8E40

Full-length APOBEC3G in complex with HIV-1 Vif, CBF-beta, and fork RNA


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.57 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural basis for HIV-1 antagonism of host APOBEC3G via Cullin E3 ligase.

Ito, F.Alvarez-Cabrera, A.L.Liu, S.Yang, H.Shiriaeva, A.Zhou, Z.H.Chen, X.S.

(2023) Sci Adv 9: eade3168-eade3168

  • DOI: https://doi.org/10.1126/sciadv.ade3168
  • Primary Citation of Related Structures:  
    8E40

  • PubMed Abstract: 

    Human APOBEC3G (A3G) is a virus restriction factor that inhibits HIV-1 replication and triggers lethal hypermutation on viral reverse transcripts. HIV-1 viral infectivity factor (Vif) breaches this host A3G immunity by hijacking a cellular E3 ubiquitin ligase complex to target A3G for ubiquitination and degradation. The molecular mechanism of A3G targeting by Vif-E3 ligase is unknown, limiting the antiviral efforts targeting this host-pathogen interaction crucial for HIV-1 infection. Here, we report the cryo-electron microscopy structures of A3G bound to HIV-1 Vif in complex with T cell transcription cofactor CBF-β and multiple components of the Cullin-5 RING E3 ubiquitin ligase. The structures reveal unexpected RNA-mediated interactions of Vif with A3G primarily through A3G's noncatalytic domain, while A3G's catalytic domain is poised for ubiquitin transfer. These structures elucidate the molecular mechanism by which HIV-1 Vif hijacks the host ubiquitin ligase to specifically target A3G to establish infection and offer structural information for the rational development of antiretroviral therapeutics.


  • Organizational Affiliation

    Molecular and Computational Biology, Departments of Biological Sciences, University of Southern California, Los Angeles, CA, USA.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DNA dC->dU-editing enzyme APOBEC-3G386Macaca mulattaMutation(s): 0 
Gene Names: APOBEC3G
EC: 3.5.4.38
UniProt
Find proteins for Q7YR23 (Macaca mulatta)
Explore Q7YR23 
Go to UniProtKB:  Q7YR23
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UniProt GroupQ7YR23
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Virion infectivity factor178Human immunodeficiency virus 1Mutation(s): 0 
Gene Names: vif
UniProt
Find proteins for P12504 (Human immunodeficiency virus type 1 group M subtype B (isolate NY5))
Explore P12504 
Go to UniProtKB:  P12504
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UniProt GroupP12504
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Core-binding factor subunit beta157Homo sapiensMutation(s): 0 
Gene Names: CBFB
UniProt & NIH Common Fund Data Resources
Find proteins for Q13951 (Homo sapiens)
Explore Q13951 
Go to UniProtKB:  Q13951
PHAROS:  Q13951
GTEx:  ENSG00000067955 
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UniProt GroupQ13951
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  • Reference Sequence

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Entity ID: 4
MoleculeChains LengthOrganismImage
RNAD [auth R]22Escherichia coli
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Entity ID: 5
MoleculeChains LengthOrganismImage
RNAE [auth r]25Escherichia coli
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.57 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesAI150524

Revision History  (Full details and data files)

  • Version 1.0: 2023-01-11
    Type: Initial release
  • Version 1.1: 2024-06-12
    Changes: Data collection