KEGG   PATHWAY: pmum03420
Entry
pmum03420                   Pathway                                
Name
Nucleotide excision repair - Prunus mume (Japanese apricot)
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
pmum03420  Nucleotide excision repair
pmum03420

Other DBs
GO: 0006289
Organism
Prunus mume (Japanese apricot) [GN:pmum]
Gene
103326393  DNA polymerase I A, chloroplastic/mitochondrial [KO:K02335] [EC:2.7.7.7]
103331948  RING-box protein 1a [KO:K03868] [EC:2.3.2.32]
103331952  RING-box protein 1a-like [KO:K03868] [EC:2.3.2.32]
103325198  cullin-4 [KO:K10609]
103325185  DNA damage-binding protein 1 [KO:K10610]
103320795  protein DAMAGED DNA-BINDING 2 [KO:K10140]
103328586  DNA repair protein RAD4 [KO:K10838]
103328242  ubiquitin receptor RAD23b-like [KO:K10839]
103341470  ubiquitin receptor RAD23d-like [KO:K10839]
103341471  ubiquitin receptor RAD23c-like [KO:K10839]
103329678  ubiquitin receptor RAD23d [KO:K10839]
103320423  DNA excision repair protein ERCC-8 [KO:K10570]
103334457  protein CHROMATIN REMODELING 8 [KO:K10841]
103332200  UV-stimulated scaffold protein A homolog [KO:K23720]
103340377  DNA-directed RNA polymerase II subunit 1 [KO:K03006] [EC:2.7.7.6]
103324762  DNA-directed RNA polymerase II subunit RPB2 [KO:K03010] [EC:2.7.7.6]
103335337  LOW QUALITY PROTEIN: DNA-directed RNA polymerases II, IV and V subunit 3-like [KO:K03011]
103324381  DNA-directed RNA polymerases IV and V subunit 4 [KO:K03012]
103343717  DNA-directed RNA polymerase II subunit 4 [KO:K03012]
103338910  DNA-directed RNA polymerase II subunit 4-like [KO:K03012]
103343533  DNA-directed RNA polymerase V subunit 5C-like [KO:K03013]
103339307  DNA-directed RNA polymerase V subunit 5A [KO:K03013]
103331533  DNA-directed RNA polymerases II and IV subunit 5A-like [KO:K03013]
103331534  DNA-directed RNA polymerases II and IV subunit 5A-like [KO:K03013]
103328403  DNA-directed RNA polymerases II, IV and V subunit 6A-like [KO:K03014]
103342314  DNA-directed RNA polymerases II, IV and V subunit 6A-like [KO:K03014]
103326691  DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]
103326838  DNA-directed RNA polymerases II and V subunit 8A-like [KO:K03016]
103343840  DNA-directed RNA polymerases II and V subunit 8A-like [KO:K03016]
103331623  DNA-directed RNA polymerases II and V subunit 8A-like [KO:K03016]
103323131  DNA-directed RNA polymerases II, IV and V subunit 9A [KO:K03017]
103321790  DNA-directed RNA polymerases I, II, and III subunit RPABC5 [KO:K03007]
103326683  DNA-directed RNA polymerases II, IV and V subunit 12 [KO:K03009]
103338857  DNA-directed RNA polymerases II, IV and V subunit 12-like [KO:K03009]
103335510  DNA-directed RNA polymerases II, IV and V subunit 11 [KO:K03008]
103338737  LOW QUALITY PROTEIN: cyclin-dependent kinase D-1 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
103341305  uncharacterized protein LOC103341305 [KO:K10842]
103334781  cyclin-H1-1-like [KO:K06634]
103344576  cyclin-H1-1 isoform X2 [KO:K06634]
103337550  DNA repair helicase XPB1 [KO:K10843] [EC:5.6.2.4]
103334113  DNA repair helicase XPD [KO:K10844] [EC:5.6.2.3]
103337279  RNA polymerase II transcription factor B subunit 5 [KO:K10845]
103318967  probable RNA polymerase II transcription factor B subunit 1-1 isoform X1 [KO:K03141]
103324920  general transcription factor IIH subunit 2 [KO:K03142]
103319842  RNA polymerase II transcription factor B subunit 4 [KO:K03143]
103324745  RNA polymerase II transcription factor B subunit 2 [KO:K03144]
103329892  DNA repair protein UVH3 isoform X1 [KO:K10846]
103336936  replication protein A 70 kDa DNA-binding subunit A [KO:K07466]
103340559  replication protein A 70 kDa DNA-binding subunit A [KO:K07466]
103338573  replication protein A 70 kDa DNA-binding subunit B [KO:K07466]
103320082  replication protein A 32 kDa subunit A [KO:K10739]
103323552  replication protein A 32 kDa subunit B-like isoform X1 [KO:K10739]
103341788  replication protein A 14 kDa subunit B [KO:K10740]
103342609  DNA repair endonuclease UVH1 isoform X1 [KO:K10848] [EC:3.1.-.-]
103344672  DNA excision repair protein ERCC-1 isoform X1 [KO:K10849]
103326936  DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
103339416  DNA polymerase delta small subunit isoform X1 [KO:K02328]
103325968  DNA polymerase delta subunit 3 [KO:K03504]
103333462  uncharacterized protein LOC103333462 [KO:K03505]
103327021  DNA polymerase epsilon catalytic subunit A-like [KO:K02324] [EC:2.7.7.7]
103336060  DNA polymerase epsilon subunit 2 isoform X1 [KO:K02325] [EC:2.7.7.7]
103328056  DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
103325121  DNA polymerase epsilon subunit C isoform X1 [KO:K03506] [EC:2.7.7.7]
103320306  proliferating cell nuclear antigen [KO:K04802]
103331921  proliferating cell nuclear antigen-like [KO:K04802]
103335955  replication factor C subunit 1 isoform X1 [KO:K10754]
103319786  replication factor C subunit 2 [KO:K10755]
103336229  replication factor C subunit 2 [KO:K10755]
103319797  replication factor C subunit 3 isoform X1 [KO:K10756]
103340277  uncharacterized protein LOC103340277 [KO:K10756]
103336005  replication factor C subunit 3-like isoform X1 [KO:K10756]
103331424  replication factor C subunit 3-like [KO:K10756]
103342315  replication factor C subunit 3 [KO:K10756]
103326162  DNA ligase 1-like [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
pmum03020  RNA polymerase
pmum04120  Ubiquitin mediated proteolysis
KO pathway
ko03420   
LinkDB

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