› 4yg3

X-ray diffraction
2.28Å resolution

Structural basis of glycan recognition in neonate-specific rotaviruses

Released:
DOI: 10.2210/pdb4yg3/pdb
PDB entry 4yg3 coloured by chain, front view.
PDB entry 4yg3 coloured by chain, side view.
PDB entry 4yg3 coloured by chain, top view.
Source organism: Rotavirus A RVA/Cow-tc/USA/B223/1983/G10P[11]
Primary publication:
Structural basis of glycan specificity in neonate-specific bovine-human reassortant rotavirus.
Hu L, Ramani S, Czako R, Sankaran B, Yu Y, Smith DF, Cummings RD, Estes MK, Venkataram Prasad BV
Nat Commun 6 8346 (2015)
PMID: 26420502

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-106968 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Outer capsid protein VP8* Chain: A
Molecule details ›
Chain: A
Length: 163 amino acids
Theoretical weight: 18.06 KDa
Source organism: Rotavirus A RVA/Cow-tc/USA/B223/1983/G10P[11]
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A2T3T2 (Residues: 65-172, 173-184, 185-197, 198-224; Coverage: 20%)
Sequence domains: Outer Capsid protein VP4 (Hemagglutinin) Concanavalin-like domain
Structure domains: Jelly Rolls

Ligands and Environments

1 bound ligand:
Ligand SO4 3 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.1
Spacegroup: P21
Unit cell:
a: 28.812Å b: 64.734Å c: 36.752Å
α: 90° β: 114.87° γ: 90°
R-values:
R R work R free
0.187 0.184 0.242
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

9 review citations

Diversity in Rotavirus-Host Glycan Interactions: A "Sweet" Spectrum.
Ramani et al. (2016)
8 more

2 mentions without citation

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