› 4poq

X-ray diffraction
2Å resolution

Structure of unliganded VP1 pentamer of Human Polyomavirus 9

Released:
DOI: 10.2210/pdb4poq/pdb
PDB entry 4poq coloured by chain, front view.
PDB entry 4poq coloured by chain, side view.
PDB entry 4poq coloured by chain, top view.
Source organism: Human polyomavirus 9
Primary publication:
Crystallographic and glycan microarray analysis of human polyomavirus 9 VP1 identifies N-glycolyl neuraminic acid as a receptor candidate.
Khan ZM, Liu Y, Neu U, Gilbert M, Ehlers B, Feizi T, Stehle T
J Virol 88 6100-11 (2014)
PMID: 24648448

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-123183 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Capsid protein VP1 Chains: A, B, C, D, E, F, G, H, I, J
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J
Length: 278 amino acids
Theoretical weight: 30.16 KDa
Source organism: Human polyomavirus 9
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: E9NQ90 (Residues: 32-305; Coverage: 74%)
Sequence domains: Polyomavirus coat protein
Structure domains: Capsid protein VP1,Polyomavirus

Ligands and Environments

3 bound ligands:
Ligand CA 10 x CA
Ligand EDO 11 x EDO
Ligand IPA 10 x IPA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P212121
Unit cell:
a: 97.33Å b: 180.09Å c: 199.39Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.198 0.196 0.236
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

9 review citations

Glycan Arrays: From Basic Biochemical Research to Bioanalytical and Biomedical Applications.
Geissner et al. (2016)
8 more

1 mention without citation

Crystallographic and glycan microarray analysis of human polyomavirus 9 VP1 identifies N-glycolyl neuraminic acid as a receptor candidate.
Khan et al. (2014)