› 4rdk

X-ray diffraction
1.63Å resolution

Crystal structure of Norovirus Boxer P domain in complex with Lewis b tetrasaccharide

Released:
DOI: 10.2210/pdb4rdk/pdb
PDB entry 4rdk coloured by chain, front view.
PDB entry 4rdk coloured by chain, side view.
PDB entry 4rdk coloured by chain, top view.
Source organism: Human calicivirus NLV/Boxer/2001/US
Primary publication:
Crystal structures of GI.8 Boxer virus P dimers in complex with HBGAs, a novel evolutionary path selected by the Lewis epitope.
Hao N, Chen Y, Xia M, Tan M, Liu W, Guan X, Jiang X, Li X, Rao Z
Protein Cell 6 101-16 (2015)
PMID: 25547362

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-183845 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Capsid Chains: A, B
Molecule details ›
Chains: A, B
Length: 308 amino acids
Theoretical weight: 33.76 KDa
Source organism: Human calicivirus NLV/Boxer/2001/US
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q8BCA3 (Residues: 227-526; Coverage: 55%)
Sequence domains: Calicivirus coat protein C-terminal
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NDG, GAL, FUC
Carbohydrate polymer
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-1A
Spacegroup: P61
Unit cell:
a: 139.866Å b: 139.866Å c: 64.789Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.133 0.131 0.166
Expression system: Escherichia coli BL21(DE3)

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Citations

1 review citation

Intracellular metabolic reprogramming mediated by micro-RNAs in differentiating and proliferating cells under non-diseased conditions.
Singh V. (2021)
8 other articles

1 mention without citation

Crystal structures of GI.8 Boxer virus P dimers in complex with HBGAs, a novel evolutionary path selected by the Lewis epitope.
Hao et al. (2015)