› 3s12

X-ray diffraction
3.1Å resolution

Crystal structure of H5N1 influenza virus hemagglutinin, strain YU562 crystal form 1

Released:
DOI: 10.2210/pdb3s12/pdb
PDB entry 3s12 coloured by chain, front view.
PDB entry 3s12 coloured by chain, side view.
PDB entry 3s12 coloured by chain, top view.
Source organism: Influenza A virus (A/chicken/Hong Kong/YU562/2001(H5N1))
Primary publication:
Acid stability of the hemagglutinin protein regulates H5N1 influenza virus pathogenicity.
DuBois RM, Zaraket H, Reddivari M, Heath RJ, White SW, Russell CJ
PLoS Pathog 7 e1002398 (2011)
PMID: 22144894

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-182337 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Hemagglutinin HA1 chain Chain: A
Molecule details ›
Chain: A
Length: 336 amino acids
Theoretical weight: 37.78 KDa
Source organism: Influenza A virus (A/chicken/Hong Kong/YU562/2001(H5N1))
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q80A30 (Residues: 6-328; Coverage: 59%)
Gene name: HA
Sequence domains: Haemagglutinin
Structure domains:
Hemagglutinin HA2 chain Chain: B
Molecule details ›
Chain: B
Length: 182 amino acids
Theoretical weight: 20.94 KDa
Source organism: Influenza A virus (A/chicken/Hong Kong/YU562/2001(H5N1))
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q80A30 (Residues: 336-511; Coverage: 32%)
Gene name: HA
Sequence domains: Haemagglutinin
Structure domains: Hemagglutinin Ectodomain; Chain B

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand SO4 2 x SO4
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-BM
Spacegroup: P321
Unit cell:
a: 112.552Å b: 112.552Å c: 134.689Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.219 0.217 0.264
Expression system: Spodoptera frugiperda

Quick links

Citations

18 review citations

Receptor binding and pH stability - how influenza A virus hemagglutinin affects host-specific virus infection.
Mair et al. (2014)
17 more

3 mentions without citation

Antibodies to combat viral infections: development strategies and progress.
Pantaleo et al. (2022)
2 more