› 8cx2

Electron Microscopy
3.2Å resolution

Cryo-EM structure of human APOBEC3G/HIV-1 Vif/CBFbeta/ELOB/ELOC dimeric complex in State 2

Released:
DOI: 10.2210/pdb8cx2/pdb
PDB entry 8cx2 coloured by chain, front view.
PDB entry 8cx2 coloured by chain, side view.
PDB entry 8cx2 coloured by chain, top view.
Source organisms:
Primary publication:
The structural basis for HIV-1 Vif antagonism of human APOBEC3G.
Li YL, Langley CA, Azumaya CM, Echeverria I, Chesarino NM, Emerman M, Cheng Y, Gross JD
OpenAccess logo Nature (2023)
PMID: 36754086
Related structures: EMD-27034

Function and Biology Details

Reaction catalysed: 
Cytosine in single-stranded DNA + H(2)O = uracil in single-stranded DNA + NH(3)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dodecamer (preferred)
PDBe Complex ID:
PDB-CPX-246640 (preferred)
Entry contents:
5 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (7 distinct):
DNA dC->dU-editing enzyme APOBEC-3G Chains: A, F
Molecule details ›
Chains: A, F
Length: 421 amino acids
Theoretical weight: 50.03 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q9HC16 (Residues: 1-384; Coverage: 100%)
Gene names: APOBEC3G, MDS019
Sequence domains:
Virion infectivity factor Chains: B, G
Molecule details ›
Chains: B, G
Length: 192 amino acids
Theoretical weight: 22.56 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P69723 (Residues: 1-192; Coverage: 100%)
Gene name: vif
Sequence domains: Retroviral Vif (Viral infectivity) protein
Core-binding factor subunit beta Chains: C, H
Molecule details ›
Chains: C, H
Length: 182 amino acids
Theoretical weight: 21.54 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q13951 (Residues: 1-182; Coverage: 100%)
Gene name: CBFB
Sequence domains: Core binding factor beta subunit
Elongin-B Chains: D, I
Molecule details ›
Chains: D, I
Length: 118 amino acids
Theoretical weight: 13.15 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q15370 (Residues: 1-118; Coverage: 100%)
Gene names: ELOB, TCEB2
Sequence domains: Ubiquitin family
Elongin-C Chains: E, J
Molecule details ›
Chains: E, J
Length: 112 amino acids
Theoretical weight: 12.49 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q15369 (Residues: 1-112; Coverage: 100%)
Gene names: ELOC, TCEB1
Sequence domains: Skp1 family, tetramerisation domain
RNA (5'-R(P*AP*AP*UP*AP*AP*AP*AP*AP*U)-3') Chain: K
Molecule details ›
Chain: K
Length: 9 nucleotides
Theoretical weight: 2.87 KDa
RNA (5'-R(P*UP*UP*UP*AP*AP*AP*AP*AP*U)-3') Chain: L
Molecule details ›
Chain: L
Length: 9 nucleotides
Theoretical weight: 2.83 KDa

Ligands and Environments

1 bound ligand:
Ligand ZN 6 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.2Å
Relevant EMDB volumes: EMD-27034
Expression system: Spodoptera frugiperda

Quick links

Citations

5 review citations

The complex role of extracellular vesicles in HIV infection.
Lee JH. (2023)
4 more