7okq

Electron Microscopy
8.4Å resolution

Cryo-EM Structure of the DDB1-DCAF1-CUL4A-RBX1 Complex

Released:

Function and Biology Details

Reactions catalysed:
ATP + a protein = ADP + a phosphoprotein
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:
Cellular component:

Structure analysis Details

Assembly composition:
hetero hexadecamer (preferred)
PDBe Complex ID:
PDB-CPX-158754 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
DNA damage-binding protein 1 Chains: A, E, I, M
Molecule details ›
Chains: A, E, I, M
Length: 1159 amino acids
Theoretical weight: 129.39 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q16531 (Residues: 1-1140; Coverage: 100%)
Gene names: DDB1, XAP1
Sequence domains:
DDB1- and CUL4-associated factor 1 Chains: B, F, J, N
Molecule details ›
Chains: B, F, J, N
Length: 1525 amino acids
Theoretical weight: 171.28 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9Y4B6 (Residues: 2-1507; Coverage: 100%)
Gene names: DCAF1, KIAA0800, RIP, VPRBP
Cullin-4A Chains: C, G, K, O
Molecule details ›
Chains: C, G, K, O
Length: 742 amino acids
Theoretical weight: 86.7 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q13619 (Residues: 35-759; Coverage: 96%)
Gene name: CUL4A
Sequence domains:
E3 ubiquitin-protein ligase RBX1 Chains: D, H, L, P
Molecule details ›
Chains: D, H, L, P
Length: 116 amino acids
Theoretical weight: 13.5 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P62877 (Residues: 2-8, 9-108; Coverage: 99%)
Gene names: RBX1, RNF75, ROC1
Sequence domains: RING-H2 zinc finger domain

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 8.4Å
Relevant EMDB volumes: EMD-12964
Expression system: Trichoplusia ni