› 8ooy

Electron Microscopy
4Å resolution

Pol I bound to extended and displaced DNA section - open conformation

Released:
DOI: 10.2210/pdb8ooy/pdb
PDB entry 8ooy coloured by chain, front view.
PDB entry 8ooy coloured by chain, side view.
PDB entry 8ooy coloured by chain, top view.
Source organisms:
Primary publication:
A four-point molecular handover during Okazaki maturation.
Botto MM, Borsellini A, Lamers MH
Nat Struct Mol Biol (2023)
PMID: 37620586
Related structures: EMD-17033

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-270240 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
2 distinct DNA/RNA hybrid molecules
Macromolecules (4 distinct):
DNA polymerase I Chain: A
Molecule details ›
Chain: A
Length: 604 amino acids
Theoretical weight: 67.99 KDa
Source organism: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P00582 (Residues: 328-928; Coverage: 65%)
Gene names: JW3835, b3863, polA, resA
Sequence domains:
Displacing Primer Chain: D
Molecule details ›
Chain: D
Length: 7 nucleotides
Theoretical weight: 2.11 KDa
Source organism: synthetic construct
Expression system: Not provided
Template DNA Chain: T
Molecule details ›
Chain: T
Length: 26 nucleotides
Theoretical weight: 8.37 KDa
Source organism: synthetic construct
Expression system: Not provided
Extending Primer Chain: P
Molecule details ›
Chain: P
Length: 18 nucleotides
Theoretical weight: 5.69 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4Å
Relevant EMDB volumes: EMD-17033
Expression systems:
  • Escherichia coli 'BL21-Gold(DE3)pLysS AG'
  • Not provided

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