SNAP output for PDB entry 8cx1 [SNAP web server]

PDB-id

8cx1; SNAP-derived features in text and JSON formats; DNAproDB

Class

viral protein-immune system-RNA

Method

cryo-EM (3.3 Å)

Summary

cryo-EM structure of human apobec3g-hiv-1 vif-cbfbeta-elob-eloc dimeric complex in state 1

Reference

Li YL, Langley CA, Azumaya CM, Echeverria I, Chesarino NM, Emerman M, Cheng Y, Gross JD (2023): "The structural basis for HIV-1 Vif antagonism of human APOBEC3G." Nature, 615, 728-733. doi: 10.1038/s41586-023-05779-1.

Abstract

The APOBEC3 (A3) proteins are host antiviral cellular proteins that hypermutate the viral genome of diverse viral families. In retroviruses, this process requires A3 packaging into viral particles_1-4. The lentiviruses encode a protein Vif that antagonizes A3 family members by targeting them for degradation. Diversification of A3 allows host escape from Vif whereas adaptations in Vif enable cross-species transmission of primate lentiviruses. How this molecular arms race plays out at the structural level is unknown. Here, we report the cryogenic electron microscopy structure of human APOBE3G (A3G) bound to HIV-1 Vif and hijacked cellular proteins that promote ubiquitin mediated proteolysis. A small surface explains the molecular arms race, including a cross-species transmission event that led to the birth of HIV-1. Unexpectedly, we find RNA is a molecular glue for the Vif-A3G interaction, enabling Vif to repress A3G by ubiquitin dependent and independent mechanisms. Our results suggest a model where Vif antagonizes A3G by intercepting it in its most dangerous form for the virus, when bound to RNA and on pathway to packaging, to prevent viral restriction. By engaging essential surfaces required for restriction, Vif exploits a vulnerability in A3G, suggesting a general mechanism where RNA binding helps position key residues necessary for viral antagonism of a host antiviral gene.