6OKP image
Deposition Date 2019-04-14
Release Date 2019-06-05
Last Version Date 2024-10-16
Entry Detail
PDB ID:
6OKP
Title:
B41 SOSIP.664 in complex with the silent-face antibody SF12 and V3-targeting antibody 10-1074
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.28 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Envelope glycoprotein gp41
Gene (Uniprot):env
Chain IDs:A, B, C
Chain Length:153
Number of Molecules:3
Biological Source:Human immunodeficiency virus 1
Polymer Type:polypeptide(L)
Molecule:Envelope glycoprotein gp120
Gene (Uniprot):env
Chain IDs:D, E, F
Chain Length:516
Number of Molecules:3
Biological Source:Human immunodeficiency virus 1
Polymer Type:polypeptide(L)
Molecule:10-1074 Heavy Chain,10-1074 Heavy Chain
Chain IDs:G (auth: K)
Chain Length:244
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:10-1074 Light Chain,10-1074 Light Chain
Gene (Uniprot):IGL@
Chain IDs:H (auth: L)
Chain Length:214
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:SF12 Heavy Chain,SF12 Heavy Chain
Chain IDs:I (auth: M), K (auth: O), M (auth: Q)
Chain Length:241
Number of Molecules:3
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:SF12 Light Chain,SF12 Light Chain
Gene (Uniprot):IGKC
Chain IDs:J (auth: N), L (auth: P), N (auth: R)
Chain Length:212
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.

Legend

Protein

Chemical

Disease

Primary Citation of related structures