KEGG   PATHWAY: ko03420
Entry
ko03420                     Pathway                                
Name
Nucleotide excision repair
Description
Nucleotide excision repair (NER) is a mechanism to recognize and repair bulky DNA damage caused by compounds, environmental carcinogens, and exposure to UV-light. In humans hereditary defects in the NER pathway are linked to at least three diseases: xeroderma pigmentosum (XP), Cockayne syndrome (CS), and trichothiodystrophy (TTD). The repair of damaged DNA involves at least 30 polypeptides within two different sub-pathways of NER known as transcription-coupled repair (TCR-NER) and global genome repair (GGR-NER). TCR refers to the expedited repair of lesions located in the actively transcribed strand of genes by RNA polymerase II (RNAP II). In GGR-NER the first step of damage recognition involves XPC-hHR23B complex together with XPE complex (in prokaryotes, uvrAB complex). The following steps of GGR-NER and TCR-NER are similar.
Class
Genetic Information Processing; Replication and repair
Pathway map
ko03420  Nucleotide excision repair
ko03420

Other DBs
GO: 0006289
Orthology
K01972  E6.5.1.2, ligA, ligB; DNA ligase (NAD+) [EC:6.5.1.2]
K02202  CDK7; cyclin-dependent kinase 7 [EC:2.7.11.22 2.7.11.23]
K02324  POLE; DNA polymerase epsilon subunit 1 [EC:2.7.7.7]
K02325  POLE2; DNA polymerase epsilon subunit 2 [EC:2.7.7.7]
K02326  POLE3; DNA polymerase epsilon subunit 3 [EC:2.7.7.7]
K02327  POLD1; DNA polymerase delta subunit 1 [EC:2.7.7.7]
K02328  POLD2; DNA polymerase delta subunit 2
K02335  polA; DNA polymerase I [EC:2.7.7.7]
K03006  RPB1, POLR2A; DNA-directed RNA polymerase II subunit RPB1 [EC:2.7.7.6]
K03007  RPABC5, RPB10, POLR2L; DNA-directed RNA polymerases I, II, and III subunit RPABC5
K03008  RPB11, POLR2J; DNA-directed RNA polymerase II subunit RPB11
K03009  RPABC4, RPB12, POLR2K; DNA-directed RNA polymerases I, II, and III subunit RPABC4
K03010  RPB2, POLR2B; DNA-directed RNA polymerase II subunit RPB2 [EC:2.7.7.6]
K03011  RPB3, POLR2C; DNA-directed RNA polymerase II subunit RPB3
K03012  RPB4, POLR2D; DNA-directed RNA polymerase II subunit RPB4
K03013  RPABC1, RPB5, POLR2E; DNA-directed RNA polymerases I, II, and III subunit RPABC1
K03014  RPABC2, RPB6, POLR2F; DNA-directed RNA polymerases I, II, and III subunit RPABC2
K03015  RPB7, POLR2G; DNA-directed RNA polymerase II subunit RPB7
K03016  RPABC3, RPB8, POLR2H; DNA-directed RNA polymerases I, II, and III subunit RPABC3
K03017  RPB9, POLR2I; DNA-directed RNA polymerase II subunit RPB9
K03141  TFIIH1, GTF2H1, TFB1; transcription initiation factor TFIIH subunit 1
K03142  TFIIH2, GTF2H2, SSL1; transcription initiation factor TFIIH subunit 2
K03143  TFIIH3, GTF2H3, TFB4; transcription initiation factor TFIIH subunit 3
K03144  TFIIH4, GTF2H4, TFB2; transcription initiation factor TFIIH subunit 4
K03504  POLD3; DNA polymerase delta subunit 3
K03505  POLD4; DNA polymerase delta subunit 4
K03506  POLE4; DNA polymerase epsilon subunit 4 [EC:2.7.7.7]
K03657  uvrD, pcrA; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
K03701  uvrA; excinuclease ABC subunit A
K03702  uvrB; excinuclease ABC subunit B
K03703  uvrC; excinuclease ABC subunit C
