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› 5y2l

X-ray diffraction
2.9Å resolution

Crystal structure of a group 2 HA binding antibody AF4H1K1 Fab in complex with the 1968 H3N2 pandemic (H3-AC/68) hemagglutinin

Released:
DOI: 10.2210/pdb5y2l/pdb
Model geometry
Fit model/data
PDB entry 5y2l coloured by chain, front view.
PDB entry 5y2l coloured by chain, side view.
PDB entry 5y2l coloured by chain, top view.
Source organisms:
Entry authors: Xiao H, Qi J, Gao FG

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-208945 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (5 distinct):
Hemagglutinin HA1 chain Chain: A
Molecule details ›
Chain: A
Length: 329 amino acids
Theoretical weight: 36.22 KDa
Source organism: Influenza A virus (A/Aichi/2/1968(H3N2))
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P03437 (Residues: 17-345; Coverage: 60%)
Gene name: HA
Sequence domains: Haemagglutinin
Structure domains: Hemagglutinin (Ha1 Chain); Chain: A; domain 1
Hemagglutinin HA2 chain Chain: B
Molecule details ›
Chain: B
Length: 176 amino acids
Theoretical weight: 20.31 KDa
Source organism: Influenza A virus (A/Aichi/2/1968(H3N2))
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P03437 (Residues: 346-521; Coverage: 32%)
Gene name: HA
Sequence domains: Haemagglutinin
Structure domains: Hemagglutinin Ectodomain; Chain B
a group 2 HA binding antibody AF4H1K1 Fab heavy chain Chain: I
a group 2 HA binding antibody AF4H1K1 Fab light chain Chain: J

Ligands and Environments

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

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SSRF BEAMLINE BL17U1
Spacegroup: R32
Unit cell:
a: 157.482Å b: 157.482Å c: 355.344Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.214 0.212 0.244
Expression systems:
  • Trichoplusia ni
  • Homo sapiens

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