4YE4 image
Deposition Date 2015-02-23
Release Date 2015-07-22
Last Version Date 2024-11-13
Entry Detail
PDB ID:
4YE4
Title:
Crystal Structure of Neutralizing Antibody HJ16 in Complex with HIV-1 gp120
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.72 Å
R-Value Free:
0.24
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
I 2 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:HT593.1 gp120
Chain IDs:A (auth: G)
Chain Length:356
Number of Molecules:1
Biological Source:Human immunodeficiency virus
Polymer Type:polypeptide(L)
Molecule:Heavy chain human antibody HJ16
Chain IDs:B (auth: H)
Chain Length:228
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Light chain of HJ16
Chain IDs:C (auth: L)
Chain Length:218
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation

Abstact

The site on the HIV-1 gp120 glycoprotein that binds the CD4 receptor is recognized by broadly reactive antibodies, several of which neutralize over 90% of HIV-1 strains. To understand how antibodies achieve such neutralization, we isolated CD4-binding-site (CD4bs) antibodies and analyzed 16 co-crystal structures -8 determined here- of CD4bs antibodies from 14 donors. The 16 antibodies segregated by recognition mode and developmental ontogeny into two types: CDR H3-dominated and VH-gene-restricted. Both could achieve greater than 80% neutralization breadth, and both could develop in the same donor. Although paratope chemistries differed, all 16 gp120-CD4bs antibody complexes showed geometric similarity, with antibody-neutralization breadth correlating with antibody-angle of approach relative to the most effective antibody of each type. The repertoire for effective recognition of the CD4 supersite thus comprises antibodies with distinct paratopes arrayed about two optimal geometric orientations, one achieved by CDR H3 ontogenies and the other achieved by VH-gene-restricted ontogenies.

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Primary Citation of related structures