KEGG   PATHWAY: clum03030
Entry
clum03030                   Pathway                                
Name
DNA replication - Cyclopterus lumpus (lumpfish)
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
clum03030  DNA replication
clum03030

Organism
Cyclopterus lumpus (lumpfish) [GN:clum]
Gene
117726016  ssbp1; single-stranded DNA-binding protein, mitochondrial [KO:K03111]
117727592  mcm3; DNA replication licensing factor MCM3 [KO:K02541] [EC:5.6.2.3]
117727673  pole3; DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
117727805  rnaseh1; ribonuclease H1 [KO:K03469] [EC:3.1.26.4]
117728717  dna2; DNA replication ATP-dependent helicase/nuclease DNA2 [KO:K10742] [EC:5.6.2.3 3.1.-.-]
117729606  pole4; DNA polymerase epsilon subunit 4 [KO:K03506] [EC:2.7.7.7]
117730118  rfc4; replication factor C subunit 4 [KO:K10755]
117731055  mcm2; DNA replication licensing factor MCM2 isoform X1 [KO:K02540] [EC:5.6.2.3]
117733058  rfc2; replication factor C subunit 2 [KO:K10755]
117733469  prim1; DNA primase small subunit [KO:K02684] [EC:2.7.7.102]
117735274  mcm5; DNA replication licensing factor MCM5 [KO:K02209] [EC:5.6.2.3]
117735332  pold1; DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
117735622  rnaseh2a; ribonuclease H2 subunit A [KO:K10743] [EC:3.1.26.4]
117736065  rfc1; replication factor C subunit 1 [KO:K10754]
117736081  pold2; DNA polymerase delta subunit 2 [KO:K02328]
117736298  pole; DNA polymerase epsilon catalytic subunit A [KO:K02324] [EC:2.7.7.7]
117736566  rfc5; replication factor C subunit 5 [KO:K10756]
117736700  pcna; proliferating cell nuclear antigen [KO:K04802]
117737504  pola2; DNA polymerase alpha subunit B [KO:K02321]
117737533  rnaseh2c; ribonuclease H2 subunit C [KO:K10745]
117737765  mcm7; DNA replication licensing factor MCM7 isoform X1 [KO:K02210] [EC:5.6.2.3]
117738233  pold4; DNA polymerase delta subunit 4 isoform X1 [KO:K03505]
117738902  rpa3; replication protein A 14 kDa subunit [KO:K10740]
117739261  [KO:K10739]
117741412  rpa1; replication protein A 70 kDa DNA-binding subunit [KO:K07466]
117742361  [KO:K07466]
117743171  rfc3; replication factor C subunit 3 [KO:K10756]
117745052  rpa2; replication protein A 32 kDa subunit [KO:K10739]
117746197  mcm6; DNA replication licensing factor MCM6 [KO:K02542] [EC:5.6.2.3]
117746413  lig1; DNA ligase 1 [KO:K10747] [EC:6.5.1.1 6.5.1.6 6.5.1.7]
117746642  zgc:110269; probable flap endonuclease 1 homolog [KO:K04799] [EC:3.1.-.-]
117746842  mcm4; DNA replication licensing factor MCM4 [KO:K02212] [EC:5.6.2.3]
117747095  pold3; DNA polymerase delta subunit 3 isoform X1 [KO:K03504]
117749539  pola1; DNA polymerase alpha catalytic subunit isoform X1 [KO:K02320] [EC:2.7.7.7]
117749581  fen1; flap endonuclease 1 [KO:K04799] [EC:3.1.-.-]
117750366  rnaseh2b; ribonuclease H2 subunit B [KO:K10744]
117751628  pole2; DNA polymerase epsilon subunit 2 [KO:K02325] [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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