6OKQ image
Deposition Date 2019-04-14
Release Date 2019-06-05
Last Version Date 2024-11-13
Entry Detail
PDB ID:
6OKQ
Keywords:
Title:
Crystal structure of the SF12 Fab
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.20 Å
R-Value Free:
0.29
R-Value Work:
0.27
R-Value Observed:
0.27
Space Group:
P 62 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:SF12 Fab Heavy Chain,SF12 Fab Heavy Chain
Chain IDs:A, D, F
Chain Length:242
Number of Molecules:3
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:SF12 Fab Light Chain,SF12 Fab Light Chain
Chain IDs:B, C, E
Chain Length:211
Number of Molecules:3
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation

Abstact

Broadly neutralizing antibodies (bNAbs) against HIV-1 envelope (Env) inform vaccine design and are potential therapeutic agents. We identified SF12 and related bNAbs with up to 62% neutralization breadth from an HIV-infected donor. SF12 recognized a glycan-dominated epitope on Env's silent face and was potent against clade AE viruses, which are poorly covered by V3-glycan bNAbs. A 3.3Å cryo-EM structure of a SF12-Env trimer complex showed additional contacts to Env protein residues by SF12 compared with VRC-PG05, the only other known donor-derived silentface antibody, explaining SF12's increased neutralization breadth, potency, and resistance to Env mutation routes. Asymmetric binding of SF12 was associated with distinct N-glycan conformations across Env protomers, demonstrating intra-Env glycan heterogeneity. Administrating SF12 to HIV-1-infected humanized mice suppressed viremia and selected for viruses lacking the N448gp120 glycan. Effective bNAbs can therefore be raised against HIV-1 Env's silent face, suggesting their potential for HIV-1 prevention, therapy, and vaccine development.

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Primary Citation of related structures