› 8vdc

Electron Microscopy
3.5Å resolution

SaPI1 portal structure in mature capsids without DNA

Released:
DOI: 10.2210/pdb8vdc/pdb
PDB entry 8vdc coloured by chain, front view.
PDB entry 8vdc coloured by chain, side view.
PDB entry 8vdc coloured by chain, top view.
Source organism: Dubowvirus dv80alpha
Primary publication:
Structure of the portal complex from Staphylococcus aureus pathogenicity island 1 transducing particles in situ and in isolation.
Mukherjee A, Kizziah JL, Hawkins NC, Nasef MO, Parker LK, Dokland T
J Mol Biol 168415 (2023)
PMID: 38135177
Related structures: EMD-43146

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 24-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-243332 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Phage portal protein Chain: A
Molecule details ›
Chain: A
Length: 511 amino acids
Theoretical weight: 59.55 KDa
Source organism: Dubowvirus dv80alpha
Expression system: Escherichia coli
UniProt:
  • Canonical: A4ZFA8 (Residues: 1-511; Coverage: 100%)
Sequence domains: Phage portal protein, SPP1 Gp6-like
Head-tail connector protein Chain: B
Molecule details ›
Chain: B
Length: 110 amino acids
Theoretical weight: 12.81 KDa
Source organism: Dubowvirus dv80alpha
Expression system: Escherichia coli
UniProt:
  • Canonical: A4ZFB5 (Residues: 1-110; Coverage: 100%)
Sequence domains: Phage gp6-like head-tail connector protein

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.5Å
Relevant EMDB volumes: EMD-43146
Expression system: Escherichia coli

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