KEGG   PATHWAY: arut03420
Entry
arut03420                   Pathway                                
Name
Nucleotide excision repair - Acipenser ruthenus (sterlet)
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
arut03420  Nucleotide excision repair
arut03420

Other DBs
GO: 0006289
Organism
Acipenser ruthenus (sterlet) [GN:arut]
Gene
117406335  cullin-4A-like [KO:K10609]
117407290  cullin-4A-like [KO:K10609]
117430870  cullin-4B-like [KO:K10609]
117412675  cullin-4B [KO:K10609]
117432318  DNA damage-binding protein 1-like [KO:K10610]
117434905  ddb1; DNA damage-binding protein 1 [KO:K10610]
117432036  ddb2; DNA damage-binding protein 2 isoform X1 [KO:K10140]
117414225  DNA repair protein complementing XP-C cells-like isoform X1 [KO:K10838]
117412407  DNA repair protein complementing XP-C cells-like isoform X1 [KO:K10838]
117973027  UV excision repair protein RAD23 homolog B-like [KO:K10839]
117962583  UV excision repair protein RAD23 homolog A-like isoform X1 [KO:K10839]
117401189  LOW QUALITY PROTEIN: UV excision repair protein RAD23 homolog B [KO:K10839]
117421361  UV excision repair protein RAD23 homolog B-like [KO:K10839]
117402082  UV excision repair protein RAD23 homolog A [KO:K10839]
117430453  centrin-1 [KO:K10840]
117963483  centrin-1 [KO:K10840]
117400155  DNA excision repair protein ERCC-8-like isoform X1 [KO:K10570]
117963681  DNA excision repair protein ERCC-8-like isoform X1 [KO:K10570]
117414477  ercc6; DNA excision repair protein ERCC-6 isoform X1 [KO:K10841]
117420822  uvssa; UV-stimulated scaffold protein A [KO:K23720]
117973555  UV-stimulated scaffold protein A-like [KO:K23720]
117967970  DNA-directed RNA polymerase II subunit RPB1-like [KO:K03006] [EC:2.7.7.6]
117404588  DNA-directed RNA polymerase II subunit RPB1 [KO:K03006] [EC:2.7.7.6]
117408640  polr2b; DNA-directed RNA polymerase II subunit RPB2 [KO:K03010] [EC:2.7.7.6]
117420593  DNA-directed RNA polymerase II subunit RPB2 isoform X1 [KO:K03010] [EC:2.7.7.6]
117425080  DNA-directed RNA polymerase II subunit RPB3-like [KO:K03011]
117424273  polr2c; DNA-directed RNA polymerase II subunit RPB3 [KO:K03011]
117416578  DNA-directed RNA polymerase II subunit RPB4-like [KO:K03012]
117423692  DNA-directed RNA polymerase II subunit RPB4 [KO:K03012]
117428872  DNA-directed RNA polymerases I, II, and III subunit RPABC1 [KO:K03013]
117401404  DNA-directed RNA polymerases I, II, and III subunit RPABC1 [KO:K03013]
117971418  DNA-directed RNA polymerases I, II, and III subunit RPABC2 [KO:K03014]
117432614  DNA-directed RNA polymerases I, II, and III subunit RPABC2 [KO:K03014]
117398694  DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]
117968956  DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]
117416856  DNA-directed RNA polymerases I, II, and III subunit RPABC3 [KO:K03016]
117423174  DNA-directed RNA polymerases I, II, and III subunit RPABC3-like isoform X1 [KO:K03016]
117431318  polr2i; DNA-directed RNA polymerase II subunit RPB9 [KO:K03017]
117434942  polr2l; DNA-directed RNA polymerases I, II, and III subunit RPABC5 [KO:K03007]
117400709  DNA-directed RNA polymerases I, II, and III subunit RPABC4 [KO:K03009]
117395034  DNA-directed RNA polymerases I, II, and III subunit RPABC4-like [KO:K03009]
117429931  polr2j; DNA-directed RNA polymerase II subunit RPB11-a [KO:K03008]
117963208  polr2m; protein GRINL1A isoform X1 [KO:K21987]
117973384  cyclin-dependent kinase 7-like [KO:K02202] [EC:2.7.11.22 2.7.11.23]
117403627  cyclin-dependent kinase 7 isoform X1 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
117974168  cyclin-dependent kinase 7 isoform X1 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
117403948  cyclin-dependent kinase 7 isoform X1 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
