KEGG   PATHWAY: sund03420
Entry
sund03420                   Pathway                                
Name
Nucleotide excision repair - Sceloporus undulatus (fence lizard)
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
sund03420  Nucleotide excision repair
sund03420

Other DBs
GO: 0006289
Organism
Sceloporus undulatus (fence lizard) [GN:sund]
Gene
121932202  RBX1; E3 ubiquitin-protein ligase RBX1 [KO:K03868] [EC:2.3.2.32]
121936672  CUL4B; cullin-4B [KO:K10609]
121926386  LOW QUALITY PROTEIN: cullin-4A-like [KO:K10609]
121934402  DDB1; DNA damage-binding protein 1 [KO:K10610]
121927602  DDB2; DNA damage-binding protein 2 isoform X1 [KO:K10140]
121921327  XPC; DNA repair protein complementing XP-C cells isoform X1 [KO:K10838]
121922381  RAD23B; UV excision repair protein RAD23 homolog B isoform X1 [KO:K10839]
121922822  RAD23A; UV excision repair protein RAD23 homolog A [KO:K10839]
121937254  CETN2; centrin-2 [KO:K10840]
121922843  ERCC8; DNA excision repair protein ERCC-8 isoform X1 [KO:K10570]
121927200  ERCC6; DNA excision repair protein ERCC-6 isoform X1 [KO:K10841]
121925857  UVSSA; UV-stimulated scaffold protein A [KO:K23720]
121933599  POLR2A; DNA-directed RNA polymerase II subunit RPB1 [KO:K03006] [EC:2.7.7.6]
121921671  POLR2B; DNA-directed RNA polymerase II subunit RPB2 [KO:K03010] [EC:2.7.7.6]
121914268  POLR2C; DNA-directed RNA polymerase II subunit RPB3 [KO:K03011]
121927324  POLR2D; DNA-directed RNA polymerase II subunit RPB4 [KO:K03012]
121916705  POLR2E; LOW QUALITY PROTEIN: DNA-directed RNA polymerases I, II, and III subunit RPABC1 [KO:K03013]
121930320  POLR2F; DNA-directed RNA polymerases I, II, and III subunit RPABC2 [KO:K03014]
121915963  POLR2G; DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]
121926503  POLR2H; DNA-directed RNA polymerases I, II, and III subunit RPABC3 [KO:K03016]
121916313  POLR2I; DNA-directed RNA polymerase II subunit RPB9 isoform X1 [KO:K03017]
121934267  DNA-directed RNA polymerases I, II, and III subunit RPABC5-like [KO:K03007]
121930152  POLR2L; DNA-directed RNA polymerases I, II, and III subunit RPABC5 [KO:K03007]
121930027  POLR2K; DNA-directed RNA polymerases I, II, and III subunit RPABC4 [KO:K03009]
121917132  POLR2J; DNA-directed RNA polymerase II subunit RPB11-a isoform X1 [KO:K03008]
121921692  CDK7; cyclin-dependent kinase 7 isoform X1 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
121919169  MNAT1; CDK-activating kinase assembly factor MAT1 isoform X1 [KO:K10842]
121922250  CCNH; cyclin-H isoform X1 [KO:K06634]
121914555  ERCC3; general transcription and DNA repair factor IIH helicase subunit XPB [KO:K10843] [EC:5.6.2.4]
121916112  ERCC2; general transcription and DNA repair factor IIH helicase subunit XPD isoform X1 [KO:K10844] [EC:5.6.2.3]
121935716  GTF2H5; general transcription factor IIH subunit 5 [KO:K10845]
121924886  GTF2H1; general transcription factor IIH subunit 1 isoform X1 [KO:K03141]
121923534  GTF2H2; general transcription factor IIH subunit 2 [KO:K03142]
121916531  GTF2H3; general transcription factor IIH subunit 3 isoform X1 [KO:K03143]
121921605  GTF2H4; general transcription factor IIH subunit 4 isoform X1 [KO:K03144]
121925015  LOW QUALITY PROTEIN: DNA excision repair protein ERCC-5-like [KO:K10846]
121922650  XPA; DNA repair protein complementing XP-A cells isoform X1 [KO:K10847]
121917058  RPA1; replication protein A 70 kDa DNA-binding subunit [KO:K07466]
121916290  RPA2; replication protein A 32 kDa subunit [KO:K10739]
121932432  RPA3; replication protein A 14 kDa subunit [KO:K10740]
121914209  ERCC4; DNA repair endonuclease XPF isoform X1 [KO:K10848] [EC:3.1.-.-]
121916039  ERCC1; DNA excision repair protein ERCC-1 isoform X1 [KO:K10849]
121935352  POLD1; LOW QUALITY PROTEIN: DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
121933572  POLD2; DNA polymerase delta subunit 2 [KO:K02328]
121926144  POLD3; DNA polymerase delta subunit 3 isoform X1 [KO:K03504]
121931720  POLD4; DNA polymerase delta subunit 4 isoform X1 [KO:K03505]
121916708  POLE; DNA polymerase epsilon catalytic subunit A isoform X1 [KO:K02324] [EC:2.7.7.7]
121936171  POLE3; DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
121936904  POLE4; DNA polymerase epsilon subunit 4 [KO:K03506] [EC:2.7.7.7]
121935776  PCNA; proliferating cell nuclear antigen [KO:K04802]
121930438  RFC1; replication factor C subunit 1 isoform X1 [KO:K10754]
121917135  RFC2; replication factor C subunit 2 [KO:K10755]
121916528  RFC5; replication factor C subunit 5 [KO:K10756]
121925370  RFC3; replication factor C subunit 3 [KO:K10756]
121935745  LIG1; DNA ligase 1 isoform X1 [KO:K10747] [EC:6.5.1.1 6.5.1.6 6.5.1.7]
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
sund03020  RNA polymerase
sund04120  Ubiquitin mediated proteolysis
KO pathway
ko03420   
LinkDB

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