› 3r6k

X-ray diffraction
1.6Å resolution

Crystal Structure of the Capsid P Domain from Norwalk Virus Strain Hiroshima/1999 in complex with HBGA type B (triglycan)

Released:
DOI: 10.2210/pdb3r6k/pdb
PDB entry 3r6k coloured by chain, front view.
PDB entry 3r6k coloured by chain, side view.
PDB entry 3r6k coloured by chain, top view.
Source organism: Norwalk-like virus
Primary publication:
Crystal structures of GII.10 and GII.12 norovirus protruding domains in complex with histo-blood group antigens reveal details for a potential site of vulnerability.
Hansman GS, Biertümpfel C, Georgiev I, McLellan JS, Chen L, Zhou T, Katayama K, Kwong PD
J Virol 85 6687-701 (2011)
PMID: 21525337

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176238 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
VP1 protein Chain: A
Molecule details ›
Chain: A
Length: 305 amino acids
Theoretical weight: 33.41 KDa
Source organism: Norwalk-like virus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q54AD6 (Residues: 225-525; Coverage: 56%)
Sequence domains: Calicivirus coat protein C-terminal
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: GAL, FUC, GLA
Carbohydrate polymer
1 bound ligand:
Ligand EDO 2 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-BM
Spacegroup: C2221
Unit cell:
a: 73.388Å b: 100.279Å c: 82.153Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.22 0.219 0.237
Expression system: Escherichia coli BL21(DE3)

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Citations

16 review citations

Histo-blood group antigens: a common niche for norovirus and rotavirus.
Tan et al. (2014)
15 more

5 mentions without citation

Crystal structures of GII.10 and GII.12 norovirus protruding domains in complex with histo-blood group antigens reveal details for a potential site of vulnerability.
Hansman et al. (2011)
4 more