› 6h6y

X-ray diffraction
1.58Å resolution

GI.1 human norovirus protruding domain in complex with Nano-7

Released:
DOI: 10.2210/pdb6h6y/pdb
PDB entry 6h6y coloured by chain, front view.
PDB entry 6h6y coloured by chain, side view.
PDB entry 6h6y coloured by chain, top view.
Source organisms:
Primary publication:
Structural Basis of Nanobodies Targeting the Prototype Norovirus.
Ruoff K, Kilic T, Devant J, Koromyslova A, Ringel A, Hempelmann A, Geiss C, Graf J, Haas M, Roggenbach I, Hansman G
OpenAccess logo J Virol 93 (2019)
PMID: 30602609

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-212534 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Soluble capsid protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 292 amino acids
Theoretical weight: 31.18 KDa
Source organism: Norovirus Hu/1968/US
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q83884 (Residues: 227-518; Coverage: 55%)
Gene name: ORF2
Sequence domains: Calicivirus coat protein C-terminal
Structure domains:
Nanobody (VHH) Nano-7 Chains: E, F, G, H
Molecule details ›
Chains: E, F, G, H
Length: 132 amino acids
Theoretical weight: 14.65 KDa
Source organism: Vicugna pacos
Expression system: Escherichia coli

Ligands and Environments

3 bound ligands:
Ligand NA 10 x NA
Ligand EDO 3 x EDO
Ligand CL 4 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID30B
Spacegroup: P21
Unit cell:
a: 59.17Å b: 140.9Å c: 92.15Å
α: 90° β: 91.81° γ: 90°
R-values:
R R work R free
0.156 0.155 0.175
Expression systems:
  • Escherichia coli BL21(DE3)
  • Escherichia coli

Quick links

Citations

6 review citations

The Dynamic Capsid Structures of the Noroviruses.
Smith et al. (2019)
5 more

2 mentions without citation

Structural Basis of Nanobodies Targeting the Prototype Norovirus.
Ruoff et al. (2019)
1 more