Function | Superkingdom | Protein | PDB ID (if applicable) | SCOP Superfamily Combination | Proposed Origin in Archaea |
---|---|---|---|---|---|
Origin recognition | Bacteria | DnaA | 1l8q | _gap_,52540,48295 | Â |
 | Archaea | Cdc6/ORC (single or multiple homologues) | 1fnn | 52540, 46785 | evolved from RuvB |
Replicative helicase | Bacteria | DnaC | 3ec2 | 52540 * | Â |
 | Archaea | MCM | 3f9v |  | viral transfer |
Helicase loader | Bacteria | DnaB | 1b79 (n-terminal domain) | gap, 48024 | Â |
ssDNA-binding protein | Archaea, Bacteria | SSB (one subunit) | 1o7i | 50249 | archaeal SSB evolved from bacterial SSB |
 | Archaea | RPA (one or three subunits) | 2b28 | 50249, 50249, 50249 | evolved from SSB |
Primase | Bacteria | DnaG | 1dd9 | 56731 | Â |
 | Archaea | PriA (small) | 1zt2:a | 56747, gap | viral transfer or vertically inherited |
 | Archaea | PriB(large) | 1zt2:b | 140914 | innovation |
Replicative Polymerase | Archaea, Bacteria | PolB (one or multiple homologues) | 1q8i | gap, 56672 | viral transfer |
 | Archaea | PolD (small) | none | gap, 56300 | innovation |
 | Archaea | PolD (large) | none | gap | innovation |
 | Bacteria | PolC (DnaE) | 2hqa | 89550, large gap* |  |
DNA sliding clamp | Archaea | PCNA (three subunits) | 3a2f | 55979, 55979 | evolved from β-clamp |
 | Bacteria | β-clamp (dimer) | 1ok7 | 55979, 55979, 55979 |  |
Clamp loader | Bacteria | γ-Complex (three subunits) | 1jr3:a | 52540, 48019 |  |
 | Archaea | RFC (two subunits) | 1iqp | 52540, 48019 | evolved from γ-Complex |
Removal of primers | Archaea | Fen1 | 1rxw | 88723, 47807 | viral origin |
 | Bacteria | RNase H | 1jl1 | 53098 |  |
 | Archaea | RNase HII | 1eke | 53098 | archaeal RNAase HII evolved from bacterial RNAase HI |
 | Bacteria | PolA | 2kfz (mssing c-terminal domain) | 53098, 56672 |  |
 | Archaea, Bacteria | DNA ligase(ATP-DEP) | 1xn9 (human) | 117018, 56091, 50249 | viral origin or vertical inheritance |
 | Bacteria | DNA ligase(NAD-DEP) | 1dgs | 56091, 50249, 47781 |  |
Preinitiation complex | Archaea | gins | 2eho(human) | 158573 | true innovation |