ENTRY       sly03030                    Pathway
NAME        DNA replication - Solanum lycopersicum (tomato)
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 sly03030  DNA replication
ORGANISM    Solanum lycopersicum (tomato) [GN:sly]
GENE        101262086  single-stranded DNA-binding protein, mitochondrial [KO:K03111]
            101252794  DNA polymerase I B, chloroplastic/mitochondrial isoform X2 [KO:K02335] [EC:2.7.7.7]
            101250913  replication protein A 70 kDa DNA-binding subunit A-like [KO:K07466]
            101259439  replication protein A 70 kDa DNA-binding subunit A [KO:K07466]
            101255870  replication protein A 70 kDa DNA-binding subunit B [KO:K07466]
            544248  pcna; proliferating cell nuclear antigen [KO:K04802]
            101244042  DNA replication ATP-dependent helicase/nuclease DNA2 isoform X1 [KO:K10742] [EC:5.6.2.3 3.1.-.-]
            101268807  flap endonuclease 1 isoform X2 [KO:K04799] [EC:3.1.-.-]
            101262281  DNA ligase 1 [KO:K10747] [EC:6.5.1.1 6.5.1.6 6.5.1.7]
            101055576  DNApolalpha; DNA polymerase alpha catalytic subunit [KO:K02320] [EC:2.7.7.7]
            101259745  DNA polymerase alpha subunit B [KO:K02321]
            101258292  DNA primase small subunit [KO:K02684] [EC:2.7.7.102]
            101266715  probable DNA primase large subunit [KO:K02685]
            101256637  DNA polymerase delta catalytic subunit [KO:K02327] [EC:2.7.7.7]
            101243681  DNA polymerase delta small subunit [KO:K02328]
            101258997  muscle M-line assembly protein unc-89 [KO:K03504]
            101262116  uncharacterized protein LOC101262116 [KO:K03505]
            101255630  uncharacterized protein LOC101255630 [KO:K03505]
            101253967  DNA polymerase epsilon catalytic subunit A-like isoform X1 [KO:K02324] [EC:2.7.7.7]
            101254462  DNA polymerase epsilon subunit B [KO:K02325] [EC:2.7.7.7]
            101260506  DNA polymerase epsilon subunit 3 [KO:K02326] [EC:2.7.7.7]
            101260396  DNA replication licensing factor MCM2 [KO:K02540] [EC:5.6.2.3]
            101268250  DNA replication licensing factor MCM3 homolog 2 isoform X1 [KO:K02541] [EC:5.6.2.3]
            101264867  DNA replication licensing factor MCM4 [KO:K02212] [EC:5.6.2.3]
            101256302  DNA replication licensing factor MCM5 [KO:K02209] [EC:5.6.2.3]
            101244828  DNA replication licensing factor MCM6 [KO:K02542] [EC:5.6.2.3]
            101243636  DNA replication licensing factor MCM7-like protein [KO:K02210] [EC:5.6.2.3]
            101244966  RPA32a; replication protein A [KO:K10739]
            101247082  RPA32b; replication protein A 32 kDa subunit B [KO:K10739]
            101255747  replication protein A 14 kDa subunit B-like isoform X2 [KO:K10740]
            101252714  replication protein A 14 kDa subunit B [KO:K10740]
            101249468  replication factor C subunit 1 isoform X2 [KO:K10754]
            101268826  replication factor C subunit 2 [KO:K10755]
            101267918  replication factor C subunit 2 [KO:K10755]
            101253010  replication factor C subunit 3 [KO:K10756]
            101250629  replication factor C subunit 3-like isoform X2 [KO:K10756]
            101259119  uncharacterized protein LOC101259119 [KO:K10756]
            101264020  replication factor C subunit 3 [KO:K10756]
            101265389  ribonuclease H2 subunit A [KO:K10743] [EC:3.1.26.4]
            101257370  ribonuclease H2 subunit B isoform X1 [KO:K10744]
            101254055  uncharacterized protein C12B10.15c [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  ko03030
///
