› 8h36

Electron Microscopy
4.6Å resolution

Cryo-EM Structure of the KBTBD2-CUL3-Rbx1-p85a dimeric complex

Released:
DOI: 10.2210/pdb8h36/pdb
PDB entry 8h36 coloured by chain, front view.
PDB entry 8h36 coloured by chain, side view.
PDB entry 8h36 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Dynamic molecular architecture and substrate recruitment of cullin3-RING E3 ligase CRL3KBTBD2.
Hu Y, Zhang Z, Mao Q, Zhang X, Hao A, Xun Y, Wang Y, Han L, Zhan W, Liu Q, Yin Y, Peng C, Moresco EMY, Chen Z, Beutler B, Sun L
Nat Struct Mol Biol 31 336-350 (2024)
PMID: 38332366
Related structures: EMD-34452

Function and Biology Details

Reactions catalysed: 
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine
S-[NEDD8-protein]-yl-[E2 NEDD8-conjugating enzyme]-L-cysteine + [cullin]-L-lysine = [E2 NEDD8-conjugating enzyme]-L-cysteine + N(6)-[NEDD8-protein]-yl-[cullin]-L-lysine
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-231792 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
E3 ubiquitin-protein ligase RBX1 Chains: D, E
Molecule details ›
Chains: D, E
Length: 108 amino acids
Theoretical weight: 12.29 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P62877 (Residues: 1-108; Coverage: 100%)
Gene names: RBX1, RNF75, ROC1
Sequence domains: RING-H2 zinc finger domain
Kelch repeat and BTB domain-containing protein 2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 623 amino acids
Theoretical weight: 71.43 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q8IY47 (Residues: 1-623; Coverage: 100%)
Gene names: BKLHD1, CGI-73, KBTBD2, KIAA1489
Sequence domains:
Phosphatidylinositol 3-kinase regulatory subunit alpha Chains: G, H
Molecule details ›
Chains: G, H
Length: 724 amino acids
Theoretical weight: 83.71 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P27986 (Residues: 1-724; Coverage: 100%)
Gene names: GRB1, PIK3R1
Sequence domains:
Cullin-3 Chains: C, F
Molecule details ›
Chains: C, F
Length: 768 amino acids
Theoretical weight: 89.06 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q13618 (Residues: 1-768; Coverage: 100%)
Gene names: CUL3, KIAA0617
Sequence domains:

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
Resolution: 4.6Å
Relevant EMDB volumes: EMD-34452
Expression system: Spodoptera frugiperda

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