› 5cpw

X-ray diffraction
1.75Å resolution

Crystal structure of murine polyomavirus PTA strain VP1 in complex with the GT1a glycan

Released:
DOI: 10.2210/pdb5cpw/pdb
PDB entry 5cpw coloured by chain, front view.
PDB entry 5cpw coloured by chain, side view.
PDB entry 5cpw coloured by chain, top view.
Source organism: Mus musculus polyomavirus 1
Primary publication:
Structural and Functional Analysis of Murine Polyomavirus Capsid Proteins Establish the Determinants of Ligand Recognition and Pathogenicity.
Buch MH, Liaci AM, O'Hara SD, Garcea RL, Neu U, Stehle T
PLoS Pathog 11 e1005104 (2015)
PMID: 26474293

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-155915 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Capsid protein VP1 Chains: A, B, C, D, E
Molecule details ›
Chains: A, B, C, D, E
Length: 284 amino acids
Theoretical weight: 31.63 KDa
Source organism: Mus musculus polyomavirus 1
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P49302 (Residues: 34-317; Coverage: 74%)
Sequence domains: Polyomavirus coat protein
Structure domains: Capsid protein VP1,Polyomavirus

Ligands and Environments

Carbohydrate polymer : NEW Components: GAL, NGA, SIA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: GAL, NGA, SIA
Carbohydrate polymer
1 bound ligand:
Ligand GOL 8 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: P3121
Unit cell:
a: 219.6Å b: 219.6Å c: 99.74Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.161 0.16 0.181
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

5 review citations

Virus interactions with bacteria: Partners in the infectious dance.
Neu et al. (2020)
4 more

1 mention without citation

Structural and Functional Analysis of Murine Polyomavirus Capsid Proteins Establish the Determinants of Ligand Recognition and Pathogenicity.
Buch et al. (2015)