KEGG   PATHWAY: sasa03420
Entry
sasa03420                   Pathway                                
Name
Nucleotide excision repair - Salmo salar (Atlantic salmon)
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
sasa03420  Nucleotide excision repair
sasa03420

Other DBs
GO: 0006289
Organism
Salmo salar (Atlantic salmon) [GN:sasa]
Gene
106601243  rbx1; ring-box 1 [KO:K03868] [EC:2.3.2.32]
100136424  rbx1; ring-box 1 [KO:K03868] [EC:2.3.2.32]
106604435  cullin-4B-like [KO:K10609]
106574804  cullin-4A-like [KO:K10609]
106575909  cullin-4A-like [KO:K10609]
100194954  cul4b; cullin 4B [KO:K10609]
106561926  DDB1; DNA damage-binding protein 1-like [KO:K10610]
100306841  ddb1; DNA damage-binding protein 1 [KO:K10610]
106584815  ddb2; damage specific DNA binding protein 2 [KO:K10140]
106572264  xpc; XPC complex subunit, DNA damage recognition and repair factor [KO:K10838]
106601193  RD23A; UV excision repair protein RAD23 homolog A-like [KO:K10839]
106568459  UV excision repair protein RAD23 homolog B-like [KO:K10839]
106573817  UV excision repair protein RAD23 homolog B-like [KO:K10839]
106613684  UV excision repair protein RAD23 homolog B-like [KO:K10839]
100196790  rd23a; UV excision repair protein RAD23 homolog A [KO:K10839]
106604249  caltractin-like [KO:K10840]
106612201  caltractin-like [KO:K10840]
106580591  ercc8; ERCC excision repair 8, CSA ubiquitin ligase complex subunit [KO:K10570]
106576868  ercc6; ERCC excision repair 6, chromatin remodeling factor [KO:K10841]
106612004  uvssa; UV stimulated scaffold protein A [KO:K23720]
106577550  DNA-directed RNA polymerase II subunit RPB1 [KO:K03006] [EC:2.7.7.6]
106608676  DNA-directed RNA polymerase II subunit RPB1-like [KO:K03006] [EC:2.7.7.6]
106604641  DNA-directed RNA polymerase II subunit RPB2 [KO:K03010] [EC:2.7.7.6]
100380395  rpb2; DNA-directed RNA polymerase II subunit RPB2 [KO:K03010] [EC:2.7.7.6]
100196851  polr2c; polymerase (RNA) II (DNA directed) polypeptide C [KO:K03011]
106612892  DNA-directed RNA polymerase II subunit RPB4 [KO:K03012]
100286604  rpb4; DNA-directed RNA polymerase II subunit RPB4 [KO:K03012]
106569462  RPAB1; DNA-directed RNA polymerases I, II, and III subunit RPABC1 [KO:K03013]
106573578  RPAB1; DNA-directed RNA polymerases I, II, and III subunit RPABC1-like [KO:K03013]
106601222  RPAB2; DNA-directed RNA polymerases I, II, and III subunit RPABC2 [KO:K03014]
106607142  RPAB2; DNA-directed RNA polymerases I, II, and III subunit RPABC2-like [KO:K03014]
106604162  RPB7; DNA-directed RNA polymerase II subunit RPB7-like [KO:K03015]
106612273  RPB7; DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]
100286712  polr2h; RNA polymerase II subunit H [KO:K03016]
106562324  RPAB5; DNA-directed RNA polymerases I, II, and III subunit RPABC5 [KO:K03007]
106587512  RPAB5; DNA-directed RNA polymerases I, II, and III subunit RPABC5 [KO:K03007]
106570789  RPAB4; DNA-directed RNA polymerases I, II, and III subunit RPABC4-like [KO:K03009]
106589136  RPAB4; DNA-directed RNA polymerases I, II, and III subunit RPABC4 [KO:K03009]
106603417  DNA-directed RNA polymerase II subunit RPB11-a-like [KO:K03008]
106567670  RPB11; DNA-directed RNA polymerase II subunit RPB11-a [KO:K03008]
100195472  polr2m; RNA polymerase II subunit M [KO:K21987]
