KEGG   PATHWAY: ola03410Help
Entry
ola03410                    Pathway                                

Name
Base excision repair - Oryzias latipes (Japanese medaka)
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
BRITE hierarchy
Pathway map
ola03410  Base excision repair
ola03410

Ortholog table
Module
ola_M00262  DNA polymerase delta complex [PATH:ola03410]
Other DBs
GO: 0006284 0006285 0006286 0006287 0006288
Organism
Oryzias latipes (Japanese medaka) [GN:ola]
Gene
101169533  ogg1; N-glycosylase/DNA lyase [KO:K03660] [EC:4.2.99.18 3.2.2.-]
101175220  nthl1; endonuclease III-like protein 1 isoform X3 [KO:K10773] [EC:4.2.99.18]
101165302  neil1; endonuclease 8-like 1 isoform X1 [KO:K10567] [EC:4.2.99.18 3.2.2.-]
101159899  neil3; endonuclease 8-like 3 [KO:K10569]
101166635  ung; uracil-DNA glycosylase isoform X2 [KO:K03648] [EC:3.2.2.27]
101163811  smug1; single-strand selective monofunctional uracil DNA glycosylase [KO:K10800] [EC:3.2.2.-]
101160544  mutyh; adenine DNA glycosylase isoform X1 [KO:K03575] [EC:3.2.2.31]
101158026  mpg; DNA-3-methyladenine glycosylase [KO:K03652] [EC:3.2.2.21]
101169942  mbd4; methyl-CpG-binding domain protein 4 isoform X1 [KO:K10801] [EC:3.2.2.-]
101162834  G/T mismatch-specific thymine DNA glycosylase isoform X2 [KO:K20813] [EC:3.2.2.29]
101155844  tdg; G/T mismatch-specific thymine DNA glycosylase isoform X1 [KO:K20813] [EC:3.2.2.29]
101172621  apex1; DNA-(apurinic or apyrimidinic site) lyase [KO:K10771] [EC:4.2.99.18]
101171171  polb; DNA polymerase beta [KO:K02330] [EC:4.2.99.- 2.7.7.7]
101161125  poll; DNA polymerase lambda isoform X1 [KO:K03512] [EC:4.2.99.- 2.7.7.7]
101156596  high mobility group protein B1 [KO:K10802]
101165167  high mobility group-T protein [KO:K10802]
101158723  xrcc1; DNA repair protein XRCC1 isoform X1 [KO:K10803]
101155033  pcna; proliferating cell nuclear antigen [KO:K04802]
101155199  pold1; DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
101156744  pold2; DNA polymerase delta subunit 2 [KO:K02328]
101156197  pold3; DNA polymerase delta subunit 3 isoform X1 [KO:K03504]
105354361  pold4; DNA polymerase delta subunit 4 [KO:K03505]
101171586  pole; DNA polymerase epsilon catalytic subunit A [KO:K02324] [EC:2.7.7.7]
101173901  pole2; DNA polymerase epsilon subunit 2 [KO:K02325] [EC:2.7.7.7]
101172142  pole3; DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
101162035  pole4; DNA polymerase epsilon subunit 4 [KO:K03506] [EC:2.7.7.7]
101167483  lig1; DNA ligase 1 [KO:K10747] [EC:6.5.1.7 6.5.1.6 6.5.1.1]
101156760  lig3; DNA ligase 3 [KO:K10776] [EC:6.5.1.1]
101172069  parp3; poly [ADP-ribose] polymerase 3 [KO:K10798] [EC:2.4.2.30]
101165670  parp2; poly [ADP-ribose] polymerase 2 [KO:K10798] [EC:2.4.2.30]
101157338  parp1; poly [ADP-ribose] polymerase 1 [KO:K10798] [EC:2.4.2.30]
101168826  parp4; poly [ADP-ribose] polymerase 4 isoform X1 [KO:K10798] [EC:2.4.2.30]
101157486  probable flap endonuclease 1 homolog [KO:K04799] [EC:3.-.-.-]
101158562  fen1; flap endonuclease 1 [KO:K04799] [EC:3.-.-.-]
110017319  flap endonuclease 1-like [KO:K04799] [EC:3.-.-.-]
101159868  flap endonuclease 1-like [KO:K04799] [EC:3.-.-.-]
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] Japanese
  Journal
Tanpakushitsu Kakusan Koso 46:916-23 (2001)
KO pathway
ko03410   
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