KEGG   PATHWAY: osa03410
Entry
osa03410                    Pathway                                
Name
Base excision repair - Oryza sativa japonica (Japanese rice) (RefSeq)
Description
Base excision repair (BER) is the predominant DNA damage repair pathway for the processing of small base lesions, derived from oxidation and alkylation damages. BER is normally defined as DNA repair initiated by lesion-specific DNA glycosylases and completed by either of the two sub-pathways: short-patch BER where only one nucleotide is replaced and long-patch BER where 2-13 nucleotides are replaced. Each sub-pathway of BER relies on the formation of protein complexes that assemble at the site of the DNA lesion and facilitate repair in a coordinated fashion. This process of complex formation appears to provide an increase in specificity and efficiency to the BER pathway, thereby facilitating the maintenance of genome integrity by preventing the accumulation of highly toxic repair intermediates.
Class
Genetic Information Processing; Replication and repair
Pathway map
osa03410  Base excision repair
osa03410

Other DBs
GO: 0006284 0006285 0006286 0006287 0006288
Organism
Oryza sativa japonica (Japanese rice) (RefSeq) [GN:osa]
Gene
4345225  formamidopyrimidine-DNA glycosylase isoform X1 [KO:K10563] [EC:3.2.2.23 4.2.99.18]
4341640  formamidopyrimidine-DNA glycosylase [KO:K10563] [EC:3.2.2.23 4.2.99.18]
4329639  N-glycosylase/DNA lyase OGG1 [KO:K03660] [EC:3.2.2.- 4.2.99.18]
4340610  putative DNA glycosylase At3g47830 [KO:K10773] [EC:4.2.99.18]
9268162  endonuclease III homolog 1, chloroplastic isoform X1 [KO:K10773] [EC:4.2.99.18]
4339642  probable DNA-3-methyladenine glycosylase 2 [KO:K01247] [EC:3.2.2.21]
4339711  probable DNA-3-methyladenine glycosylase 2 [KO:K01247] [EC:3.2.2.21]
4347081  probable GMP synthase [glutamine-hydrolyzing] [KO:K01246] [EC:3.2.2.20]
4341682  probable GMP synthase [glutamine-hydrolyzing] [KO:K01246] [EC:3.2.2.20]
4327631  uncharacterized protein LOC4327631 [KO:K01246] [EC:3.2.2.20]
9272626  DNA-3-methyladenine glycosylase [KO:K01246] [EC:3.2.2.20]
4336309  probable GMP synthase [glutamine-hydrolyzing] [KO:K01246] [EC:3.2.2.20]
4337373  uracil-DNA glycosylase, mitochondrial [KO:K03648] [EC:3.2.2.27]
4351781  adenine DNA glycosylase [KO:K03575] [EC:3.2.2.31]
9269803  adenine DNA glycosylase isoform X1 [KO:K03575] [EC:3.2.2.31]
4330890  DNA-3-methyladenine glycosylase [KO:K03652] [EC:3.2.2.21]
4346365  uncharacterized protein LOC4346365 [KO:K10801] [EC:3.2.2.-]
4327961  DNA-(apurinic or apyrimidinic site) lyase, chloroplastic isoform X1 [KO:K01142] [EC:3.1.11.2]
4327960  DNA-(apurinic or apyrimidinic site) lyase, chloroplastic [KO:K01142] [EC:3.1.11.2]
4347697  DNA-(apurinic or apyrimidinic site) lyase 2 [KO:K10772] [EC:4.2.99.18]
4344789  DNA polymerase I A, chloroplastic [KO:K02335] [EC:2.7.7.7]
4344791  DNA polymerase I B, mitochondrial isoform X1 [KO:K02335] [EC:2.7.7.7]
4337150  DNA polymerase I A, chloroplastic-like isoform X1 [KO:K02335] [EC:2.7.7.7]
4340604  DNA polymerase beta isoform X2 [KO:K03512] [EC:2.7.7.7 4.2.99.-]
4340098  DNA-repair protein XRCC1 [KO:K10803]
4331062  proliferating cell nuclear antigen [KO:K04802]
4349968  DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
4331489  DNA polymerase delta small subunit [KO:K02328]
4327080  protein IWS1 homolog A [KO:K03504]
4347604  uncharacterized protein LOC4347604 [KO:K03505]
4344737  DNA polymerase delta subunit 4 [KO:K03505]
4329458  DNA polymerase epsilon catalytic subunit A isoform X1 [KO:K02324] [EC:2.7.7.7]
4337886  DNA polymerase epsilon subunit 2 [KO:K02325] [EC:2.7.7.7]
4347894  DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
4348965  DNA ligase 1 [KO:K10747] [EC:6.5.1.1 6.5.1.6 6.5.1.7]
4324149  DNA ligase 3 [KO:K10747] [EC:6.5.1.1 6.5.1.6 6.5.1.7]
4343013  poly [ADP-ribose] polymerase 1 [KO:K24070] [EC:2.4.2.30]
4326479  poly [ADP-ribose] polymerase 2-A [KO:K10798] [EC:2.4.2.30]
4329546  poly [ADP-ribose] polymerase 3 isoform X3 [KO:K10798] [EC:2.4.2.30]
4326478  poly [ADP-ribose] polymerase 2-B isoform X1 [KO:K10798] [EC:2.4.2.30]
4339464  flap endonuclease 1-A [KO:K04799] [EC:3.1.-.-]
4334691  flap endonuclease 1-B [KO:K04799] [EC:3.1.-.-]
Reference
  Authors
Krwawicz J, Arczewska KD, Speina E, Maciejewska A, Grzesiuk E.
  Title
Bacterial DNA repair genes and their eukaryotic homologues: 1. Mutations in genes involved in base excision repair (BER) and DNA-end processors and their implication in mutagenesis and human disease.
  Journal
Acta Biochim Pol 54:413-34 (2007)
Reference
  Authors
Almeida KH, Sobol RW.
  Title
A unified view of base excision repair: lesion-dependent protein complexes regulated by post-translational modification.
  Journal
DNA Repair (Amst) 6:695-711 (2007)
DOI:10.1016/j.dnarep.2007.01.009
Reference
  Authors
Moen MN, Knaevelsrud I, Haugland GT, Grosvik K, Birkeland NK, Klungland A, Bjelland S
  Title
Uracil-DNA glycosylase of Thermoplasma acidophilum directs long-patch base excision repair, which is promoted by deoxynucleoside triphosphates and ATP/ADP, into short-patch repair.
  Journal
J Bacteriol 193:4495-508 (2011)
DOI:10.1128/JB.00233-11
Reference
  Authors
Ikeda S, Seki S.
  Title
[Base excision repair: DNA glycosylase and AP endonuclease]
  Journal
Tanpakushitsu Kakusan Koso 46:916-23 (2001)
KO pathway
ko03410   
LinkDB

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