› 2yp5

X-ray diffraction
1.79Å resolution

Haemagglutinin of 2004 Human H3N2 Virus in Complex with Avian Receptor Analogue 3SLN

Released:
DOI: 10.2210/pdb2yp5/pdb
PDB entry 2yp5 coloured by chain, front view.
PDB entry 2yp5 coloured by chain, side view.
PDB entry 2yp5 coloured by chain, top view.
Source organism: Influenza A virus (A/Finland/486/2004 (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:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-125588 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (4 distinct):
Hemagglutinin Chain: A
Molecule details ›
Chain: A
Length: 503 amino acids
Theoretical weight: 56.46 KDa
Source organism: Influenza A virus (A/Finland/486/2004 (H3N2))
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: K7N5L2 (Residues: 1-503; Coverage: 100%)
Gene name: HA
Sequence domains: Haemagglutinin
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: GAL, SIA
Carbohydrate polymer
3 bound ligands:
Ligand NAG 5 x NAG
Ligand EPE 3 x EPE
Ligand TAM 1 x TAM
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: R32
Unit cell:
a: 100.86Å b: 100.86Å c: 386.53Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.173 0.172 0.196
Expression system: Spodoptera frugiperda

Quick links

Citations

28 review citations

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

3 mentions without citation

New insights into influenza A specificity: an evolution of paradigms.
Ji et al. (2017)
2 more