117973892  CDK-activating kinase assembly factor MAT1-like [KO:K10842]
117425253  CDK-activating kinase assembly factor MAT1-like isoform X1 [KO:K10842]
117974042  cyclin-H-like isoform X1 [KO:K06634]
117403975  cyclin-H-like isoform X2 [KO:K06634]
117401314  ercc3; general transcription and DNA repair factor IIH helicase subunit XPB [KO:K10843] [EC:5.6.2.4]
117415136  ercc2; general transcription and DNA repair factor IIH helicase subunit XPD isoform X1 [KO:K10844] [EC:5.6.2.3]
117410976  gtf2h5; general transcription factor IIH subunit 5 [KO:K10845]
117431965  general transcription factor IIH subunit 1-like [KO:K03141]
117434916  general transcription factor IIH subunit 1-like [KO:K03141]
117973495  general transcription factor IIH subunit 2-like [KO:K03142]
117973505  general transcription factor IIH subunit 2-like [KO:K03142]
117403749  general transcription factor IIH subunit 2-like [KO:K03142]
117403896  general transcription factor IIH subunit 2-like [KO:K03142]
117963089  general transcription factor IIH subunit 3-like isoform X1 [KO:K03143]
117428501  general transcription factor IIH subunit 3-like isoform X1 [KO:K03143]
117964990  gtf2h4; general transcription factor IIH subunit 4 [KO:K03144]
117433964  general transcription factor IIH subunit 4 [KO:K03144]
117406701  ercc5; DNA repair protein complementing XP-G cells homolog isoform X1 [KO:K10846]
117421029  xpa; DNA repair protein complementing XP-A cells isoform X2 [KO:K10847]
117429060  replication protein A 70 kDa DNA-binding subunit-like [KO:K07466]
117430242  replication protein A 70 kDa DNA-binding subunit-like [KO:K07466]
117412911  rpa2; replication protein A 32 kDa subunit [KO:K10739]
117400680  rpa3; replication protein A 14 kDa subunit [KO:K10740]
117431355  ercc4; DNA repair endonuclease XPF isoform X1 [KO:K10848] [EC:3.1.-.-]
117406488  ercc1; DNA excision repair protein ERCC-1 [KO:K10849]
117970910  DNA polymerase delta subunit 2-like [KO:K02328]
117397799  DNA polymerase delta subunit 2 [KO:K02328]
117973063  DNA polymerase delta subunit 3-like [KO:K03504]
117405283  DNA polymerase delta subunit 3 [KO:K03504]
117970441  DNA polymerase delta subunit 4-like [KO:K03505]
117410022  DNA polymerase delta subunit 4 [KO:K03505]
117426562  DNA polymerase epsilon catalytic subunit A-like [KO:K02324] [EC:2.7.7.7]
117427950  DNA polymerase epsilon catalytic subunit A-like [KO:K02324] [EC:2.7.7.7]
117422259  DNA polymerase epsilon subunit 2-like [KO:K02325] [EC:2.7.7.7]
117420231  DNA polymerase epsilon subunit 2-like [KO:K02325] [EC:2.7.7.7]
117422656  DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
117396859  DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
117401275  DNA polymerase epsilon subunit 4 isoform X1 [KO:K03506] [EC:2.7.7.7]
117962711  DNA polymerase epsilon subunit 4-like isoform X1 [KO:K03506] [EC:2.7.7.7]
117397747  proliferating cell nuclear antigen [KO:K04802]
117966078  proliferating cell nuclear antigen [KO:K04802]
117409619  replication factor C subunit 1-like [KO:K10754]
117420878  replication factor C subunit 1-like [KO:K10754]
117417081  replication factor C subunit 4-like [KO:K10755]
117429097  replication factor C subunit 2 [KO:K10755]
117963249  replication factor C subunit 2-like [KO:K10755]
117423389  replication factor C subunit 4-like [KO:K10755]
117407391  replication factor C subunit 3 [KO:K10756]
117427026  replication factor C subunit 5 [KO:K10756]
117428002  replication factor C subunit 5 [KO:K10756]
117405273  replication factor C subunit 3 [KO:K10756]
117398841  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
arut03020  RNA polymerase
arut04120  Ubiquitin mediated proteolysis
KO pathway
ko03420   
LinkDB

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