› 4pcg

X-ray diffraction
1.8Å resolution

Structure of Human Polyomavirus 6 (HPyV6) VP1 pentamer

Released:
DOI: 10.2210/pdb4pcg/pdb
PDB entry 4pcg coloured by chain, front view.
PDB entry 4pcg coloured by chain, side view.
PDB entry 4pcg coloured by chain, top view.
Source organism: Human polyomavirus 6
Primary publication:
Structure analysis of the major capsid proteins of human polyomaviruses 6 and 7 reveals an obstructed sialic acid binding site.
Ströh LJ, Neu U, Blaum BS, Buch MH, Garcea RL, Stehle T
J Virol 88 10831-9 (2014)
PMID: 25008942

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-112800 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
VP1 Chains: A, B, C, D, E
Molecule details ›
Chains: A, B, C, D, E
Length: 276 amino acids
Theoretical weight: 29.69 KDa
Source organism: Human polyomavirus 6
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: D6QWI0 (Residues: 21-292; Coverage: 70%)
Sequence domains: Polyomavirus coat protein
Structure domains: Capsid protein VP1,Polyomavirus

Ligands and Environments

2 bound ligands:
Ligand SCN 13 x SCN
Ligand NA 7 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: C2
Unit cell:
a: 183.9Å b: 89.44Å c: 125.27Å
α: 90° β: 131.26° γ: 90°
R-values:
R R work R free
0.149 0.148 0.174
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

6 review citations

Metabolic Glycoengineering with N-Acyl Side Chain Modified Mannosamines.
Wratil et al. (2016)
5 more

1 mention without citation

Structure analysis of the major capsid proteins of human polyomaviruses 6 and 7 reveals an obstructed sialic acid binding site.
Ströh et al. (2014)