› 4f52

X-ray diffraction
3Å resolution

Structure of a Glomulin-RBX1-CUL1 complex

Released:
DOI: 10.2210/pdb4f52/pdb
PDB entry 4f52 coloured by chain, front view.
PDB entry 4f52 coloured by chain, side view.
PDB entry 4f52 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of a glomulin-RBX1-CUL1 complex: inhibition of a RING E3 ligase through masking of its E2-binding surface.
Duda DM, Olszewski JL, Tron AE, Hammel M, Lambert LJ, Waddell MB, Mittag T, DeCaprio JA, Schulman BA
Mol Cell 47 371-82 (2012)
PMID: 22748924

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:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-158748 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Cullin-1 Chains: A, C
Molecule details ›
Chains: A, C
Length: 282 amino acids
Theoretical weight: 32.47 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q13616 (Residues: 411-690; Coverage: 36%)
Gene name: CUL1
Sequence domains: Cullin family
Structure domains:
E3 ubiquitin-protein ligase RBX1 Chains: B, D
Molecule details ›
Chains: B, D
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)
Glomulin Chains: E, F
Molecule details ›
Chains: E, F
Length: 596 amino acids
Theoretical weight: 68.43 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q92990 (Residues: 1-594; Coverage: 100%)
Gene names: FAP48, FAP68, GLMN, VMGLOM
Sequence domains: Uncharacterised protein family, YAP/Alf4/glomulin

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P21
Unit cell:
a: 53.333Å b: 193.932Å c: 142.075Å
α: 90° β: 98.81° γ: 90°
R-values:
R R work R free
0.222 0.219 0.289
Expression systems:
  • Escherichia coli BL21
  • Escherichia coli

Quick links

Citations

11 review citations

Mechanisms and function of substrate recruitment by F-box proteins.
Skaar et al. (2013)
10 more

11 mentions without citation

Cullin-RING E3 Ubiquitin Ligases: Bridges to Destruction.
Nguyen et al. (2017)
10 more