› 8szk

Electron Microscopy
3.58Å resolution

The cryo-EM structure of PPP2R5A/HIV-1 Vif/CBFb/EloB/EloC complex

Released:
DOI: 10.2210/pdb8szk/pdb
PDB entry 8szk coloured by chain, front view.
PDB entry 8szk coloured by chain, side view.
PDB entry 8szk coloured by chain, top view.
Source organisms:
Primary publication:
Structural insights into PPP2R5A degradation by HIV-1 Vif.
Hu Y, Delviks-Frankenberry KA, Wu C, Arizaga F, Pathak VK, Xiong Y
Nat Struct Mol Biol (2024)
PMID: 38789685
Related structures: EMD-40919

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-245083 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
Elongin-B Chain: A
Molecule details ›
Chain: A
Length: 118 amino acids
Theoretical weight: 13.15 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q15370 (Residues: 1-118; Coverage: 100%)
Gene names: ELOB, TCEB2
Sequence domains: Ubiquitin family
Elongin-C Chain: B
Molecule details ›
Chain: B
Length: 96 amino acids
Theoretical weight: 10.84 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q15369 (Residues: 17-112; Coverage: 86%)
Gene names: ELOC, TCEB1
Sequence domains: Skp1 family, tetramerisation domain
Core-binding factor subunit beta Chain: C
Molecule details ›
Chain: C
Length: 201 amino acids
Theoretical weight: 23.64 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q13951 (Residues: 1-170; Coverage: 93%)
  • Best match: Q13951-2 (Residues: 1-187)
Gene name: CBFB
Sequence domains: Core binding factor beta subunit
Virion infectivity factor Chain: G
Molecule details ›
Chain: G
Length: 176 amino acids
Theoretical weight: 20.98 KDa
Source organism: Human immunodeficiency virus type 1 (NEW YORK-5 ISOLATE)
Expression system: Escherichia coli
UniProt:
  • Canonical: P12504 (Residues: 1-176; Coverage: 92%)
Gene name: vif
Sequence domains: Retroviral Vif (Viral infectivity) protein
Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform Chain: D
Molecule details ›
Chain: D
Length: 486 amino acids
Theoretical weight: 56.27 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q15172 (Residues: 1-486; Coverage: 100%)
Gene name: PPP2R5A
Sequence domains: Protein phosphatase 2A regulatory B subunit (B56 family)

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.58Å
Relevant EMDB volumes: EMD-40919
Expression system: Escherichia coli

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