KEGG   PATHWAY: lav03420
Entry
lav03420                    Pathway                                
Name
Nucleotide excision repair - Loxodonta africana (African savanna elephant)
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
lav03420  Nucleotide excision repair
lav03420

Other DBs
GO: 0006289
Organism
Loxodonta africana (African savanna elephant) [GN:lav]
Gene
100657479  RBX1; E3 ubiquitin-protein ligase RBX1 [KO:K03868] [EC:2.3.2.32]
100660215  CUL4B; cullin-4B isoform X3 [KO:K10609]
100656882  CUL4A; cullin-4A isoform X1 [KO:K10609]
100659188  DDB1; DNA damage-binding protein 1 [KO:K10610]
100665802  DDB2; DNA damage-binding protein 2 isoform X1 [KO:K10140]
100675847  XPC; DNA repair protein complementing XP-C cells [KO:K10838]
100653568  RAD23A; UV excision repair protein RAD23 homolog A isoform X1 [KO:K10839]
100671736  RAD23B; UV excision repair protein RAD23 homolog B isoform X1 [KO:K10839]
100666309  CETN2; centrin-2 isoform X1 [KO:K10840]
100672024  ERCC8; DNA excision repair protein ERCC-8 isoform X2 [KO:K10570]
100662746  ERCC6; DNA excision repair protein ERCC-6 isoform X1 [KO:K10841]
100675472  UVSSA; UV-stimulated scaffold protein A [KO:K23720]
100662030  POLR2A; DNA-directed RNA polymerase II subunit RPB1 isoform X1 [KO:K03006] [EC:2.7.7.6]
100672166  POLR2B; DNA-directed RNA polymerase II subunit RPB2 [KO:K03010] [EC:2.7.7.6]
100676349  POLR2C; DNA-directed RNA polymerase II subunit RPB3 [KO:K03011]
100674544  POLR2D; DNA-directed RNA polymerase II subunit RPB4 [KO:K03012]
100674866  POLR2E; DNA-directed RNA polymerases I, II, and III subunit RPABC1 [KO:K03013]
100667437  POLR2F; DNA-directed RNA polymerases I, II, and III subunit RPABC2 [KO:K03014]
100670368  POLR2G; DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]
100676232  POLR2H; DNA-directed RNA polymerases I, II, and III subunit RPABC3 isoform X1 [KO:K03016]
100658164  POLR2I; DNA-directed RNA polymerase II subunit RPB9 [KO:K03017]
111751383  POLR2L; LOW QUALITY PROTEIN: DNA-directed RNA polymerases I, II, and III subunit RPABC5 [KO:K03007]
100673571  POLR2K; DNA-directed RNA polymerases I, II, and III subunit RPABC4 [KO:K03009]
100669494  POLR2J; DNA-directed RNA polymerase II subunit RPB11-a [KO:K03008]
100657384  POLR2M; protein GRINL1A [KO:K21987]
100655537  CDK7; cyclin-dependent kinase 7 isoform X1 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
100673661  MNAT1; CDK-activating kinase assembly factor MAT1 [KO:K10842]
100655150  CCNH; cyclin-H [KO:K06634]
100675683  ERCC3; TFIIH basal transcription factor complex helicase XPB subunit isoform X1 [KO:K10843] [EC:5.6.2.4]
100673353  ERCC2; TFIIH basal transcription factor complex helicase XPD subunit [KO:K10844] [EC:5.6.2.3]
100660907  GTF2H5; general transcription factor IIH subunit 5 [KO:K10845]
100669198  GTF2H1; general transcription factor IIH subunit 1 isoform X1 [KO:K03141]
100657525  GTF2H2; general transcription factor IIH subunit 2 isoform X3 [KO:K03142]
100671793  GTF2H3; general transcription factor IIH subunit 3 isoform X4 [KO:K03143]
100663281  GTF2H4; general transcription factor IIH subunit 4 [KO:K03144]
100675206  DNA repair protein complementing XP-G cells-like [KO:K10846]
100673755  XPA; LOW QUALITY PROTEIN: DNA repair protein complementing XP-A cells [KO:K10847]
100661458  RPA1; replication protein A 70 kDa DNA-binding subunit [KO:K07466]
100656421  RPA2; replication protein A 32 kDa subunit [KO:K10739]
104846846  RPA4; LOW QUALITY PROTEIN: replication protein A 30 kDa subunit [KO:K10741]
100655576  ERCC4; DNA repair endonuclease XPF isoform X1 [KO:K10848] [EC:3.1.-.-]
100673932  ERCC1; DNA excision repair protein ERCC-1 isoform X1 [KO:K10849]
100656381  POLD1; DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
100657668  POLD2; DNA polymerase delta subunit 2 [KO:K02328]
100667439  POLD3; DNA polymerase delta subunit 3 [KO:K03504]
100674373  POLD4; DNA polymerase delta subunit 4 isoform X1 [KO:K03505]
100655118  POLE; DNA polymerase epsilon catalytic subunit A isoform X1 [KO:K02324] [EC:2.7.7.7]
100673367  POLE2; DNA polymerase epsilon subunit 2 isoform X1 [KO:K02325] [EC:2.7.7.7]
104845639  POLE3; DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
100661828  PCNA; proliferating cell nuclear antigen [KO:K04802]
100659253  RFC1; replication factor C subunit 1 isoform X1 [KO:K10754]
100664093  RFC4; replication factor C subunit 4 [KO:K10755]
100674743  RFC2; replication factor C subunit 2 isoform X1 [KO:K10755]
100663797  RFC3; replication factor C subunit 3 isoform X1 [KO:K10756]
100654256  RFC5; replication factor C subunit 5 isoform X1 [KO:K10756]
100663865  LIG1; DNA ligase 1 isoform X1 [KO:K10747] [EC:6.5.1.1 6.5.1.6 6.5.1.7]
Reference
  Authors
Sugasawa K.
  Title
[Molecular mechanism of mammalian nucleotide excision repair]
  Journal
Tanpakushitsu Kakusan Koso 46:893-901 (2001)
Reference
  Authors
Nakatsu Y.
  Title
[Transcription-coupled repair and Cockayne syndrome]
  Journal
Tanpakushitsu Kakusan Koso 46:908-15 (2001)
Reference
  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
  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
  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
  Authors
Sugasawa K.
  Title
[DNA repair pathways involving Cul4A ubiquitin ligases]
  Journal
Tanpakushitsu Kakusan Koso 51:1339-44 (2006)
Reference
  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
lav03020  RNA polymerase
lav04120  Ubiquitin mediated proteolysis
KO pathway
ko03420   
LinkDB

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