Crystal structure of influenza hemagglutinin (H5) in complex with a broadly neutralizing antibody F10


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B-Cell Epitope
Epitope  
   
Complex PDB ID 3FKU
Accession Number 3DIEP0262
IEDB ID 99799
Epitope Sequence H24; H44; Q46; S304; M305; V364; D365; G366; W367; K384; T387; Q388; I391; T395; V398; N399; I402
Starting Position24,44,46,304-305,364-367,384,387-388,391,395,398-399,402
Ending Position402
Epitope Type Discontinuous Epitope

Assay Information  
Assay Antigen hemagglutinin Influenza A virus (A/Viet Nam/1203/2004(H5N1))
PDB CategoryVIRAL PROTEIN/IMMUNE SYSTEM
Keyword influenza; hemagglutinin; neutralizing antibody; scFv; H5; F10; Cell membrane; Envelope protein; Fusion protein; Membrane; Transmembrane; Virion; Cleavage on pair of basic residues; Glycoprotein; Lipoprotein; Palmitate; VIRAL PROTEIN; VIRAL PROTEIN/IMMUNE SYSTEM COMPLEX
Antibody Residues Interacting with Antigen Open in new window      Download dimplot pdb file
Antibody Chain 1 PDB Chain Y
Antigen PDB ChainA
Contact Area for Antigen 635.4
Contact Area for Antibody688.9
CommentsOnly the Ab heavy chain (VH) participates directly in binding; using all three of its complementarity-determining regions (CDRs). The light chain (VL) points out into solution and makes only nonspecific contacts with the distal end of the oligosaccharide of glycosylated residue Asn331 from a neighboring monomer. The epitope on H5 encompasses the entire pocket; which is formed by the HA2 fusion peptide flanked by elements of HA1 on one side and helix aA of HA2 on the other.


Experimental Details
Method
X-RAY DIFFRACTION
Resolution
3.2
R-Value
0.23461
Space Group
C 1 2 1
Unit Cell
Length(Å) Angle(°)
a = 205.3 α = 90
b = 118.5 β = 99.6
c = 338.9 γ = 90



Source Information  
Structure Determination Method X-RAY DIFFRACTION
Host OrganismSpodoptera frugiperda
Host Organism Strainsf9
Host Taxonomic ID 7108
PlasmidpAcGP67A
  
Host OrganismSpodoptera frugiperda
Host Organism Strainsf9
Host Taxonomic ID 7108
PlasmidpAcGP67A
  
Host OrganismEscherichia coli Host Taxonomic ID 562 PlasmidpSyn I
  

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