9DS2 image
Entry Detail
PDB ID:
9DS2
Title:
Crystal structure of 346-54 Fab in complex with H1 HA from A/California/04/2009(H1N1)
Biological Source:
Host Organism:
PDB Version:
Deposition Date:
2024-09-26
Release Date:
2025-03-19
Method Details:
Experimental Method:
Resolution:
3.29 Å
R-Value Free:
0.27
R-Value Work:
0.24
R-Value Observed:
0.24
Space Group:
I 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Hemagglutinin HA1 chai
Chain IDs:A (auth: C), C (auth: A), E
Chain Length:328
Number of Molecules:3
Biological Source:Influenza A virus
Polymer Type:polypeptide(L)
Description:Hemagglutinin HA2 chain
Chain IDs:B (auth: D), D (auth: B), F
Chain Length:175
Number of Molecules:3
Biological Source:Influenza A virus
Polymer Type:polypeptide(L)
Description:346-54, Heavy chain
Chain IDs:G, I (auth: H), K
Chain Length:229
Number of Molecules:3
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:346-54, Light chain
Chain IDs:H (auth: I), J, L
Chain Length:215
Number of Molecules:3
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