3dpl

X-ray diffraction
2.6Å resolution

Structural Insights into NEDD8 Activation of Cullin-RING Ligases: Conformational Control of Conjugation.

Released:

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
PDBe Complex ID:
PDB-CPX-158751 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Cullin-5 Chain: C
Molecule details ›
Chain: C
Length: 382 amino acids
Theoretical weight: 44.99 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q93034 (Residues: 401-780; Coverage: 49%)
Gene names: CUL5, VACM1
Sequence domains:
Structure domains:
E3 ubiquitin-protein ligase RBX1 Chain: R
Molecule details ›
Chain: R
Length: 106 amino acids
Theoretical weight: 12.09 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P62877 (Residues: 5-108; Coverage: 96%)
Gene names: RBX1, RNF75, ROC1
Sequence domains: RING-H2 zinc finger domain
Structure domains: Zinc/RING finger domain, C3HC4 (zinc finger)

Ligands and Environments

1 bound ligand:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: P212121
Unit cell:
a: 62.965Å b: 65.51Å c: 141.116Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.244 0.244 0.277
Expression system: Escherichia coli