› 2ypg

X-ray diffraction
2.85Å resolution

Haemagglutinin of 1968 Human H3N2 Virus in Complex with Human Receptor Analogue LSTc

Released:
DOI: 10.2210/pdb2ypg/pdb
PDB entry 2ypg coloured by chain, front view.
PDB entry 2ypg coloured by chain, side view.
PDB entry 2ypg coloured by chain, top view.
Source organism: Influenza A virus (A/X-31(H3N2))
Primary publication:
Evolution of the receptor binding properties of the influenza A(H3N2) hemagglutinin.
Lin YP, Xiong X, Wharton SA, Martin SR, Coombs PJ, Vachieri SG, Christodoulou E, Walker PA, Liu J, Skehel JJ, Gamblin SJ, Hay AJ, Daniels RS, McCauley JW
Proc Natl Acad Sci U S A 109 21474-9 (2012)
PMID: 23236176

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-137030 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (8 distinct):
Hemagglutinin HA1 chain Chains: A, C, E
Molecule details ›
Chains: A, C, E
Length: 328 amino acids
Theoretical weight: 36.07 KDa
Source organism: Influenza A virus (A/X-31(H3N2))
UniProt:
  • Canonical: P03437 (Residues: 17-344; Coverage: 60%)
Gene name: HA
Sequence domains: Haemagglutinin
Structure domains: Hemagglutinin (Ha1 Chain); Chain: A; domain 1
Hemagglutinin HA2 chain Chains: B, D, F
Molecule details ›
Chains: B, D, F
Length: 175 amino acids
Theoretical weight: 20.21 KDa
Source organism: Influenza A virus (A/X-31(H3N2))
UniProt:
  • Canonical: P03437 (Residues: 346-520; Coverage: 32%)
Gene name: HA
Sequence domains: Haemagglutinin
Structure domains: Hemagglutinin Ectodomain; Chain B

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUL
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BGC, GAL, SIA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, GAL, SIA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
2 bound ligands:
Ligand NAG 5 x NAG
Ligand FLC 13 x FLC
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P41
Unit cell:
a: 160.767Å b: 160.767Å c: 177.21Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.178 0.177 0.19

Quick links

Citations

25 review citations

Role of receptor binding specificity in influenza A virus transmission and pathogenesis.
de Graaf et al. (2014)
24 more

23 mentions without citation

Viral membrane fusion.
Harrison SC. (2015)
22 more