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
Genetic Information Processing; Replication and repair
BRITE hierarchy
Pathway map
DNA replication
ath03030

All organismsOrtholog table
Module
DNA polymerase alpha / primase complex [PATH:ath03030]
DNA polymerase delta complex [PATH:ath03030]
MCM complex [PATH:ath03030]
RPA complex [PATH:ath03030]
RF-C complex [PATH:ath03030]
Organism
Arabidopsis thaliana (thale cress) [GN:ath]
Gene
Nucleic acid-binding, OB-fold-like protein [KO:K03111]
POLGAMMA2; polymerase gamma 2 [KO:K02335] [EC:2.7.7.7]
POLGAMMA1; polymerase gamma 1 [KO:K02335] [EC:2.7.7.7]
RPA1A; replication protein A 1A [KO:K07466]
Replication factor-A protein 1-like protein [KO:K07466]
Nucleic acid-binding, OB-fold-like protein [KO:K07466]
RPA70C; Replication factor-A protein 1-like protein [KO:K07466]
Nucleic acid-binding, OB-fold-like protein [KO:K07466]
Nucleic acid-binding, OB-fold-like protein [KO:K07466]
Nucleic acid-binding, OB-fold-like protein [KO:K07466]
Nucleic acid-binding, OB-fold-like protein [KO:K07466]
RPA70D; Replication factor-A protein 1-like protein [KO:K07466]
Nucleic acid-binding, OB-fold-like protein [KO:K07466]
RPA70B; RPA70-kDa subunit B [KO:K07466]
PCNA2; proliferating cell nuclear antigen 2 [KO:K04802]
PCNA1; proliferating cellular nuclear antigen 1 [KO:K04802]
emb2411; DNA replication helicase [KO:K10742] [EC:3.6.4.12]
5'-3' exonuclease family protein [KO:K04799] [EC:3.-.-.-]
LIG1; DNA ligase 1 [KO:K10747] [EC:6.5.1.7 6.5.1.6 6.5.1.1]
ATP-dependent DNA ligase [KO:K10747] [EC:6.5.1.7 6.5.1.6 6.5.1.1]
ICU2; DNA-directed DNA polymerase [KO:K02320] [EC:2.7.7.7]
POLA2; DNA polymerase alpha 2 [KO:K02321]
POLA3; DNA primase POLA3 [KO:K02684] [EC:2.7.7.-]
EMB2813; DNA primase, large subunit family [KO:K02685] [EC:2.7.7.-]
DNA polymerase delta subunit 1 [KO:K02327] [EC:2.7.7.7]
POLD2; DNA polymerase delta small subunit [KO:K02328]
POLD3; DNA-directed DNA polymerase [KO:K03504]
POLD4; polymerase delta 4 [KO:K03505]
TIL1; DNA polymerase epsilon catalytic subunit [KO:K02324] [EC:2.7.7.7]
TIL2; DNA polymerase epsilon catalytic subunit [KO:K02324] [EC:2.7.7.7]
DPB2; DNA polymerase epsilon subunit B2 [KO:K02325] [EC:2.7.7.7]
NF-YB11; nuclear factor Y, subunit B11 [KO:K02326] [EC:2.7.7.7]
MCM2; minichromosome maintenance (MCM2/3/5) family protein [KO:K02540] [EC:3.6.4.12]
MCM3; Minichromosome maintenance (MCM2/3/5) family protein [KO:K02541] [EC:3.6.4.12]
MCM4; Minichromosome maintenance (MCM2/3/5) family protein [KO:K02212] [EC:3.6.4.12]
MCM5; Minichromosome maintenance (MCM2/3/5) family protein [KO:K02209] [EC:3.6.4.12]
MCM6; minichromosome maintenance (MCM2/3/5) family protein [KO:K02542] [EC:3.6.4.12]
PRL; Minichromosome maintenance (MCM2/3/5) family protein [KO:K02210] [EC:3.6.4.12]
RPA2; replicon protein A2 [KO:K10739]
RPA32B; Replication protein A, subunit RPA32 [KO:K10739]
Nucleic acid-binding, OB-fold-like protein [KO:K10740]
Nucleic acid-binding, OB-fold-like protein [KO:K10740]
RFC1; replication factor C1 [KO:K10754]
EMB1968; ATPase family associated with various cellular activities (AAA) [KO:K10755]
RFC2; replication factor C 2 [KO:K10755]
RFC3; replication factor C subunit 3 [KO:K10756]
EMB2775; ATPase family associated with various cellular activities (AAA) [KO:K10756]
Polynucleotidyl transferase, ribonuclease H-like superfamily protein [KO:K10743] [EC:3.1.26.4]
ribonuclease H2 subunit B [KO:K10744]
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
 

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