KEGG   PATHWAY: sjp03030Help
Entry
sjp03030                    Pathway                                

Name
DNA replication - Sphingobium japonicum
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
sjp03030

All organismsOrtholog table
Module
DNA polymerase III complex, bacteria [PATH:sjp03030]
Organism
Sphingobium japonicum [GN:sjp]
Gene
dnaQ; DNA polymerase III epsilon subunit [KO:K02342] [EC:2.7.7.7]
dnaE; DNA polymerase III alpha subunit [KO:K02337] [EC:2.7.7.7]
dnaX; DNA polymerase III gamma and tau subunit [KO:K02343] [EC:2.7.7.7]
holB; DNA polymerase III delta' subunit [KO:K02341] [EC:2.7.7.7]
DNA polymerase III delta subunit; K02340 DNA polymerase III subunit delta [EC:2.7.7.7] [KO:K02340] [EC:2.7.7.7]
DNA polymerase III chi subunit; K02339 DNA polymerase III subunit chi [EC:2.7.7.7] [KO:K02339] [EC:2.7.7.7]
dnaN; DNA polymerase III beta subunit [KO:K02338] [EC:2.7.7.7]
dnaB; replicative DNA helicase [KO:K02314] [EC:3.6.4.12]
dnaG; DNA primase [KO:K02316] [EC:2.7.7.-]
single-stranded DNA-binding protein; K03111 single-strand DNA-binding protein [KO:K03111]
ssb; single-stranded DNA-binding protein [KO:K03111]
ssb; single-stranded DNA-binding protein [KO:K03111]
rnhA; ribonuclease HI [KO:K03469] [EC:3.1.26.4]
rnhB; ribonuclease HII [KO:K03470] [EC:3.1.26.4]
dpo1; DNA polymerase I [KO:K02335] [EC:2.7.7.7]
ligA; NAD-dependent DNA ligase [KO:K01972] [EC:6.5.1.2]
Reference
(Japanese)
  Authors
Matsukage A, Masai H.
  Title
[The Replication and Partitioning of Genomes] (In Japanese)
  Journal
Springer-Verlag Tokyo (2002)
Reference
(Japanese)
  Authors
Tamura T, Yamamoto M.
  Title
[Molecular Biology  Illustrated] (In Japanese)
  Journal
Yodosha (2002)
Reference
PMID:8087839
  Authors
Stillman B.
  Title
Smart machines at the DNA replication fork.
  Journal
Cell 78:725-8 (1994)
Reference
PMID:9759502
  Authors
Waga S, Stillman B.
  Title
The DNA replication fork in eukaryotic cells.
  Journal
Annu Rev Biochem 67:721-51 (1998)
KO pathway
 

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