2yhn

X-ray diffraction
3Å resolution

The IDOL-UBE2D complex mediates sterol-dependent degradation of the LDL receptor

Released:

Function and Biology Details

Reaction 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
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
PDBe Complex ID:
PDB-CPX-186791 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
E3 ubiquitin-protein ligase MYLIP Chains: A, B
Molecule details ›
Chains: A, B
Length: 79 amino acids
Theoretical weight: 8.86 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q8WY64 (Residues: 369-445; Coverage: 17%)
Gene names: BM-023, BZF1, IDOL, MYLIP, PP5242
Sequence domains: Zinc finger, C3HC4 type (RING finger)
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: ESRF BEAMLINE ID23-1
Unit cell:
a: 79.26Å b: 22.77Å c: 87.838Å
α: 90° β: 116.82° γ: 90°
R-values:
R R work R free
0.232 0.228 0.297
Expression system: Escherichia coli BL21