KEGG   PATHWAY: ppp03420
Entry
ppp03420                    Pathway                                
Name
Nucleotide excision repair - Physcomitrium patens (spreading earthmoss)
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
ppp03420  Nucleotide excision repair
ppp03420

Other DBs
GO: 0006289
Organism
Physcomitrium patens (spreading earthmoss) [GN:ppp]
Gene
112276692  DNA polymerase I B, chloroplastic/mitochondrial-like isoform X1 [KO:K02335] [EC:2.7.7.7]
112291775  DNA polymerase I B, chloroplastic/mitochondrial-like isoform X1 [KO:K02335] [EC:2.7.7.7]
112284365  RING-box protein 1-like [KO:K03868] [EC:2.3.2.32]
112288983  RING-box protein 1-like isoform X1 [KO:K03868] [EC:2.3.2.32]
112295784  RING-box protein 1a-like [KO:K03868] [EC:2.3.2.32]
112280135  cullin-4-like [KO:K10609]
112281185  cullin-4-like [KO:K10609]
112289963  cullin-4-like [KO:K10609]
112286784  DNA damage-binding protein 1-like isoform X1 [KO:K10610]
112292408  DNA damage-binding protein 1a-like [KO:K10610]
112285391  protein DAMAGED DNA-BINDING 2-like [KO:K10140]
112275171  DNA repair protein RAD4-like [KO:K10838]
112274407  ubiquitin receptor RAD23c-like [KO:K10839]
112274554  ubiquitin receptor RAD23c-like [KO:K10839]
112287222  ubiquitin receptor RAD23c-like isoform X1 [KO:K10839]
112295221  ubiquitin receptor RAD23b-like [KO:K10839]
112275101  DNA excision repair protein ERCC-8-like [KO:K10570]
112292331  protein CHROMATIN REMODELING 8-like isoform X1 [KO:K10841]
112280405  UV-stimulated scaffold protein A homolog [KO:K23720]
112281735  DNA-directed RNA polymerase II subunit 1-like isoform X1 [KO:K03006] [EC:2.7.7.6]
112291314  DNA-directed RNA polymerase II subunit 1-like [KO:K03006] [EC:2.7.7.6]
112279095  DNA-directed RNA polymerase II subunit RPB2 [KO:K03010] [EC:2.7.7.6]
112281644  DNA-directed RNA polymerase II subunit rpb2-like [KO:K03010] [EC:2.7.7.6]
112292896  DNA-directed RNA polymerase II subunit RPB2-like [KO:K03010] [EC:2.7.7.6]
112282974  DNA-directed RNA polymerases II, IV and V subunit 3-like [KO:K03011]
112282825  DNA-directed RNA polymerases II, IV and V subunit 3-like [KO:K03011]
112291047  DNA-directed RNA polymerases II, IV and V subunit 3-like [KO:K03011]
112286627  DNA-directed RNA polymerase II subunit 4-like [KO:K03012]
112277363  DNA-directed RNA polymerases II and IV subunit 5A-like [KO:K03013]
112284074  DNA-directed RNA polymerases II and IV subunit 5A-like [KO:K03013]
112287358  DNA-directed RNA polymerases II and IV subunit 5A-like [KO:K03013]
112293249  DNA-directed RNA polymerases II, IV and V subunit 6A-like [KO:K03014]
112283177  DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]
112295820  DNA-directed RNA polymerase II subunit RPB7-like [KO:K03015]
112295370  DNA-directed RNA polymerases II and V subunit 8A-like [KO:K03016]
112295028  DNA-directed RNA polymerases II, IV and V subunit 9A [KO:K03017]
112284346  DNA-directed RNA polymerases I, II, and III subunit RPABC5 [KO:K03007]
112276606  DNA-directed RNA polymerases II, IV and V subunit 12 isoform X1 [KO:K03009]
112291390  DNA-directed RNA polymerases II, IV and V subunit 11-like isoform X1 [KO:K03008]
112295898  DNA-directed RNA polymerases II, IV and V subunit 11-like [KO:K03008]
112290062  cyclin-dependent kinase D-2-like isoform X1 [KO:K02202] [EC:2.7.11.22 2.7.11.23]
112290977  cyclin-dependent kinase D-1-like [KO:K02202] [EC:2.7.11.22 2.7.11.23]
112294932  cyclin-dependent kinase D-2-like [KO:K02202] [EC:2.7.11.22 2.7.11.23]
112285242  uncharacterized protein LOC112285242 [KO:K10842]
112278265  cyclin-H1-1-like isoform X1 [KO:K06634]
112282446  cyclin-H1-1-like [KO:K06634]
112283862  general transcription and DNA repair factor IIH helicase subunit XPB1-like [KO:K10843] [EC:5.6.2.4]
112288023  general transcription and DNA repair factor IIH helicase subunit XPD-like [KO:K10844] [EC:5.6.2.3]
112292450  general transcription and DNA repair factor IIH subunit TFB5-like [KO:K10845]
112277742  general transcription and DNA repair factor IIH subunit TFB1-1-like [KO:K03141]
112276815  general transcription factor IIH subunit 2-like isoform X1 [KO:K03142]
112273411  general transcription and DNA repair factor IIH subunit TFB4-like isoform X1 [KO:K03143]
112279971  general transcription and DNA repair factor IIH subunit TFB2-like [KO:K03144]
112288260  DNA repair protein UVH3-like [KO:K10846]
112276003  replication protein A 70 kDa DNA-binding subunit A-like [KO:K07466]
112273581  replication protein A 70 kDa DNA-binding subunit A-like [KO:K07466]
112289227  replication protein A 70 kDa DNA-binding subunit D-like [KO:K07466]
112277737  replication protein A 32 kDa subunit A-like [KO:K10739]
112278338  replication protein A 14 kDa subunit-like isoform X1 [KO:K10740]
112295634  DNA repair endonuclease UVH1-like [KO:K10848] [EC:3.1.-.-]
112283880  DNA excision repair protein ERCC-1-like [KO:K10849]
112283483  DNA polymerase delta catalytic subunit-like isoform X1 [KO:K02327] [EC:2.7.7.7]
112278234  DNA polymerase delta catalytic subunit-like isoform X1 [KO:K02327] [EC:2.7.7.7]
112294650  DNA polymerase delta catalytic subunit-like [KO:K02327] [EC:2.7.7.7]
112279428  DNA polymerase delta small subunit-like isoform X1 [KO:K02328]
112278383  uncharacterized protein LOC112278383 [KO:K03504]
112280908  DNA polymerase delta subunit 4-like [KO:K03505]
112290298  DNA polymerase epsilon catalytic subunit A-like [KO:K02324] [EC:2.7.7.7]
112293756  DNA polymerase epsilon subunit B-like [KO:K02325] [EC:2.7.7.7]
112277720  DNA polymerase epsilon subunit 3-like [KO:K02326] [EC:2.7.7.7]
112290025  proliferating cell nuclear antigen [KO:K04802]
112275181  replication factor C subunit 1-like isoform X1 [KO:K10754]
112279378  replication factor C subunit 2-like [KO:K10755]
112293544  replication factor C subunit 4-like [KO:K10755]
112277445  replication factor C subunit 3-like [KO:K10756]
112290299  replication factor C subunit 3-like [KO:K10756]
112290811  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
ppp03020  RNA polymerase
ppp04120  Ubiquitin mediated proteolysis
KO pathway
ko03420   
LinkDB

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