K03723  mfd; transcription-repair coupling factor (superfamily II helicase) [EC:5.6.2.4]
K03868  RBX1, ROC1; E3 ubiquitin-protein ligase RBX1 [EC:2.3.2.32]
K04802  PCNA; proliferating cell nuclear antigen
K06634  CCNH; cyclin H
K07466  RFA1, RPA1, rpa; replication factor A1
K10140  DDB2; DNA damage-binding protein 2
K10570  ERCC8, CKN1, CSA; DNA excision repair protein ERCC-8
K10609  CUL4; cullin 4
K10610  DDB1; DNA damage-binding protein 1
K10739  RFA2, RPA2; replication factor A2
K10740  RPA3; replication factor A3
K10741  RPA4; replication factor A4
K10747  LIG1; DNA ligase 1 [EC:6.5.1.1 6.5.1.6 6.5.1.7]
K10754  RFC1; replication factor C subunit 1
K10755  RFC2_4; replication factor C subunit 2/4
K10756  RFC3_5; replication factor C subunit 3/5
K10838  XPC; xeroderma pigmentosum group C-complementing protein
K10839  RAD23, HR23; UV excision repair protein RAD23
K10840  CETN2; centrin-2
K10841  ERCC6, CSB, RAD26; DNA excision repair protein ERCC-6
K10842  MNAT1; CDK-activating kinase assembly factor MAT1
K10843  ERCC3, XPB; DNA excision repair protein ERCC-3 [EC:5.6.2.4]
K10844  ERCC2, XPD; DNA excision repair protein ERCC-2 [EC:5.6.2.3]
K10845  TTDA, GTF2H5, TFB5; TFIIH basal transcription factor complex TTD-A subunit
K10846  ERCC5, XPG, RAD2; DNA excision repair protein ERCC-5
K10847  XPA; DNA-repair protein complementing XP-A cells
K10848  ERCC4, XPF; DNA excision repair protein ERCC-4 [EC:3.1.-.-]
K10849  ERCC1; DNA excision repair protein ERCC-1
K21987  POLR2M, GRINL1A; DNA-directed RNA polymerase II subunit GRINL1A
K23720  UVSSA; UV-stimulated scaffold protein A
Reference
PMID:11436314
  Authors
Sugasawa K.
  Title
[Molecular mechanism of mammalian nucleotide excision repair]
  Journal
Tanpakushitsu Kakusan Koso 46:893-901 (2001)
Reference
PMID:11436316
  Authors
Nakatsu Y.
  Title
[Transcription-coupled repair and Cockayne syndrome]
  Journal
Tanpakushitsu Kakusan Koso 46:908-15 (2001)
Reference
PMID:11436323
  Authors
Nakagawa N, Masui R, Kuramitsu S.
  Title
[Structure and function of DNA repair enzyme UvrB from Thermus thermophilus HB8]
  Journal
Tanpakushitsu Kakusan Koso 46:968-75 (2001)
Reference
PMID:17276014
  Authors
Kraemer KH, Patronas NJ, Schiffmann R, Brooks BP, Tamura D, DiGiovanna JJ.
  Title
Xeroderma pigmentosum, trichothiodystrophy and Cockayne syndrome: a complex genotype-phenotype relationship.
  Journal
Neuroscience 145:1388-96 (2007)
DOI:10.1016/j.neuroscience.2006.12.020
Reference
PMID:17884153
  Authors
Saldivar JS, Wu X, Follen M, Gershenson D.
  Title
Nucleotide excision repair pathway review I: implications in ovarian cancer and platinum sensitivity.
  Journal
Gynecol Oncol 107:S56-71 (2007)
DOI:10.1016/j.ygyno.2007.07.043
Reference
PMID:16922398
  Authors
Sugasawa K.
  Title
[DNA repair pathways involving Cul4A ubiquitin ligases]
  Journal
Tanpakushitsu Kakusan Koso 51:1339-44 (2006)
Reference
PMID:18018633
  Authors
Ito S, Ando D, Tanaka K.
  Title
[Cross-talk between DNA repair and transcription: molecular mechanism and disorders]
  Journal
Tanpakushitsu Kakusan Koso 52:1823-31 (2007)
Related
pathway
ko03020  RNA polymerase
ko04120  Ubiquitin mediated proteolysis

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