9DM0 image
Entry Detail
PDB ID:
9DM0
EMDB ID:
Keywords:
Title:
Cryo-EM structure of the SFV009 3G01 Fab in complex with A/California/04/2009
Biological Source:
PDB Version:
Deposition Date:
2024-09-11
Release Date:
2025-02-19
Method Details:
Experimental Method:
Resolution:
2.90 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Hemagglutinin
Chain IDs:C (auth: A), E, G (auth: F)
Chain Length:324
Number of Molecules:3
Biological Source:Influenza A virus (A/California/04/2009(H1N1))
Polymer Type:polypeptide(L)
Description:Hemagglutinin
Chain IDs:D (auth: B), F (auth: G), H (auth: I)
Chain Length:231
Number of Molecules:3
Biological Source:Influenza A virus (A/California/04/2009(H1N1))
Polymer Type:polypeptide(L)
Description:Fab heavy chain
Chain IDs:B (auth: C)
Chain Length:122
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Fab light chain
Chain IDs:A (auth: D)
Chain Length:108
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Structurally convergent antibodies derived from different vaccine strategies target the influenza virus HA anchor epitope with a subset of V H 3 and V K 3 genes.
Nat Commun 16 1268 1268 (2025)
PMID: 39894881 DOI: 10.1038/s41467-025-56496-4

Abstact

H1N1 influenza viruses are responsible for both seasonal and pandemic influenza. The continual antigenic shift and drift of these viruses highlight the urgent need for a universal influenza vaccine to elicit broadly neutralizing antibodies (bnAbs). Identification and characterization of bnAbs elicited in natural infection and immunization to influenza virus hemagglutinin (HA) can provide insights for development of a universal influenza vaccine. Here, we structurally and biophysically characterize four antibodies that bind to a conserved region on the HA membrane-proximal region known as the anchor epitope. Despite some diversity in their VH and VK genes, the antibodies interact with the HA through germline-encoded residues in HCDR2 and LCDR3. Somatic mutations on HCDR3 also contribute hydrophobic interactions with the conserved HA epitope. This convergent binding mode provides extensive neutralization breadth against H1N1 viruses and suggests possible countermeasures against H1N1 viruses.

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Primary Citation of related structures