5F9O image
Deposition Date 2015-12-10
Release Date 2016-03-16
Last Version Date 2024-10-16
Entry Detail
PDB ID:
5F9O
Keywords:
Title:
Crystal structure of broadly neutralizing VH1-46 germline-derived CD4-binding site-directed antibody CH235.09 in complex with HIV-1 clade A/E 93TH057 gp120
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.86 Å
R-Value Free:
0.22
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 21 21 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:clade A/E 93TH057 HIV-1 gp120 core
Gene (Uniprot):HIV-1 Env
Chain IDs:A (auth: G)
Chain Length:352
Number of Molecules:1
Biological Source:Human immunodeficiency virus 1
Polymer Type:polypeptide(L)
Molecule:CH235.9 Heavy chain
Chain IDs:B (auth: H)
Chain Length:234
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:CH235.09 Light chain
Chain IDs:C (auth: L)
Chain Length:213
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation

Abstact

Antibodies with ontogenies from VH1-2 or VH1-46-germline genes dominate the broadly neutralizing response against the CD4-binding site (CD4bs) on HIV-1. Here, we define with longitudinal sampling from time-of-infection the development of a VH1-46-derived antibody lineage that matured to neutralize 90% of HIV-1 isolates. Structures of lineage antibodies CH235 (week 41 from time-of-infection, 18% breadth), CH235.9 (week 152, 77%), and CH235.12 (week 323, 90%) demonstrated the maturing epitope to focus on the conformationally invariant portion of the CD4bs. Similarities between CH235 lineage and five unrelated CD4bs lineages in epitope focusing, length-of-time to develop breadth, and extraordinary level of somatic hypermutation suggested commonalities in maturation among all CD4bs antibodies. Fortunately, the required CH235-lineage hypermutation appeared substantially guided by the intrinsic mutability of the VH1-46 gene, which closely resembled VH1-2. We integrated our CH235-lineage findings with a second broadly neutralizing lineage and HIV-1 co-evolution to suggest a vaccination strategy for inducing both lineages.

Legend

Protein

Chemical

Disease

Primary Citation of related structures