KEGG   PATHWAY: pvb03030
Entry
pvb03030                    Pathway                                
Name
DNA replication - Pseudoalteromonas viridis
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
pvb03030  DNA replication
pvb03030

Organism
Pseudoalteromonas viridis [GN:pvb]
Gene
J5X90_00305  dnaQ; DNA polymerase III subunit epsilon [KO:K02342] [EC:2.7.7.7]
J5X90_00310  rnhA; ribonuclease HI [KO:K03469] [EC:3.1.26.4]
J5X90_01680  ssb; single-stranded DNA-binding protein [KO:K03111]
J5X90_01875  [KO:K02342] [EC:2.7.7.7]
J5X90_02785  [KO:K02342] [EC:2.7.7.7]
J5X90_03890  polA; DNA polymerase I [KO:K02335] [EC:2.7.7.7]
J5X90_05515  dnaN; DNA polymerase III subunit beta [KO:K02338] [EC:2.7.7.7]
J5X90_07475  ssb; single-stranded DNA-binding protein [KO:K03111]
J5X90_08445  dnaG; DNA primase [KO:K02316] [EC:2.7.7.101]
J5X90_08760  [KO:K02339] [EC:2.7.7.7]
J5X90_09875  ligA; NAD-dependent DNA ligase LigA [KO:K01972] [EC:6.5.1.2]
J5X90_12090  rnhB; ribonuclease HII [KO:K03470] [EC:3.1.26.4]
J5X90_12095  dnaE; DNA polymerase III subunit alpha [KO:K02337] [EC:2.7.7.7]
J5X90_16215  [KO:K02342] [EC:2.7.7.7]
J5X90_16465  holB; DNA polymerase III subunit delta' [KO:K02341] [EC:2.7.7.7]
J5X90_16670  dnaX; DNA polymerase III subunit gamma/tau [KO:K02343] [EC:2.7.7.7]
J5X90_18525  holA; DNA polymerase III subunit delta [KO:K02340] [EC:2.7.7.7]
J5X90_21330  [KO:K02342] [EC:2.7.7.7]
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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