› 5lkc

X-ray diffraction
1.81Å resolution

Protruding domain of GII.17 norovirus Kawasaki308 in complex with HBGA type A (triglycan)

Released:
DOI: 10.2210/pdb5lkc/pdb
PDB entry 5lkc coloured by chain, front view.
PDB entry 5lkc coloured by chain, side view.
PDB entry 5lkc coloured by chain, top view.
Source organism: Norovirus GII
Primary publication:
Human norovirus inhibition by a human milk oligosaccharide.
Koromyslova A, Tripathi S, Morozov V, Schroten H, Hansman GS
Virology 508 81-89 (2017)
PMID: 28505592

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-101223 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Capsid protein VP1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 308 amino acids
Theoretical weight: 34.32 KDa
Source organism: Norovirus GII
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A0E4B1P1 (Residues: 225-530; Coverage: 57%)
Gene name: VP1
Sequence domains: Calicivirus coat protein C-terminal
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: GLA, FUC, A2G
Carbohydrate polymer
2 bound ligands:
Ligand EDO 4 x EDO
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P212121
Unit cell:
a: 75.87Å b: 86.73Å c: 97.44Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.154 0.153 0.183
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

22 review citations

Mother's Milk: A Purposeful Contribution to the Development of the Infant Microbiota and Immunity.
Le Doare et al. (2018)
21 more

4 mentions without citation

Emergence of Novel Human Norovirus GII.17 Strains Correlates With Changes in Blockade Antibody Epitopes.
Lindesmith et al. (2017)
3 more