› 5w6g

X-ray diffraction
2.79Å resolution

Human antibody 6649 in complex with influenza hemagglutinin H1 Solomon Islands

Released:
DOI: 10.2210/pdb5w6g/pdb
PDB entry 5w6g coloured by chain, front view.
PDB entry 5w6g coloured by chain, side view.
PDB entry 5w6g coloured by chain, top view.
Source organisms:
Primary publication:
Conserved epitope on influenza-virus hemagglutinin head defined by a vaccine-induced antibody.
Raymond DD, Bajic G, Ferdman J, Suphaphiphat P, Settembre EC, Moody MA, Schmidt AG, Harrison SC
Proc Natl Acad Sci U S A 115 168-173 (2018)
PMID: 29255041

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-108413 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (5 distinct):
Hemagglutinin HA1 chain Chain: A
Molecule details ›
Chain: A
Length: 334 amino acids
Theoretical weight: 37.24 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: 178 amino acids
Theoretical weight: 20.36 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: H
Molecule details ›
Chain: H
Length: 230 amino acids
Theoretical weight: 24.79 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: S6B2B6 (Residues: 20-130, 131-250; Coverage: 89%)
Sequence domains:
Structure domains: Immunoglobulins
Ig-like domain-containing protein Chain: L
Molecule details ›
Chain: L
Length: 218 amino acids
Theoretical weight: 22.9 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q6GMX4 (Residues: 20-118, 119-236; Coverage: 100%)
Gene name: IGL@
Sequence domains:
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
3 bound ligands:
Ligand NAG 4 x NAG
Ligand SO4 6 x SO4
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P213
Unit cell:
a: 177.31Å b: 177.31Å c: 177.31Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.22 0.218 0.253
Expression systems:
  • Trichoplusia ni
  • Homo sapiens

Quick links

Citations

29 review citations

A guide to vaccinology: from basic principles to new developments.
Pollard et al. (2021)
28 more

6 mentions without citation

Conserved epitope on influenza-virus hemagglutinin head defined by a vaccine-induced antibody.
Raymond et al. (2018)
5 more