3U7Y image
Deposition Date 2011-10-14
Release Date 2011-11-16
Last Version Date 2024-11-20
Entry Detail
PDB ID:
3U7Y
Title:
Structure of NIH45-46 Fab in complex with gp120 of 93TH057 HIV
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.45 Å
R-Value Free:
0.25
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Envelope glycoprotein gp160
Mutations:V65C, S115C
Chain IDs:B (auth: G)
Chain Length:361
Number of Molecules:1
Biological Source:Human immunodeficiency virus 1
Polymer Type:polypeptide(L)
Molecule:NIH45-46 heavy chain, Ig gamma-1 chain C region
Gene (Uniprot):IGHG1
Chain IDs:A (auth: H)
Chain Length:229
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:NIH45-46 light chain, Ig kappa chain C region
Gene (Uniprot):IGKC
Chain IDs:C (auth: L)
Chain Length:210
Number of Molecules:1
Biological Source:Homo sapiens
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
ASN B ASN GLYCOSYLATION SITE
PCA A GLN PYROGLUTAMIC ACID
Primary Citation
Increasing the Potency and Breadth of an HIV Antibody by Using Structure-Based Rational Design.
Science 334 1289 1293 (2011)
PMID: 22033520 DOI: 10.1126/science.1213782

Abstact

Antibodies against the CD4 binding site (CD4bs) on the HIV-1 spike protein gp120 can show exceptional potency and breadth. We determined structures of NIH45-46, a more potent clonal variant of VRC01, alone and bound to gp120. Comparisons with VRC01-gp120 revealed that a four-residue insertion in heavy chain complementarity-determining region 3 (CDRH3) contributed to increased interaction between NIH45-46 and the gp120 inner domain, which correlated with enhanced neutralization. We used structure-based design to create NIH45-46(G54W), a single substitution in CDRH2 that increases contact with the gp120 bridging sheet and improves breadth and potency, critical properties for potential clinical use, by an order of magnitude. Together with the NIH45-46-gp120 structure, these results indicate that gp120 inner domain and bridging sheet residues should be included in immunogens to elicit CD4bs antibodies.

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Primary Citation of related structures