KEGG   PATHWAY: obr03410
Entry
obr03410                    Pathway                                
Name
Base excision repair - Oryza brachyantha (malo sina)
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
obr03410  Base excision repair
obr03410

Other DBs
GO: 0006284 0006285 0006286 0006287 0006288
Organism
Oryza brachyantha (malo sina) [GN:obr]
Gene
102719560  N-glycosylase/DNA lyase OGG1 [KO:K03660] [EC:3.2.2.- 4.2.99.18]
102705439  putative DNA glycosylase At3g47830 [KO:K10773] [EC:3.2.2.- 4.2.99.18]
102704748  endonuclease III homolog 1, chloroplastic-like isoform X2 [KO:K10773] [EC:3.2.2.- 4.2.99.18]
102701446  uracil-DNA glycosylase, mitochondrial [KO:K03648] [EC:3.2.2.27]
102709232  adenine DNA glycosylase [KO:K03575] [EC:3.2.2.31]
102718525  LOW QUALITY PROTEIN: DNA-3-methyladenine glycosylase [KO:K03652] [EC:3.2.2.21]
102713209  uncharacterized protein LOC102713209 [KO:K10801] [EC:3.2.2.-]
102705386  polynucleotide 3'-phosphatase ZDP [KO:K08073] [EC:3.1.3.32 2.7.1.78]
102709945  tyrosyl-DNA phosphodiesterase 1 isoform X1 [KO:K10862] [EC:3.1.4.-]
102704895  DNA polymerase lambda [KO:K03512] [EC:2.7.7.7 4.2.99.-]
102713752  poly [ADP-ribose] polymerase 1 isoform X1 [KO:K24070] [EC:2.4.2.30]
102707286  protein ADP-ribosyltransferase PARP3 [KO:K10798] [EC:2.4.2.30]
102714229  poly [ADP-ribose] polymerase 2-A isoform X1 [KO:K10798] [EC:2.4.2.30]
102709448  poly(ADP-ribose) glycohydrolase 1-like [KO:K07759] [EC:3.2.1.143]
102709720  transcription factor bHLH140 [KO:K10863] [EC:3.6.1.70 3.6.1.71 3.6.1.72]
102701551  DNA-repair protein XRCC1 [KO:K10803]
102702420  DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
102703468  DNA polymerase delta small subunit isoform X2 [KO:K02328]
102704757  uncharacterized protein LOC102704757 isoform X1 [KO:K03504]
102719320  uncharacterized protein LOC102719320 [KO:K03505]
102701013  DNA polymerase delta subunit 4-like [KO:K03505]
102712469  uncharacterized protein LOC102712469 [KO:K03505]
102722465  DNA polymerase epsilon catalytic subunit A [KO:K02324] [EC:2.7.7.7]
102707701  DNA polymerase epsilon subunit B [KO:K02325] [EC:2.7.7.7]
102717740  DNA polymerase epsilon subunit 3-like [KO:K02326] [EC:2.7.7.7]
102706724  proliferating cell nuclear antigen [KO:K04802]
102722999  replication factor C subunit 1 isoform X1 [KO:K10754]
102703206  replication factor C subunit 4 [KO:K10755]
102719067  replication factor C subunit 2 isoform X1 [KO:K10755]
102706357  replication factor C subunit 3 [KO:K10756]
102716586  replication factor C subunit 5 [KO:K10756]
102704556  replication factor C subunit 3-like isoform X3 [KO:K10756]
102721539  flap endonuclease 1-B isoform X1 [KO:K04799] [EC:3.1.-.-]
102714742  flap endonuclease 1-A [KO:K04799] [EC:3.1.-.-]
102700561  DNA ligase 1 [KO:K10747] [EC:6.5.1.1 6.5.1.6 6.5.1.7]
102709936  formamidopyrimidine-DNA glycosylase-like [KO:K10563] [EC:3.2.2.23 4.2.99.18]
102701823  DNA-3-methyladenine glycosylase 1-like [KO:K01247] [EC:3.2.2.21]
102713085  DNA-3-methyladenine glycosylase 1-like [KO:K01247] [EC:3.2.2.21]
102709508  uncharacterized protein LOC102709508 [KO:K01246] [EC:3.2.2.20]
102719138  DNA-3-methyladenine glycosylase isoform X2 [KO:K01246] [EC:3.2.2.20]
102708088  uncharacterized protein LOC102708088 [KO:K01246] [EC:3.2.2.20]
102715488  uncharacterized protein LOC102715488 [KO:K01246] [EC:3.2.2.20]
102715168  DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic-like [KO:K01142] [EC:3.1.11.2]
102711203  LOW QUALITY PROTEIN: DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic-like [KO:K01142] [EC:3.1.11.2]
102704056  DNA polymerase I A, chloroplastic [KO:K02335] [EC:2.7.7.7]
102705651  DNA polymerase I A, chloroplastic [KO:K02335] [EC:2.7.7.7]
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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