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Insights into the Replisome from the Crystral Structure of the Ternary Complex of the Eubacterial DNA Polymerase III alpha-subunit

X-ray diffraction
4.6Å resolution
PDB entry 3e0d coloured by chain, front view.
PDB entry 3e0d coloured by chain, side view.
PDB entry 3e0d coloured by chain, top view.
Source organism: Thermus aquaticus
Assembly composition:
hetero trimer (preferred)
Entry contents: 1 distinct polypeptide molecule
2 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: DNA polymerase III subunit alpha and DNA
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Multimeric state: hetero trimer
Accessible surface area: 57076.24 Å2
Buried surface area: 6036.92 Å2
Dissociation area: 1,669.09 Å2
Dissociation energy (ΔGdiss): -4.11 kcal/mol
Dissociation entropy (TΔSdiss): 12.89 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-116191
Assembly 2
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Assembly Name: DNA polymerase III subunit alpha and DNA
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Multimeric state: hetero trimer
Accessible surface area: 56966.9 Å2
Buried surface area: 6149.5 Å2
Dissociation area: 1,696.43 Å2
Dissociation energy (ΔGdiss): 2.95 kcal/mol
Dissociation entropy (TΔSdiss): 12.9 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-116191

Macromolecules

DNA polymerase III subunit alpha
Chains: A, B
Length: 1220 amino acids
Theoretical weight: 137.61 KDa
Source organism: Thermus aquaticus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9XDH5 (Residues: 1-1220; Coverage: 100%)
Gene name: dnaE
Pfam:
InterPro:
DNA polymerase III subunit alpha in PDB entry 3e0d, assembly 1, front view.
DNA polymerase III subunit alpha in PDB entry 3e0d, assembly 1, side view.
DNA polymerase III subunit alpha in PDB entry 3e0d, assembly 1, top view.
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DNA chains C, E
Name: DNA substrate template strand
Representative chains: C, E
Source organism: Thermus aquaticus [271]
Expression system: Not provided
Length: 27 nucleotides
Theoretical weight: 8.29 KDa
DNA substrate template strand in PDB entry 3e0d, assembly 1, front view.
DNA substrate template strand in PDB entry 3e0d, assembly 1, side view.
DNA substrate template strand in PDB entry 3e0d, assembly 1, top view.
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DNA chains D, F
Name: DNA substrate primer strand
Representative chains: D, F
Source organism: Thermus aquaticus [271]
Expression system: Not provided
Length: 21 nucleotides
Theoretical weight: 6.41 KDa
DNA substrate primer strand in PDB entry 3e0d, assembly 1, front view.
DNA substrate primer strand in PDB entry 3e0d, assembly 1, side view.
DNA substrate primer strand in PDB entry 3e0d, assembly 1, top view.
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