› 8h35

Electron Microscopy
7.41Å resolution

Cryo-EM Structure of the KBTBD2-Cul3-Rbx1 octameric complex

Released:
DOI: 10.2210/pdb8h35/pdb
PDB entry 8h35 coloured by chain, front view.
PDB entry 8h35 coloured by chain, side view.
PDB entry 8h35 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-34451

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 24-mer (preferred)
PDBe Complex ID:
PDB-CPX-231846 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Cullin-3 Chains: C, F, H, I, M, O, T, V
Molecule details ›
Chains: C, F, H, I, M, O, T, V
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:
Kelch repeat and BTB domain-containing protein 2 Chains: A, B, G, J, N, P, S, U
Molecule details ›
Chains: A, B, G, J, N, P, S, U
Length: 623 amino acids
Theoretical weight: 71.4 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:
E3 ubiquitin-protein ligase RBX1 Chains: D, E, K, L, Q, R, W, X
Molecule details ›
Chains: D, E, K, L, Q, R, W, X
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

Ligands and Environments

1 bound ligand:
Ligand ZN 24 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 7.41Å
Relevant EMDB volumes: EMD-34451
Expression system: Spodoptera frugiperda

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