KEGG   PATHWAY: coy03030
Entry
coy03030                    Pathway                                
Name
DNA replication - Chitinophaga oryzae
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
Pathway map
coy03030  DNA replication
coy03030

Organism
Chitinophaga oryzae [GN:coy]
Gene
HF329_00035  3'-5' exonuclease [KO:K02342] [EC:2.7.7.7]
HF329_07805  GIY-YIG nuclease family protein [KO:K02342] [EC:2.7.7.7]
HF329_13785  dnaE; DNA polymerase III subunit alpha [KO:K02337] [EC:2.7.7.7]
HF329_20395  DNA polymerase III subunit alpha [KO:K02337] [EC:2.7.7.7]
HF329_27765  DNA polymerase III subunit alpha [KO:K02337] [EC:2.7.7.7]
HF329_29490  DNA polymerase III subunit gamma/tau [KO:K02343] [EC:2.7.7.7]
HF329_24635  hypothetical protein [KO:K02341] [EC:2.7.7.7]
HF329_19030  holA; DNA polymerase III subunit delta [KO:K02340] [EC:2.7.7.7]
HF329_26000  dnaN; DNA polymerase III subunit beta [KO:K02338] [EC:2.7.7.7]
HF329_29005  dnaB; replicative DNA helicase [KO:K02314] [EC:5.6.2.3]
HF329_32645  dnaG; DNA primase [KO:K02316] [EC:2.7.7.101]
HF329_24305  single-stranded DNA-binding protein [KO:K03111]
HF329_31780  ssb; single-stranded DNA-binding protein [KO:K03111]
HF329_06690  rnhA; ribonuclease HI [KO:K03469] [EC:3.1.26.4]
HF329_24830  ribonuclease HII [KO:K03470] [EC:3.1.26.4]
HF329_25480  polA; DNA polymerase I [KO:K02335] [EC:2.7.7.7]
HF329_23720  ligA; NAD-dependent DNA ligase LigA [KO:K01972] [EC:6.5.1.2]
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   
LinkDB

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