KEGG   PATHWAY: ath03030Help
Entry
ath03030                    Pathway                                

Name
DNA replication - Arabidopsis thaliana (thale cress)
Description
A complex network of interacting proteins and enzymes is required for DNA replication. Generally, DNA replication follows a multistep enzymatic pathway. At the DNA replication fork, a DNA helicase (DnaB or MCM complex) precedes the DNA synthetic machinery and unwinds the duplex parental DNA in cooperation with the SSB or RPA. On the leading strand, replication occurs continuously in a 5 to 3 direction, whereas on the lagging strand, DNA replication occurs discontinuously by synthesis and joining of short Okazaki fragments. In prokaryotes, the leading strand replication apparatus consists of a DNA polymerase (pol III core), a sliding clamp (beta), and a clamp loader (gamma delta complex). The DNA primase (DnaG) is needed to form RNA primers. Normally, during replication of the lagging-strand DNA template, an RNA primer is removed either by an RNase H or by the 5 to 3 exonuclease activity of DNA pol I, and the DNA ligase joins the Okazaki fragments. In eukaryotes, three DNA polymerases (alpha, delta, and epsilon) have been identified. DNA primase forms a permanent complex with DNA polymerase alpha. PCNA and RFC function as a clamp and a clamp loader. FEN 1 and RNase H1 remove the RNA from the Okazaki fragments and DNA ligase I joins the DNA.
Class
09120 Genetic Information Processing; 09124 Replication and repair
BRITE hierarchy
Pathway map
ath03030  DNA replication
ath03030

Ortholog table
Module
ath_M00261  DNA polymerase alpha / primase complex [PATH:ath03030]
ath_M00262  DNA polymerase delta complex [PATH:ath03030]
ath_M00285  MCM complex [PATH:ath03030]
ath_M00288  RPA complex [PATH:ath03030]
ath_M00289  RF-C complex [PATH:ath03030]
Organism
Arabidopsis thaliana (thale cress) [GN:ath]
Gene
AT3G18580  Nucleic acid-binding, OB-fold-like protein [KO:K03111]
AT1G50840  POLGAMMA2; polymerase gamma 2 [KO:K02335] [EC:2.7.7.7]
AT3G20540  POLGAMMA1; polymerase gamma 1 [KO:K02335] [EC:2.7.7.7]
AT2G06510  RPA1A; replication protein A 1A [KO:K07466]
AT4G19130  Replication factor-A protein 1-like protein [KO:K07466]
AT1G10590  Nucleic acid-binding, OB-fold-like protein [KO:K07466]
AT5G45400  RPA70C; Replication factor-A protein 1-like protein [KO:K07466]
AT1G23750  Nucleic acid-binding, OB-fold-like protein [KO:K07466]
AT2G33845  Nucleic acid-binding, OB-fold-like protein [KO:K07466]
AT4G28440  Nucleic acid-binding, OB-fold-like protein [KO:K07466]
AT1G03810  Nucleic acid-binding, OB-fold-like protein [KO:K07466]
AT5G61000  RPA70D; Replication factor-A protein 1-like protein [KO:K07466]
AT1G52950  Nucleic acid-binding, OB-fold-like protein [KO:K07466]
AT5G08020  RPA70B; RPA70-kDa subunit B [KO:K07466]
AT2G29570  PCNA2; proliferating cell nuclear antigen 2 [KO:K04802]
AT1G07370  PCNA1; proliferating cellular nuclear antigen 1 [KO:K04802]
AT1G08840  emb2411; DNA replication helicase [KO:K10742] [EC:3.6.4.12]
AT5G26680  5'-3' exonuclease family protein [KO:K04799] [EC:3.-.-.-]
AT1G08130  LIG1; DNA ligase 1 [KO:K10747] [EC:6.5.1.7 6.5.1.6 6.5.1.1]
AT1G49250  ATP-dependent DNA ligase [KO:K10747] [EC:6.5.1.7 6.5.1.6 6.5.1.1]
AT5G67100  ICU2; DNA-directed DNA polymerase [KO:K02320] [EC:2.7.7.7]
AT1G67630  POLA2; DNA polymerase alpha 2 [KO:K02321]
AT5G41880  POLA3; DNA primase POLA3 [KO:K02684] [EC:2.7.7.-]
AT1G67320  EMB2813; DNA primase, large subunit family [KO:K02685] [EC:2.7.7.-]
AT5G63960  DNA polymerase delta subunit 1 [KO:K02327] [EC:2.7.7.7]
AT2G42120  POLD2; DNA polymerase delta small subunit [KO:K02328]
AT1G78650  POLD3; DNA-directed DNA polymerase [KO:K03504]
AT1G09815  POLD4; polymerase delta 4 [KO:K03505]
AT1G08260  TIL1; DNA polymerase epsilon catalytic subunit [KO:K02324] [EC:2.7.7.7]
AT2G27120  TIL2; DNA polymerase epsilon catalytic subunit [KO:K02324] [EC:2.7.7.7]
AT5G22110  DPB2; DNA polymerase epsilon subunit B2 [KO:K02325] [EC:2.7.7.7]
AT2G27470  NF-YB11; nuclear factor Y, subunit B11 [KO:K02326] [EC:2.7.7.7]
AT1G44900  MCM2; minichromosome maintenance (MCM2/3/5) family protein [KO:K02540] [EC:3.6.4.12]
AT5G46280  MCM3; Minichromosome maintenance (MCM2/3/5) family protein [KO:K02541] [EC:3.6.4.12]
AT2G16440  MCM4; Minichromosome maintenance (MCM2/3/5) family protein [KO:K02212] [EC:3.6.4.12]
AT2G07690  MCM5; Minichromosome maintenance (MCM2/3/5) family protein [KO:K02209] [EC:3.6.4.12]
AT5G44635  MCM6; minichromosome maintenance (MCM2/3/5) family protein [KO:K02542] [EC:3.6.4.12]
AT4G02060  PRL; Minichromosome maintenance (MCM2/3/5) family protein [KO:K02210] [EC:3.6.4.12]
AT2G24490  RPA2; replicon protein A2 [KO:K10739]
AT3G02920  RPA32B; Replication protein A, subunit RPA32 [KO:K10739]
AT3G52630  Nucleic acid-binding, OB-fold-like protein [KO:K10740]
AT4G18590  Nucleic acid-binding, OB-fold-like protein [KO:K10740]
AT5G22010  RFC1; replication factor C1 [KO:K10754]
AT1G21690  EMB1968; ATPase family associated with various cellular activities (AAA) [KO:K10755]
AT1G63160  RFC2; replication factor C 2 [KO:K10755]
AT1G77470  RFC3; replication factor C subunit 3 [KO:K10756]
AT5G27740  EMB2775; ATPase family associated with various cellular activities (AAA) [KO:K10756]
AT2G25100  Polynucleotidyl transferase, ribonuclease H-like superfamily protein [KO:K10743] [EC:3.1.26.4]
AT4G20325  ribonuclease H2 subunit B [KO:K10744]
AT2G39440  ribonuclease H2 subunit C-like protein [KO:K10745]
Reference
PMID:8087839
  Authors
Stillman B.
  Title
Smart machines at the DNA replication fork.
  Journal
Cell 78:725-8 (1994)
DOI:10.1016/S0092-8674(94)90362-X
Reference
PMID:9759502
  Authors
Waga S, Stillman B.
  Title
The DNA replication fork in eukaryotic cells.
  Journal
Annu Rev Biochem 67:721-51 (1998)
DOI:10.1146/annurev.biochem.67.1.721
KO pathway
ko03030   

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