› 2wc9

X-ray diffraction
2.5Å resolution

Crystal structure of the g2p (large terminase) nuclease domain from the bacteriophage SPP1 with bound Mn

Released:
DOI: 10.2210/pdb2wc9/pdb
PDB entry 2wc9 coloured by chain, front view.
PDB entry 2wc9 coloured by chain, side view.
PDB entry 2wc9 coloured by chain, top view.
Source organism: Bacillus phage SPP1
Primary publication:
Structural basis for the nuclease activity of a bacteriophage large terminase.
Smits C, Chechik M, Kovalevskiy OV, Shevtsov MB, Foster AW, Alonso JC, Antson AA
EMBO Rep 10 592-8 (2009)
PMID: 19444313

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-156996 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Terminase, large subunit Chain: A
Molecule details ›
Chain: A
Length: 212 amino acids
Theoretical weight: 24.3 KDa
Source organism: Bacillus phage SPP1
Expression system: Escherichia coli
UniProt:
  • Canonical: P54308 (Residues: 232-422; Coverage: 45%)
Gene name: 2
Sequence domains: Terminase RNAseH like domain
Structure domains: Nucleotidyltransferase; domain 5

Ligands and Environments

2 bound ligands:
Ligand MN 2 x MN
Ligand SO4 1 x SO4
1 modified residue:
Ligand MSE 3 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P3221
Unit cell:
a: 69.71Å b: 69.71Å c: 73.801Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.198 0.195 0.259
Expression system: Escherichia coli

Quick links

Citations

7 review citations

The DNA-packaging nanomotor of tailed bacteriophages.
Casjens SR. (2011)
6 more

4 mentions without citation

The structure of the herpes simplex virus DNA-packaging terminase pUL15 nuclease domain suggests an evolutionary lineage among eukaryotic and prokaryotic viruses.
Selvarajan Sigamani et al. (2013)
3 more