› 2i2s

X-ray diffraction
2.3Å resolution

Crystal Structure of the porcine CRW-8 rotavirus VP8* carbohydrate-recognising domain

Released:
DOI: 10.2210/pdb2i2s/pdb
PDB entry 2i2s coloured by chain, front view.
PDB entry 2i2s coloured by chain, side view.
PDB entry 2i2s coloured by chain, top view.
Source organism: Porcine rotavirus
Primary publication:
Insight into host cell carbohydrate-recognition by human and porcine rotavirus from crystal structures of the virion spike associated carbohydrate-binding domain (VP8*).
Blanchard H, Yu X, Coulson BS, von Itzstein M
J Mol Biol 367 1215-26 (2007)
PMID: 17306299

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-143143 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Outer capsid protein VP8* Chains: A, B
Molecule details ›
Chains: A, B
Length: 163 amino acids
Theoretical weight: 18.45 KDa
Source organism: Porcine rotavirus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0C6Y8 (Residues: 64-224; Coverage: 21%)
Sequence domains: Outer Capsid protein VP4 (Hemagglutinin) Concanavalin-like domain
Structure domains: Jelly Rolls

Ligands and Environments

5 bound ligands:
Ligand SO4 2 x SO4
Ligand NA 2 x NA
Ligand MNA 3 x MNA
Ligand MPD 2 x MPD
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM30A
Spacegroup: P212121
Unit cell:
a: 53.929Å b: 64.663Å c: 109.886Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.183 0.163 0.22
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

17 review citations

The sweet spot: defining virus-sialic acid interactions.
Stencel-Baerenwald et al. (2014)
16 more

10 mentions without citation

Structural Basis of Glycan Recognition of Rotavirus.
Sun et al. (2021)
9 more