106585021  cdk7; cyclin dependent kinase 7 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
106610973  mnat1; MNAT1, CDK activating kinase assembly factor [KO:K10842]
100194548  ccnh; cyclin H [KO:K06634]
106574914  ercc3; ERCC excision repair 3, TFIIH core complex helicase subunit [KO:K10843] [EC:5.6.2.4]
100194910  ercc2; ERCC excision repair 2, TFIIH core complex helicase subunit [KO:K10844] [EC:5.6.2.3]
100196269  gtf2h5; general transcription factor IIH subunit 5 [KO:K10845]
106561818  gtf2h1; general transcription factor IIH subunit 1 [KO:K03141]
106584761  general transcription factor IIH subunit 1-like [KO:K03141]
100196672  general transcription factor IIE, polypeptide 2-2 [KO:K03142]
106585289  gtf2h3; general transcription factor IIH subunit 3 [KO:K03143]
106570683  gtf2h4; general transcription factor IIH subunit 4 [KO:K03144]
106602590  xpa; XPA, DNA damage recognition and repair factor [KO:K10847]
100196840  xpa; xeroderma pigmentosum, complementation group A [KO:K10847]
106612933  replication protein A 70 kDa DNA-binding subunit-like [KO:K07466]
100196763  rfa1; Replication protein A 70 kDa DNA-binding subunit [KO:K07466]
106583294  rpa2; replication protein A2 [KO:K10739]
106605109  replication protein A 32 kDa subunit-like [KO:K10739]
106588659  replication protein A 32 kDa subunit-like [KO:K10739]
106570310  RFA3; replication protein A 14 kDa subunit-like [KO:K10740]
106588685  rpa3; replication protein A3 [KO:K10740]
106589551  ercc4; ERCC excision repair 4, endonuclease catalytic subunit [KO:K10848] [EC:3.1.-.-]
100286713  ercc1; ERCC excision repair 1, endonuclease non-catalytic subunit [KO:K10849]
100380397  dpod1; DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
106601920  DNA polymerase delta catalytic subunit-like [KO:K02327] [EC:2.7.7.7]
106606382  DNA polymerase delta catalytic subunit-like [KO:K02327] [EC:2.7.7.7]
100217344  pold2; DNA polymerase delta 2, accessory subunit [KO:K02328]
100194857  pold3; DNA polymerase delta 3, accessory subunit [KO:K03504]
100286685  pold4; DNA polymerase delta 4, accessory subunit [KO:K03505]
106580112  pole; DNA polymerase epsilon, catalytic subunit [KO:K02324] [EC:2.7.7.7]
106610881  pole2; DNA polymerase epsilon 2, accessory subunit [KO:K02325] [EC:2.7.7.7]
100286640  pole3; DNA polymerase epsilon 3, accessory subunit [KO:K02326] [EC:2.7.7.7]
106613703  DPOE4; DNA polymerase epsilon subunit 4-like [KO:K03506] [EC:2.7.7.7]
100195891  dpoe4; DNA polymerase epsilon subunit 4 [KO:K03506] [EC:2.7.7.7]
106580445  PCNA; proliferating cell nuclear antigen-like [KO:K04802]
106585071  PCNA; proliferating cell nuclear antigen [KO:K04802]
106594440  rfc1; replication factor C subunit 1 [KO:K10754]
100196285  rfc2; replication factor C (activator 1) 2 [KO:K10755]
100195740  rfc4; replication factor C subunit 4 [KO:K10755]
106604018  rfc3; replication factor C subunit 3 [KO:K10756]
100196545  rfc5; replication factor C (activator 1) 5 [KO:K10756]
106585245  rfc5; replication factor C subunit 5 [KO:K10756]
106569579  lig1; DNA ligase 1 [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
sasa03020  RNA polymerase
sasa04120  Ubiquitin mediated proteolysis
KO pathway
ko03420   
LinkDB

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