› 7vp0

X-ray diffraction
2.1Å resolution

Crystal structure of P domain from norovirus GI.9 capsid protein.

Released:
DOI: 10.2210/pdb7vp0/pdb
PDB entry 7vp0 coloured by chain, front view.
PDB entry 7vp0 coloured by chain, side view.
PDB entry 7vp0 coloured by chain, top view.
Source organism: Norovirus Hu/GI/Vancouver730/2004/CAN
Primary publication:
Lewis fucose is a key moiety for the recognition of histo-blood group antigens by GI.9 norovirus, as revealed by structural analysis.
Kimura-Someya T, Kato-Murayama M, Katsura K, Sakai N, Murayama K, Hanada K, Shirouzu M, Someya Y
OpenAccess logo FEBS Open Bio 12 560-570 (2022)
PMID: 35038379

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-123424 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
VP1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 312 amino acids
Theoretical weight: 33.78 KDa
Source organism: Norovirus Hu/GI/Vancouver730/2004/CAN
Expression system: Escherichia coli
UniProt:
  • Canonical: F2XMU3 (Residues: 229-540; Coverage: 57%)
Sequence domains: Calicivirus coat protein C-terminal

Ligands and Environments

1 bound ligand:
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B2
Spacegroup: C2
Unit cell:
a: 170.95Å b: 103.55Å c: 76.91Å
α: 90° β: 116.66° γ: 90°
R-values:
R R work R free
0.239 0.237 0.269
Expression system: Escherichia coli

Quick links

Citations

4 citation in other articles

Lewis b antigen is a common ligand for genogroup I norovirus strains.
Someya Y. (2022)
3 more

1 mention without citation

Lewis fucose is a key moiety for the recognition of histo-blood group antigens by GI.9 norovirus, as revealed by structural analysis.
Kimura-Someya et al. (2022)