ISDA: 7B4W

Deposition Date 2020-12-02

Release Date 2021-11-24

Last Version Date 2024-11-13

Entry Detail

PDB ID:

7B4W

Keywords:

DE NOVO PROTEIN

Title:

Broadly neutralizing DARPin bnD.3 in complex with the HIV-1 envelope variable loop 3 crown mimetic peptide V3-IF (BG505)

Biological Source:

Source Organism(s):

synthetic construct (Taxon ID: 32630)

Expression System(s):

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.90 Å

R-Value Free:

0.22

R-Value Work:

0.18

R-Value Observed:

0.18

Space Group:

P 21 21 21

Download Validation Report

Macromolecular Entities

Polymer Type:polypeptide(L)
Molecule:Broadly neutralizing DARPin bnD.3
Chain IDs:A, B (auth: C)
Chain Length:161
Number of Molecules:2
Biological Source:synthetic construct

Polymer Type:polypeptide(L)
Molecule:HIV-1 envelope variable loop 3 crown mimetic peptide V3-IF (BG505)
Chain IDs:C (auth: B), D
Chain Length:15
Number of Molecules:2
Biological Source:synthetic construct

Ligand Molecules

ACT

EDO

Primary Citation

Distinct conformations of the HIV-1 V3 loop crown are targetable for broad neutralization.

Friedrich, N, Stiegeler, E, Glogl, M, Lemmin, T, Hansen, S, Kadelka, C, Wu, Y, Ernst, P, Maliqi, L, Foulkes, C, Morin, M, Eroglu, M, Liechti, T, Ivan, B, Reinberg, T, Schaefer, J.V, Karakus, U, Ursprung, S, Mann, A, Rusert, P, Kouyos, R.D, Robinson, J.A, Gunthard, H.F, Pluckthun, A, Trkola, A.Show

Nat Commun 12 6705 6705 (2021)

PMID: 34795280 DOI: 10.1038/s41467-021-27075-0

Abstact

The V3 loop of the HIV-1 envelope (Env) protein elicits a vigorous, but largely non-neutralizing antibody response directed to the V3-crown, whereas rare broadly neutralizing antibodies (bnAbs) target the V3-base. Challenging this view, we present V3-crown directed broadly neutralizing Designed Ankyrin Repeat Proteins (bnDs) matching the breadth of V3-base bnAbs. While most bnAbs target prefusion Env, V3-crown bnDs bind open Env conformations triggered by CD4 engagement. BnDs achieve breadth by focusing on highly conserved residues that are accessible in two distinct V3 conformations, one of which resembles CCR5-bound V3. We further show that these V3-crown conformations can, in principle, be attacked by antibodies. Supporting this conclusion, analysis of antibody binding activity in the Swiss 4.5 K HIV-1 cohort (n = 4,281) revealed a co-evolution of V3-crown reactivities and neutralization breadth. Our results indicate a role of V3-crown responses and its conformational preferences in bnAb development to be considered in preventive and therapeutic approaches.

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Primary Citation of related structures

Abstact

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