› 5zvc

X-ray diffraction
1.8Å resolution

P domain of GII.13 norovirus capsid complexed with Lewis A trisaccharide

Released:
DOI: 10.2210/pdb5zvc/pdb
PDB entry 5zvc coloured by chain, front view.
PDB entry 5zvc coloured by chain, side view.
PDB entry 5zvc coloured by chain, top view.
Source organism: Norovirus Hu/GII.13/10N4598/2010/NP
Primary publication:
Structural Adaptations of Norovirus GII.17/13/21 Lineage through Two Distinct Evolutionary Paths.
Qian Y, Song M, Jiang X, Xia M, Meller J, Tan M, Chen Y, Li X, Rao Z
J Virol 93 (2019)
PMID: 30333166

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-101133 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Major capsid protein VP1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 317 amino acids
Theoretical weight: 34.69 KDa
Source organism: Norovirus Hu/GII.13/10N4598/2010/NP
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0D6CBA8 (Residues: 222-538; Coverage: 59%)
Sequence domains: Calicivirus coat protein C-terminal
Structure domains:

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: P212121
Unit cell:
a: 67.23Å b: 82.618Å c: 116.142Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.157 0.154 0.201
Expression system: Escherichia coli

Quick links

Citations

10 citation in other articles

Porcine reproductive and respiratory syndrome virus infection induces endoplasmic reticulum stress, facilitates virus replication, and contributes to autophagy and apoptosis.
Chen et al. (2020)
9 more

1 mention without citation

Structural Adaptations of Norovirus GII.17/13/21 Lineage through Two Distinct Evolutionary Paths.
Qian et al. (2019)