KEGG   PATHWAY: aly03410
Entry
aly03410                    Pathway                                
Name
Base excision repair - Arabidopsis lyrata (lyrate rockcress)
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
aly03410  Base excision repair
aly03410

Other DBs
GO: 0006284 0006285 0006286 0006287 0006288
Organism
Arabidopsis lyrata (lyrate rockcress) [GN:aly]
Gene
9329243  N-glycosylase/DNA lyase OGG1 [KO:K03660] [EC:3.2.2.- 4.2.99.18]
9317244  endonuclease III homolog 1, chloroplastic isoform X1 [KO:K10773] [EC:3.2.2.- 4.2.99.18]
9328375  endonuclease III homolog 2, chloroplastic isoform X1 [KO:K10773] [EC:3.2.2.- 4.2.99.18]
9311936  putative DNA glycosylase At3g47830 [KO:K10773] [EC:3.2.2.- 4.2.99.18]
9309705  uncharacterized protein LOC9309705 isoform X1 [KO:K10569] [EC:3.2.2.- 4.2.99.18]
9319210  uracil-DNA glycosylase, mitochondrial [KO:K03648] [EC:3.2.2.27]
9299296  adenine DNA glycosylase [KO:K03575] [EC:3.2.2.31]
9320945  DNA-3-methyladenine glycosylase [KO:K03652] [EC:3.2.2.21]
9320740  methyl-CpG-binding domain protein 4-like protein [KO:K10801] [EC:3.2.2.-]
9318966  polynucleotide 3'-phosphatase ZDP isoform X1 [KO:K08073] [EC:3.1.3.32 2.7.1.78]
9309779  tyrosyl-DNA phosphodiesterase 1 [KO:K10862] [EC:3.1.4.-]
9328770  LOW QUALITY PROTEIN: DNA polymerase lambda [KO:K03512] [EC:2.7.7.7 4.2.99.-]
9325878  DNA polymerase lambda [KO:K03512] [EC:2.7.7.7 4.2.99.-]
9315387  poly [ADP-ribose] polymerase 1 [KO:K24070] [EC:2.4.2.30]
9310139  poly [ADP-ribose] polymerase 3 isoform X1 [KO:K10798] [EC:2.4.2.30]
9310985  poly [ADP-ribose] polymerase 2 isoform X1 [KO:K10798] [EC:2.4.2.30]
9315414  probable poly(ADP-ribose) glycohydrolase 2 isoform X2 [KO:K07759] [EC:3.2.1.143]
9317269  poly(ADP-ribose) glycohydrolase 1 [KO:K07759] [EC:3.2.1.143]
9307002  transcription factor bHLH140 isoform X1 [KO:K10863] [EC:3.6.1.70 3.6.1.71 3.6.1.72]
9325357  DNA-repair protein XRCC1 isoform X1 [KO:K10803]
9302657  DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
9317888  DNA polymerase delta small subunit isoform X1 [KO:K02328]
9325268  DNA polymerase delta subunit 3 isoform X1 [KO:K03504]
9325836  DNA polymerase delta subunit 4 [KO:K03505]
9316946  LOW QUALITY PROTEIN: DNA polymerase epsilon catalytic subunit B [KO:K02324] [EC:2.7.7.7]
9315111  DNA polymerase epsilon catalytic subunit B isoform X1 [KO:K02324] [EC:2.7.7.7]
9328513  DNA polymerase epsilon catalytic subunit A [KO:K02324] [EC:2.7.7.7]
9308057  DNA polymerase epsilon subunit B [KO:K02325] [EC:2.7.7.7]
9315158  DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
9315286  proliferating cell nuclear antigen 2 [KO:K04802]
110229071  proliferating cell nuclear antigen 2-like [KO:K04802]
9328459  proliferating cellular nuclear antigen 1 [KO:K04802]
9308053  replication factor C subunit 1 [KO:K10754]
9326515  replication factor C subunit 4 [KO:K10755]
9324037  replication factor C subunit 2 [KO:K10755]
9323750  replication factor C subunit 5 [KO:K10756]
9308329  replication factor C subunit 3 [KO:K10756]
9308296  flap endonuclease 1 isoform X1 [KO:K04799] [EC:3.1.-.-]
9328500  DNA ligase 1 [KO:K10747] [EC:6.5.1.1 6.5.1.6 6.5.1.7]
110224952  formamidopyrimidine-DNA glycosylase isoform X1 [KO:K10563] [EC:3.2.2.23 4.2.99.18]
9325080  uncharacterized protein LOC9325080 isoform X2 [KO:K01247] [EC:3.2.2.21]
110225231  uncharacterized protein LOC110225231 [KO:K01247] [EC:3.2.2.21]
9312119  DNA-3-methyladenine glycosylase 1 [KO:K01247] [EC:3.2.2.21]
9318853  uncharacterized protein LOC9318853 [KO:K01246] [EC:3.2.2.20]
110230724  uncharacterized protein LOC110230724 [KO:K01246] [EC:3.2.2.20]
9323872  uncharacterized protein LOC9323872 isoform X1 [KO:K01246] [EC:3.2.2.20]
9328826  uncharacterized protein LOC9328826 [KO:K01246] [EC:3.2.2.20]
9299627  uncharacterized protein LOC9299627 [KO:K01246] [EC:3.2.2.20]
9302316  uncharacterized protein LOC9302316 [KO:K01246] [EC:3.2.2.20]
9328951  uncharacterized protein LOC9328951 [KO:K01246] [EC:3.2.2.20]
9315999  DNA-(apurinic or apyrimidinic site) lyase, chloroplastic isoform X1 [KO:K01142] [EC:3.1.11.2]
9319321  DNA polymerase I B, chloroplastic/mitochondrial [KO:K02335] [EC:2.7.7.7]
9330339  DNA polymerase I A, chloroplastic/mitochondrial [KO:K02335] [EC:2.7.7.7]
Reference
PMID:17893748
  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
PMID:17337257
  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
PMID:21665970
  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
PMID:11436317
  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   

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Genome (1)   
   KEGG GENOME (1)   
Gene (53)   
   KEGG GENES (53)   
All databases (54)   

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