4YK4 image
Deposition Date 2015-03-03
Release Date 2015-05-27
Last Version Date 2024-10-30
Entry Detail
PDB ID:
4YK4
Title:
Human antibody 641 I-9 in complex with influenza hemagglutinin H1 Solomon Islands/03/2006
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Influenza A virus (Taxon ID: 464623)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.80 Å
R-Value Free:
0.26
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
C 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Hemagglutinin
Gene (Uniprot):HA
Chain IDs:C (auth: E), F (auth: A)
Chain Length:230
Number of Molecules:2
Biological Source:Influenza A virus
Polymer Type:polypeptide(L)
Molecule:641 I-9 VLCL antibody
Chain IDs:A (auth: Y), D (auth: B)
Chain Length:214
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:641 I-9 VHCH antibody
Chain IDs:B (auth: Z), E (auth: C)
Chain Length:236
Number of Molecules:2
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Viral receptor-binding site antibodies with diverse germline origins.
Cell 161 1026 1034 (2015)
PMID: 25959776 DOI: 10.1016/j.cell.2015.04.028

Abstact

Vaccines for rapidly evolving pathogens will confer lasting immunity if they elicit antibodies recognizing conserved epitopes, such as a receptor-binding site (RBS). From characteristics of an influenza-virus RBS-directed antibody, we devised a signature motif to search for similar antibodies. We identified, from three vaccinees, over 100 candidates encoded by 11 different VH genes. Crystal structures show that antibodies in this class engage the hemagglutinin RBS and mimic binding of the receptor, sialic acid, by supplying a critical dipeptide on their projecting, heavy-chain third complementarity determining region. They share contacts with conserved, receptor-binding residues but contact different residues on the RBS periphery, limiting the likelihood of viral escape when several such antibodies are present. These data show that related modes of RBS recognition can arise from different germline origins and mature through diverse affinity maturation pathways. Immunogens focused on an RBS-directed response will thus have a broad range of B cell targets.

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Primary Citation of related structures