KEGG   PATHWAY: egr03420
Entry
egr03420                    Pathway                                
Name
Nucleotide excision repair - Eucalyptus grandis (rose gum)
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
egr03420  Nucleotide excision repair
egr03420

Other DBs
GO: 0006289
Organism
Eucalyptus grandis (rose gum) [GN:egr]
Gene
104448335  DNA polymerase I A, chloroplastic/mitochondrial [KO:K02335] [EC:2.7.7.7]
104437993  RING-box protein 1a [KO:K03868] [EC:2.3.2.32]
104436408  RING-box protein 1a [KO:K03868] [EC:2.3.2.32]
104439002  RING-box protein 1a-like [KO:K03868] [EC:2.3.2.32]
104444840  cullin-4 [KO:K10609]
104417802  LOW QUALITY PROTEIN: DNA damage-binding protein 1 [KO:K10610]
104415814  DNA damage-binding protein 1 [KO:K10610]
104432651  LOW QUALITY PROTEIN: protein DAMAGED DNA-BINDING 2 [KO:K10140]
104449714  LOW QUALITY PROTEIN: DNA repair protein RAD4 [KO:K10838]
104423249  ubiquitin receptor RAD23b isoform X1 [KO:K10839]
104447788  WD repeat-containing protein ATCSA-1 isoform X1 [KO:K10570]
104426565  LOW QUALITY PROTEIN: protein CHROMATIN REMODELING 8 [KO:K10841]
104441370  UV-stimulated scaffold protein A homolog [KO:K23720]
104448757  LOW QUALITY PROTEIN: DNA-directed RNA polymerase II subunit RPB1 [KO:K03006] [EC:2.7.7.6]
104445284  LOW QUALITY PROTEIN: DNA-directed RNA polymerase II subunit RPB2 [KO:K03010] [EC:2.7.7.6]
120293337  LOW QUALITY PROTEIN: DNA-directed RNA polymerase II subunit RPB2-like [KO:K03010] [EC:2.7.7.6]
104453152  LOW QUALITY PROTEIN: DNA-directed RNA polymerases II, IV and V subunit 3 [KO:K03011]
104421263  uncharacterized protein LOC104421263 [KO:K03012]
104452609  uncharacterized protein LOC104452609 [KO:K03012]
104418196  DNA-directed RNA polymerase II subunit 4 [KO:K03012]
120292685  DNA-directed RNA polymerases IV and V subunit 4-like isoform X1 [KO:K03012]
104436751  DNA-directed RNA polymerases II and IV subunit 5A [KO:K03013]
104437304  DNA-directed RNA polymerases II and IV subunit 5A [KO:K03013]
104425366  DNA-directed RNA polymerase V subunit 5A [KO:K03013]
104440336  LOW QUALITY PROTEIN: DNA-directed RNA polymerases II and IV subunit 5A-like [KO:K03013]
120295350  DNA-directed RNA polymerase V subunit 5A-like [KO:K03013]
104456272  DNA-directed RNA polymerases II, IV and V subunit 6A [KO:K03014]
104423845  DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]
104445264  DNA-directed RNA polymerases II, IV and V subunit 8B [KO:K03016]
104414271  DNA-directed RNA polymerases II, IV and V subunit 9A [KO:K03017]
104439661  DNA-directed RNA polymerase subunit 10-like protein [KO:K03007]
104425878  DNA-directed RNA polymerases II, IV and V subunit 12 [KO:K03009]
104454646  DNA-directed RNA polymerases II, IV and V subunit 11 [KO:K03008]
104425813  cyclin-dependent kinase D-3 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
104429702  uncharacterized protein LOC104429702 [KO:K10842]
104432304  cyclin-H1-1 isoform X1 [KO:K06634]
104414823  uncharacterized protein LOC104414823 isoform X3 [KO:K06634]
120285977  uncharacterized protein LOC120285977 isoform X1 [KO:K06634]
104443830  general transcription and DNA repair factor IIH helicase subunit XPB1 [KO:K10843] [EC:5.6.2.4]
104426669  general transcription and DNA repair factor IIH helicase subunit XPD [KO:K10844] [EC:5.6.2.3]
104443736  general transcription and DNA repair factor IIH subunit TFB5 [KO:K10845]
104422047  general transcription and DNA repair factor IIH subunit TFB1-1 [KO:K03141]
104421682  general transcription factor IIH subunit 2 [KO:K03142]
104453007  general transcription and DNA repair factor IIH subunit TFB4 [KO:K03143]
104445290  general transcription and DNA repair factor IIH subunit TFB2 isoform X1 [KO:K03144]
104419285  DNA repair protein UVH3 isoform X1 [KO:K10846]
104442349  replication protein A 70 kDa DNA-binding subunit A [KO:K07466]
104438150  replication protein A 70 kDa DNA-binding subunit A [KO:K07466]
104420611  replication protein A 70 kDa DNA-binding subunit B [KO:K07466]
104437239  replication protein A 32 kDa subunit A [KO:K10739]
104437402  replication protein A 32 kDa subunit B [KO:K10739]
104425632  replication protein A 14 kDa subunit B [KO:K10740]
104443617  LOW QUALITY PROTEIN: DNA repair endonuclease UVH1 [KO:K10848] [EC:3.1.-.-]
104415536  LOW QUALITY PROTEIN: DNA excision repair protein ERCC-1 [KO:K10849]
104418096  DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
104425494  DNA polymerase delta small subunit isoform X1 [KO:K02328]
104448554  uncharacterized protein LOC104448554 [KO:K03504]
104451548  uncharacterized protein LOC104451548 [KO:K03504]
104418231  LOW QUALITY PROTEIN: DNA polymerase delta subunit 4 [KO:K03505]
104434005  DNA polymerase epsilon catalytic subunit A [KO:K02324] [EC:2.7.7.7]
104456397  LOW QUALITY PROTEIN: DNA polymerase epsilon subunit B [KO:K02325] [EC:2.7.7.7]
104421306  DNA polymerase epsilon subunit D [KO:K02326] [EC:2.7.7.7]
104422418  proliferating cell nuclear antigen [KO:K04802]
104421373  replication factor C subunit 1 [KO:K10754]
104450918  replication factor C subunit 2 [KO:K10755]
104441792  replication factor C subunit 2 [KO:K10755]
104443285  replication factor C subunit 3 isoform X2 [KO:K10756]
104417305  uncharacterized protein LOC104417305 [KO:K10756]
104450925  replication factor C subunit 3 [KO:K10756]
104421226  DNA ligase 1 [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
egr03020  RNA polymerase
egr04120  Ubiquitin mediated proteolysis
KO pathway
ko03420   

  All links  
Genome (1)   
   KEGG GENOME (1)   
Gene (70)   
   KEGG GENES (70)   
All databases (71)   

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