› 8gj1

Electron Microscopy
3Å resolution

E. coli clamp loader with open clamp on primed template DNA (form 2)

Released:
DOI: 10.2210/pdb8gj1/pdb
PDB entry 8gj1 coloured by chain, front view.
PDB entry 8gj1 coloured by chain, side view.
PDB entry 8gj1 coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Structural characterisation of the complete cycle of sliding clamp loading in Escherichia coli.
Xu ZQ, Jergic S, Lo ATY, Pradhan AC, Brown SHJ, Bouwer JC, Ghodke H, Lewis PJ, Tolun G, Oakley AJ, Dixon NE
Nat Commun 15 8372 (2024)
PMID: 39333521
Related structures: EMD-40082

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero decamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-279195 (preferred)
Entry contents:
5 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (7 distinct):
DNA polymerase III subunit delta Chain: A
Molecule details ›
Chain: A
Length: 343 amino acids
Theoretical weight: 38.75 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P28630 (Residues: 1-343; Coverage: 100%)
Gene names: JW0635, b0640, holA
Sequence domains:
DNA polymerase III subunit tau Chains: B, C, D
Molecule details ›
Chains: B, C, D
Length: 643 amino acids
Theoretical weight: 71.23 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P06710 (Residues: 1-643; Coverage: 100%)
Gene names: JW0459, b0470, dnaX, dnaZ, dnaZX
Sequence domains:
DNA polymerase III subunit delta' Chain: E
DNA polymerase III subunit psi Chain: F
Beta sliding clamp Chains: H, I
Primer Chain: X
Template Chain: Y

Ligands and Environments

4 bound ligands:
Ligand ADP 3 x ADP
Ligand MG 3 x MG
Ligand ALF 3 x ALF
Ligand ZN 4 x ZN
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 3Å
Relevant EMDB volumes: EMD-40082
Expression system: Escherichia coli BL21

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