KEGG PATHWAY: obr03420

KEGG

PATHWAY: obr03420

Entry

obr03420                    Pathway

Name

Nucleotide excision repair - Oryza brachyantha (malo sina)

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

Nucleotide excision repair

Other DBs

GO:

Organism

Oryza brachyantha (malo sina) [GN:obr]

Gene

DNA polymerase I A, chloroplastic [KO:K02335] [EC:2.7.7.7]

DNA polymerase I A, chloroplastic [KO:K02335] [EC:2.7.7.7]

RING-box protein 1A-like [KO:K03868] [EC:2.3.2.32]

RING-box protein 1 [KO:K03868] [EC:2.3.2.32]

cullin-4 [KO:K10609]

DNA damage-binding protein 1 [KO:K10610]

DNA damage-binding protein 2 [KO:K10140]

DNA repair protein RAD4 isoform X1 [KO:K10838]

ubiquitin receptor RAD23b-like isoform X1 [KO:K10839]

ubiquitin receptor RAD23b isoform X1 [KO:K10839]

ubiquitin receptor RAD23d-like [KO:K10839]

WD repeat-containing protein ATCSA-1-like [KO:K10570]

DNA excision repair protein CSB isoform X2 [KO:K10841]

UV-stimulated scaffold protein A homolog [KO:K23720]

DNA-directed RNA polymerase II subunit RPB1 [KO:K03006] [EC:2.7.7.6]

DNA-directed RNA polymerase II subunit RPB2 [KO:K03010] [EC:2.7.7.6]

DNA-directed RNA polymerases II, IV and V subunit 3-like [KO:K03011]

DNA-directed RNA polymerases IV and V subunit 4 isoform X1 [KO:K03012]

DNA-directed RNA polymerase II subunit 4 [KO:K03012]

DNA-directed RNA polymerases II and IV subunit 5A [KO:K03013]

DNA-directed RNA polymerases II and IV subunit 5A-like [KO:K03013]

DNA-directed RNA polymerase V subunit 5A [KO:K03013]

DNA-directed RNA polymerase V subunit 5A [KO:K03013]

DNA-directed RNA polymerases II, IV and V subunit 6A-like [KO:K03014]

DNA-directed RNA polymerases II, IV and V subunit 6A-like [KO:K03014]

DNA-directed RNA polymerase II subunit RPB7 [KO:K03015]

DNA-directed RNA polymerases II, IV and V subunit 8B-like [KO:K03016]

DNA-directed RNA polymerases II, IV and V subunit 8B-like [KO:K03016]

DNA-directed RNA polymerases II, IV and V subunit 9A-like [KO:K03017]

DNA-directed RNA polymerases II, IV and V subunit 9A-like [KO:K03017]

DNA-directed RNA polymerases II, IV and V subunit 9B [KO:K03017]

DNA-directed RNA polymerase subunit 10-like protein [KO:K03007]

DNA-directed RNA polymerases II, IV and V subunit 11-like [KO:K03008]

DNA-directed RNA polymerases II, IV and V subunit 11-like [KO:K03008]

cyclin-dependent kinase D-1 [KO:K02202] [EC:2.7.11.22 2.7.11.23]

uncharacterized protein LOC102717716 [KO:K10842]

uncharacterized protein LOC102713407 isoform X2 [KO:K10842]

cyclin-H1-1 isoform X1 [KO:K06634]

general transcription and DNA repair factor IIH helicase subunit XPB1-like [KO:K10843] [EC:5.6.2.4]

general transcription and DNA repair factor IIH helicase subunit XPD [KO:K10844] [EC:5.6.2.3]

general transcription and DNA repair factor IIH subunit TFB1-1-like isoform X1 [KO:K03141]

general transcription factor IIH subunit 2 [KO:K03142]

general transcription and DNA repair factor IIH subunit TFB4 [KO:K03143]

general transcription and DNA repair factor IIH subunit TFB2 isoform X1 [KO:K03144]

DNA repair protein UVH3 isoform X1 [KO:K10846]

replication protein A 70 kDa DNA-binding subunit A [KO:K07466]

replication protein A 70 kDa DNA-binding subunit C-like [KO:K07466]

replication protein A 70 kDa DNA-binding subunit B [KO:K07466]

replication protein A 32 kDa subunit B-like [KO:K10739]

replication protein A 32 kDa subunit A [KO:K10739]

replication protein A 14 kDa subunit [KO:K10740]

DNA repair endonuclease UVH1 [KO:K10848] [EC:3.1.-.-]

DNA excision repair protein ERCC-1 [KO:K10849]

DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]

DNA polymerase delta small subunit isoform X2 [KO:K02328]

uncharacterized protein LOC102704757 isoform X1 [KO:K03504]

uncharacterized protein LOC102719320 [KO:K03505]

DNA polymerase delta subunit 4-like [KO:K03505]

uncharacterized protein LOC102712469 [KO:K03505]

DNA polymerase epsilon catalytic subunit A [KO:K02324] [EC:2.7.7.7]

DNA polymerase epsilon subunit B [KO:K02325] [EC:2.7.7.7]

DNA polymerase epsilon subunit 3-like [KO:K02326] [EC:2.7.7.7]

proliferating cell nuclear antigen [KO:K04802]

replication factor C subunit 1 isoform X1 [KO:K10754]

replication factor C subunit 4 [KO:K10755]

replication factor C subunit 2 isoform X1 [KO:K10755]

replication factor C subunit 3 [KO:K10756]

replication factor C subunit 5 [KO:K10756]

replication factor C subunit 3-like isoform X3 [KO:K10756]

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

RNA polymerase

Ubiquitin mediated proteolysis

KO pathway

LinkDB

DBGET integrated database retrieval system