KEGG   PATHWAY: spu03420
Entry
spu03420                    Pathway                                
Name
Nucleotide excision repair - Strongylocentrotus purpuratus (purple sea urchin)
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
spu03420  Nucleotide excision repair
spu03420

Other DBs
GO: 0006289
Organism
Strongylocentrotus purpuratus (purple sea urchin) [GN:spu]
Gene
591601  RING-box protein 1 [KO:K03868] [EC:2.3.2.32]
115918507  RING-box protein 1 [KO:K03868] [EC:2.3.2.32]
592454  cullin-4A [KO:K10609]
588842  DNA damage-binding protein 1 [KO:K10610]
100892716  DNA damage-binding protein 2 isoform X1 [KO:K10140]
115924834  DNA damage-binding protein 2-like [KO:K10140]
581218  DNA repair protein complementing XP-C cells homolog isoform X2 [KO:K10838]
578143  UV excision repair protein RAD23 homolog A [KO:K10839]
115918080  UV excision repair protein RAD23 homolog A-like [KO:K10839]
577431  DNA excision repair protein ERCC-8 [KO:K10570]
576112  DNA excision repair protein ERCC-6 [KO:K10841]
582379  UV-stimulated scaffold protein A [KO:K23720]
583794  DNA-directed RNA polymerase II subunit RPB1 [KO:K03006] [EC:2.7.7.6]
105446803  DNA-directed RNA polymerase II subunit RPB1-like [KO:K03006] [EC:2.7.7.6]
584422  DNA-directed RNA polymerase II subunit RPB2 [KO:K03010] [EC:2.7.7.6]
575987  DNA-directed RNA polymerase II subunit RPB3 [KO:K03011]
591189  DNA-directed RNA polymerase II subunit RPB4 [KO:K03012]
578317  DNA-directed RNA polymerases I, II, and III subunit RPABC1 [KO:K03013]
582938  DNA-directed RNA polymerases I, II, and III subunit RPABC2 [KO:K03014]
752151  DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]
591688  DNA-directed RNA polymerases I, II, and III subunit RPABC3 [KO:K03016]
583058  LOW QUALITY PROTEIN: DNA-directed RNA polymerase II subunit RPB9 [KO:K03017]
581204  DNA-directed RNA polymerase II subunit RPB11-a [KO:K03008]
100890417  DNA-directed RNA polymerase II subunit GRINL1A [KO:K21987]
100894147  cyclin-dependent kinase 7 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
578782  CDK-activating kinase assembly factor MAT1 [KO:K10842]
582289  cyclin-H [KO:K06634]
589434  general transcription and DNA repair factor IIH helicase subunit XPB [KO:K10843] [EC:5.6.2.4]
105444553  general transcription and DNA repair factor IIH helicase subunit XPB-like [KO:K10843] [EC:5.6.2.4]
575323  LOW QUALITY PROTEIN: general transcription and DNA repair factor IIH helicase subunit XPD [KO:K10844] [EC:5.6.2.3]
594243  general transcription factor IIH subunit 1 [KO:K03141]
589616  general transcription factor IIH subunit 2-like isoform X1 [KO:K03142]
586455  general transcription factor IIH subunit 3-like [KO:K03143]
115926597  general transcription factor IIH subunit 3-like [KO:K03143]
591457  general transcription factor IIH subunit 4 [KO:K03144]
577839  general transcription factor IIH subunit 4 [KO:K03144]
587097  DNA repair protein complementing XP-G cells homolog isoform X1 [KO:K10846]
585414  DNA repair protein complementing XP-G cells isoform X1 [KO:K10846]
105437552  DNA repair protein complementing XP-A cells homolog [KO:K10847]
757112  replication protein A 70 kDa DNA-binding subunit isoform X1 [KO:K07466]
580037  replication protein A 70 kDa DNA-binding subunit isoform X1 [KO:K07466]
752535  replication protein A 32 kDa subunit-B-like isoform X1 [KO:K10739]
105446431  replication protein A 32 kDa subunit-B-like isoform X1 [KO:K10739]
576263  replication protein A 14 kDa subunit [KO:K10740]
588601  DNA repair endonuclease XPF [KO:K10848] [EC:3.1.-.-]
586875  DNA excision repair protein ERCC-1 [KO:K10849]
100893055  DNA polymerase delta catalytic subunit isoform X1 [KO:K02327] [EC:2.7.7.7]
577017  DNA polymerase delta subunit 2 [KO:K02328]
586784  DNA polymerase delta subunit 3 isoform X1 [KO:K03504]
100889220  DNA polymerase delta subunit 4 [KO:K03505]
115926799  DNA polymerase delta subunit 4-like [KO:K03505]
589064  DNA polymerase epsilon catalytic subunit A isoform X1 [KO:K02324] [EC:2.7.7.7]
115921308  LOW QUALITY PROTEIN: DNA polymerase epsilon catalytic subunit A-like [KO:K02324] [EC:2.7.7.7]
592195  DNA polymerase epsilon subunit 2 [KO:K02325] [EC:2.7.7.7]
580013  DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
763808  DNA polymerase epsilon subunit 4 [KO:K03506] [EC:2.7.7.7]
765052  proliferating cell nuclear antigen [KO:K04802]
115918456  LOW QUALITY PROTEIN: proliferating cell nuclear antigen-like [KO:K04802]
593379  replication factor C subunit 1 isoform X1 [KO:K10754]
582287  replication factor C subunit 4 [KO:K10755]
585743  replication factor C subunit 2 [KO:K10755]
115918535  replication factor C subunit 4-like [KO:K10755]
576419  replication factor C subunit 3 [KO:K10756]
590824  LOW QUALITY PROTEIN: replication factor C subunit 5 [KO:K10756]
764228  replication factor C subunit 5 [KO:K10756]
752989  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
spu03020  RNA polymerase
spu04120  Ubiquitin mediated proteolysis
KO pathway
ko03420   
LinkDB

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