9DMF image
Deposition Date 2024-09-13
Release Date 2025-07-23
Last Version Date 2025-07-23
Entry Detail
PDB ID:
9DMF
Keywords:
Title:
Crystal structure of LJF-0085 Fab, a non-human primate antibody targets HIV-1 envelope protein
Biological Source:
Source Organism:
Macaca mulatta (Taxon ID: 9544)
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.48 Å
R-Value Free:
0.19
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:LJF-0085 Fab heavy chain
Chain IDs:A (auth: H)
Chain Length:227
Number of Molecules:1
Biological Source:Macaca mulatta
Polymer Type:polypeptide(L)
Molecule:LJF-0085 Fab light chain
Chain IDs:B (auth: L)
Chain Length:214
Number of Molecules:1
Biological Source:Macaca mulatta
Primary Citation
Vaccination of nonhuman primates elicits a broadly neutralizing antibody lineage targeting a quaternary epitope on the HIV-1 Env trimer.
Immunity 58 1598 1613.e8 (2025)
PMID: 40339576 DOI: 10.1016/j.immuni.2025.04.010

Abstact

The elicitation of cross-neutralizing antibodies to the HIV-1 envelope glycoprotein (Env) by vaccination remains a major challenge. Here, we immunized previously Env-immunized nonhuman primates with a series of near-native trimers that possessed N-glycan deletions proximal to the conserved CD4 binding site (CD4bs) to focus B cells to this region. Following heterologous boosting with fully glycosylated trimers, we detected tier 2 cross-neutralizing activity in the serum of several animals. Isolation of 185 matched heavy- and light-chain sequences from Env-binding memory B cells from an early responder identified a broadly neutralizing antibody lineage, LJF-0034, which neutralized nearly 70% of an 84-member HIV-1 global panel. High-resolution cryoelectron microscopy (cryo-EM) structures revealed a bifurcated binding mode that bridged the CD4bs to V3 across the gp120:120 interface on two adjacent protomers, evading the proximal N276 glycan impediment to the CD4bs, allowing neutralization breadth. This quaternary epitope defines a potential target for future HIV-1 vaccine development.

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Primary Citation of related structures
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