 ERCC excision repair 6, chromatin remodeling factor JBrowse link 16 8,734,028 8,804,610 RGD:7246919
G Ercc8 ERCC excision repair 8, CSA ubiquitin ligase complex subunit JBrowse link 2 39,434,617 39,473,392 RGD:7246919
G Xpa XPA, DNA damage recognition and repair factor JBrowse link 5 61,749,767 61,793,641 RGD:7246919
G Xpc XPC complex subunit, DNA damage recognition and repair factor JBrowse link 4 123,134,457 123,161,985 RGD:7246919

Altered Pathway:

Pathway Gene Annotations

Pathway Annotations Associated with Genes in the nucleotide excision repair pathway
Pathway TermsGene Symbols
altered nucleotide excision repair pathwayDdb1 , Ercc2 , Ercc3 , Ercc4 , Ercc5 , Ercc6 , Ercc8 , Xpa , Xpc
base excision repair pathwayLig1 , Lig3 , Pcna , Pold1 , Pold2 , Pold3 , Pold4 , Pole , Pole2 , Pole3 , Pole4 , Xrcc1
cell cycle pathway, mitoticCcnh , Cdk7 , Pcna , Rbx1
DNA replication pathwayLig1 , Pcna , Pold1 , Pold2 , Pold3 , Pold4 , Pole , Pole2 , Pole3 , Pole4 , Rfc1 , Rfc2 , Rfc3 , Rfc4 , Rfc5 , Rpa1 , Rpa2 , Rpa3
Endoplasmic Reticulum-associated degradation pathwayRad23a , Rad23b , Rbx1
FasL mediated signaling pathwayRfc1
homologous recombination pathway of double-strand break repairPold1 , Pold2 , Pold3 , Pold4 , Rpa1 , Rpa2 , Rpa3
hypoxia inducible factor pathwayRbx1
ISWI family mediated chromatin remodeling pathwayPole3
mismatch repair pathwayLig1 , Pcna , Pold1 , Pold2 , Pold3 , Pold4 , Rfc1 , Rfc2 , Rfc3 , Rfc4 , Rfc5 , Rpa1 , Rpa2 , Rpa3
neddylation pathwayRbx1
nuclear factor kappa B signaling pathwayRbx1
nuclear factor, erythroid 2 like 2 signaling pathwayRbx1
nucleotide excision repair pathwayCcnh , Cdk7 , Cetn2 , Cul4a , Cul4b , Ddb1 , Ddb2 , Ercc1 , Ercc2 , Ercc3 , Ercc4 , Ercc4l1 , Ercc5 , Ercc6 , Ercc8 , Gtf2h1 , Gtf2h2 , Gtf2h3 , Gtf2h4 , Gtf2h5 , Hmgn1 , Lig1 , Lig3 , LOC100362333 , Mnat1 , Papd7 , Pcna , Pold1 , Pold2 , Pold3 , Pold4 , Pole , Pole2 , Pole3 , Pole4 , Polk , Polr1a , Rad23a , Rad23b , Rbx1 , Rfc1 , Rfc2 , Rfc3 , Rfc4 , Rfc5 , Rpa1 , Rpa2 , Rpa3 , Xab2 , Xpa , Xpc , Xrcc1
proteasome degradation pathway involving cullin-dependent ubiquitin ligasesRbx1
purine metabolic pathwayPold1 , Pold2 , Pold3 , Pold4 , Pole , Pole2 , Pole3 , Pole4 , Polr1a
pyrimidine metabolic pathwayPold1 , Pold2 , Pold3 , Pold4 , Pole , Pole2 , Pole3 , Pole4 , Polr1a
renal cell cancer pathwayRbx1
RNA polymerase I transcription pathwayPolr1a
RNA polymerase II transcription initiation pathwayCcnh , Cdk7 , Ercc2 , Ercc3 , Ercc5 , Gtf2h1 , Gtf2h2 , Gtf2h3 , Gtf2h4 , Gtf2h5 , Mnat1 , Pole3
RNA polymerase II transcription pathwayCdk7
spliceosome pathwayXab2
transforming growth factor-beta superfamily mediated signaling pathwayRbx1
ubiquitin/proteasome degradation pathwayCul4a , Cul4b , Ddb1 , Ercc8 , Rbx1
Wnt signaling pathwayRbx1

References Associated with the nucleotide excision repair pathway:

Ontology Path Diagram:

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