KEGG   PATHWAY: ncar03420
Entry
ncar03420                   Pathway                                
Name
Nucleotide excision repair - Sciurus carolinensis (gray squirrel)
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
ncar03420  Nucleotide excision repair
ncar03420

Other DBs
GO: 0006289
Organism
Sciurus carolinensis (gray squirrel) [GN:ncar]
Gene
124983356  E3 ubiquitin-protein ligase RBX1 [KO:K03868] [EC:2.3.2.32]
124985136  cullin-4A isoform X1 [KO:K10609]
124971719  LOW QUALITY PROTEIN: cullin-4B-like [KO:K10609]
124958725  DNA damage-binding protein 1 [KO:K10610]
124960240  DNA damage-binding protein 2 [KO:K10140]
124971028  LOW QUALITY PROTEIN: DNA repair protein complementing XP-C cells-like [KO:K10838]
124969174  UV excision repair protein RAD23 homolog A isoform X1 [KO:K10839]
124964478  UV excision repair protein RAD23 homolog B [KO:K10839]
124971946  centrin-2 [KO:K10840]
124972649  centrin-2-like [KO:K10840]
124986627  DNA excision repair protein ERCC-8 isoform X1 [KO:K10570]
124985019  DNA excision repair protein ERCC-6-like isoform X1 [KO:K10841]
124994883  UV-stimulated scaffold protein A-like isoform X1 [KO:K23720]
124980148  LOW QUALITY PROTEIN: DNA-directed RNA polymerase II subunit RPB1-like [KO:K03006] [EC:2.7.7.6]
124994956  LOW QUALITY PROTEIN: DNA-directed RNA polymerase II subunit RPB2-like [KO:K03010] [EC:2.7.7.6]
124967224  DNA-directed RNA polymerase II subunit RPB3 isoform X1 [KO:K03011]
124980213  DNA-directed RNA polymerase II subunit RPB4 [KO:K03012]
124968707  DNA-directed RNA polymerases I, II, and III subunit RPABC1 [KO:K03013]
124983940  DNA-directed RNA polymerases I, II, and III subunit RPABC2 [KO:K03014]
124958944  DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]
124992527  DNA-directed RNA polymerases I, II, and III subunit RPABC3 isoform X1 [KO:K03016]
124960490  DNA-directed RNA polymerases I, II, and III subunit RPABC3-like isoform X1 [KO:K03016]
124960491  DNA-directed RNA polymerases I, II, and III subunit RPABC3-like isoform X1 [KO:K03016]
124966423  DNA-directed RNA polymerase II subunit RPB9 [KO:K03017]
124958283  DNA-directed RNA polymerases I, II, and III subunit RPABC5 [KO:K03007]
124984360  DNA-directed RNA polymerases I, II, and III subunit RPABC4-like [KO:K03009]
124978319  DNA-directed RNA polymerases I, II, and III subunit RPABC4-like [KO:K03009]
124980904  DNA-directed RNA polymerases I, II, and III subunit RPABC4 [KO:K03009]
124965584  DNA-directed RNA polymerases I, II, and III subunit RPABC4 [KO:K03009]
124969894  DNA-directed RNA polymerase II subunit RPB11-a [KO:K03008]
124975988  DNA-directed RNA polymerase II subunit GRINL1A-like [KO:K21987]
124987092  cyclin-dependent kinase 7 isoform X1 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
124987415  LOW QUALITY PROTEIN: CDK-activating kinase assembly factor MAT1-like [KO:K10842]
124976935  CDK-activating kinase assembly factor MAT1 [KO:K10842]
124987004  cyclin-H [KO:K06634]
124980937  general transcription and DNA repair factor IIH helicase subunit XPB isoform X1 [KO:K10843] [EC:5.6.2.4]
124966674  general transcription and DNA repair factor IIH helicase subunit XPD isoform X1 [KO:K10844] [EC:5.6.2.3]
124989071  general transcription factor IIH subunit 5 isoform X1 [KO:K10845]
124958314  general transcription factor IIH subunit 1 [KO:K03141]
124986823  general transcription factor IIH subunit 2 isoform X1 [KO:K03142]
124991643  LOW QUALITY PROTEIN: general transcription factor IIH subunit 2-like [KO:K03142]
124991851  general transcription factor IIH subunit 3 [KO:K03143]
124989533  general transcription factor IIH subunit 4 isoform X1 [KO:K03144]
124985223  DNA excision repair protein ERCC-5-like isoform X1 [KO:K10846]
124964309  DNA repair protein complementing XP-A cells isoform X1 [KO:K10847]
124980927  replication protein A 70 kDa DNA-binding subunit [KO:K07466]
124987545  replication protein A 32 kDa subunit isoform X1 [KO:K10739]
124985527  replication protein A 14 kDa subunit-like [KO:K10740]
124990263  replication protein A 14 kDa subunit [KO:K10740]
124970510  DNA repair endonuclease XPF [KO:K10848] [EC:3.1.-.-]
124966450  DNA excision repair protein ERCC-1 isoform X1 [KO:K10849]
124967373  DNA polymerase delta catalytic subunit isoform X1 [KO:K02327] [EC:2.7.7.7]
124990748  DNA polymerase delta subunit 2 isoform X1 [KO:K02328]
124958541  DNA polymerase delta subunit 3 [KO:K03504]
124958893  DNA polymerase delta subunit 4 [KO:K03505]
124991646  DNA polymerase epsilon catalytic subunit A isoform X1 [KO:K02324] [EC:2.7.7.7]
124970462  DNA polymerase epsilon subunit 2 isoform X1 [KO:K02325] [EC:2.7.7.7]
124964193  DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
124963237  DNA polymerase epsilon subunit 4 [KO:K03506] [EC:2.7.7.7]
124978151  proliferating cell nuclear antigen [KO:K04802]
124994364  LOW QUALITY PROTEIN: replication factor C subunit 1-like [KO:K10754]
124992997  replication factor C subunit 4 [KO:K10755]
124970812  replication factor C subunit 2 [KO:K10755]
124991983  replication factor C subunit 5 [KO:K10756]
124984409  replication factor C subunit 3 [KO:K10756]
124974870  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
ncar03020  RNA polymerase
ncar04120  Ubiquitin mediated proteolysis
KO pathway
ko03420   
LinkDB

DBGET integrated database retrieval system