6O3D image
Entry Detail
PDB ID:
6O3D
Keywords:
Title:
Crystal structure of the unbound Fab fragment of the human HIV-1 neutralizing antibody PGZL1.
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2019-02-26
Release Date:
2019-12-04
Method Details:
Experimental Method:
Resolution:
1.40 Å
R-Value Free:
0.18
R-Value Work:
0.14
R-Value Observed:
0.14
Space Group:
C 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:PGZL1 FAB HEAVY CHAIN
Chain IDs:B (auth: H)
Chain Length:227
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:PGZL1 FAB LIGHT CHAIN
Chain IDs:A (auth: L)
Chain Length:215
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
An MPER antibody neutralizes HIV-1 using germline features shared among donors.
Nat Commun 10 5389 5389 (2019)
PMID: 31772165 DOI: 10.1038/s41467-019-12973-1

Abstact

The membrane-proximal external region (MPER) of HIV-1 envelope glycoprotein (Env) can be targeted by neutralizing antibodies of exceptional breadth. MPER antibodies usually have long, hydrophobic CDRH3s, lack activity as inferred germline precursors, are often from the minor IgG3 subclass, and some are polyreactive, such as 4E10. Here we describe an MPER broadly neutralizing antibody from the major IgG1 subclass, PGZL1, which shares germline V/D-region genes with 4E10, has a shorter CDRH3, and is less polyreactive. A recombinant sublineage variant pan-neutralizes a 130-isolate panel at 1.4 μg/ml (IC50). Notably, a germline revertant with mature CDR3s neutralizes 12% of viruses and still binds MPER after DJ reversion. Crystal structures of lipid-bound PGZL1 variants and cryo-EM reconstruction of an Env-PGZL1 complex reveal how these antibodies recognize MPER and viral membrane. Discovery of common genetic and structural elements among MPER antibodies from different patients suggests that such antibodies could be elicited using carefully designed immunogens.

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Primary Citation of related structures