› 8dvf

Electron Microscopy
3.3Å resolution

T4 Bacteriophage primosome with single strand DNA, state 1

Released:
DOI: 10.2210/pdb8dvf/pdb
PDB entry 8dvf coloured by chain, front view.
PDB entry 8dvf coloured by chain, side view.
PDB entry 8dvf coloured by chain, top view.
Source organism: Escherichia phage T4
Primary publication:
Structural basis of the T4 bacteriophage primosome assembly and primer synthesis.
Feng X, Spiering MM, de Luna Almeida Santos R, Benkovic SJ, Li H
Nat Commun 14 4396 (2023)
PMID: 37474605
Related structures: EMD-27737

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero nonamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-217992 (preferred)
Entry contents:
2 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (4 distinct):
DnaB-like replicative helicase Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 475 amino acids
Theoretical weight: 53.66 KDa
Source organism: Escherichia phage T4
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P04530 (Residues: 1-432; Coverage: 91%)
Gene name: 41
Sequence domains: DnaB-like helicase C terminal domain
DNA primase Chain: H
Molecule details ›
Chain: H
Length: 342 amino acids
Theoretical weight: 39.84 KDa
Source organism: Escherichia phage T4
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P04520 (Residues: 1-1, 3-341; Coverage: 99%)
Gene names: 58, 61
DNA (5'-D(P*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3') Chain: M
DNA (5'-D(P*GP*GP*CP*TP*G)-3') Chain: T

Ligands and Environments

2 bound ligands:
Ligand AGS 5 x AGS
Ligand MG 5 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.3Å
Relevant EMDB volumes: EMD-27737
Expression system: Escherichia coli BL21(DE3)

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