› 5ug0

X-ray diffraction
3.4Å resolution

Human antibody H2897 in complex with influenza hemagglutinin H1 Solomon Islands/03/2006

Released:
DOI: 10.2210/pdb5ug0/pdb
PDB entry 5ug0 coloured by chain, front view.
PDB entry 5ug0 coloured by chain, side view.
PDB entry 5ug0 coloured by chain, top view.
Source organisms:
Primary publication:
CryoEM Structure of an Influenza Virus Receptor-Binding Site Antibody-Antigen Interface.
Liu Y, Pan J, Jenni S, Raymond DD, Caradonna T, Do KT, Schmidt AG, Harrison SC, Grigorieff N
J Mol Biol 429 1829-1839 (2017)
PMID: 28506635

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dodecamer (preferred)
PDBe Complex ID:
PDB-CPX-108414 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (6 distinct):
Hemagglutinin HA1 chain Chain: A
Molecule details ›
Chain: A
Length: 327 amino acids
Theoretical weight: 36.51 KDa
Source organism: Influenza A virus (A/Solomon Islands/3/2006(H1N1))
Expression system: Trichoplusia ni
UniProt:
  • Canonical: A7UPX0 (Residues: 18-343; Coverage: 58%)
Gene name: HA
Sequence domains: Haemagglutinin
Structure domains:
Hemagglutinin HA2 chain Chain: B
Molecule details ›
Chain: B
Length: 182 amino acids
Theoretical weight: 20.82 KDa
Source organism: Influenza A virus (A/Solomon Islands/3/2006(H1N1))
Expression system: Trichoplusia ni
UniProt:
  • Canonical: A7UPX0 (Residues: 344-519; Coverage: 31%)
Gene name: HA
Sequence domains: Haemagglutinin
Structure domains: Hemagglutinin Ectodomain; Chain B
Ig-like domain-containing protein Chain: C
Molecule details ›
Chain: C
Length: 216 amino acids
Theoretical weight: 23.53 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q6PIL8 (Residues: 21-236; Coverage: 100%)
Gene name: IGK@
Sequence domains:
Structure domains: Immunoglobulins
Ig-like domain-containing protein Chain: D
Molecule details ›
Chain: D
Length: 232 amino acids
Theoretical weight: 24.54 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q6N089 (Residues: 20-117, 118-121, 122-247; Coverage: 50%)
Gene name: DKFZp686P15220
Sequence domains:
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand NAG 5 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P321
Unit cell:
a: 142.2Å b: 142.2Å c: 200.41Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.242 0.24 0.278
Expression systems:
  • Trichoplusia ni
  • Homo sapiens

Quick links

Citations

5 review citations

Hemagglutinin Structure and Activities.
Gamblin et al. (2021)
4 more

5 mentions without citation

Structural analysis of glycoproteins: building N-linked glycans with Coot.
Emsley et al. (2018)
4 more