› 6do4

X-ray diffraction
2.2Å resolution

KLHDC2 ubiquitin ligase in complex with SelS C-end degron

Released:
DOI: 10.2210/pdb6do4/pdb
PDB entry 6do4 coloured by chain, front view.
PDB entry 6do4 coloured by chain, side view.
PDB entry 6do4 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Recognition of the Diglycine C-End Degron by CRL2KLHDC2 Ubiquitin Ligase.
Rusnac DV, Lin HC, Canzani D, Tien KX, Hinds TR, Tsue AF, Bush MF, Yen HS, Zheng N
Mol Cell 72 813-822.e4 (2018)
PMID: 30526872

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-189669 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Kelch domain-containing protein 2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 363 amino acids
Theoretical weight: 41.35 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9Y2U9 (Residues: 1-362; Coverage: 89%)
Gene names: HCA33, KLHDC2
Sequence domains: Galactose oxidase, central domain
Selenoprotein S Chains: C, D
Molecule details ›
Chains: C, D
Length: 6 amino acids
Theoretical weight: 460 Da
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: Q9BQE4 (Residues: 182-187; Coverage: 3%)
Gene names: AD-015, SBBI8, SELENOS, SELS, VIMP

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.2.1
Spacegroup: P21
Unit cell:
a: 44.637Å b: 88.596Å c: 88.824Å
α: 90° β: 104.77° γ: 90°
R-values:
R R work R free
0.17 0.167 0.216
Expression systems:
  • Trichoplusia ni
  • Not provided

Quick links

Citations

10 review citations

E3 Ligase Ligands for PROTACs: How They Were Found and How to Discover New Ones.
Ishida et al. (2021)
9 more

4 mentions without citation

Challenges and Limitations of Targeting the Keap1-Nrf2 Pathway for Neurotherapeutics: Bach1 De-Repression to the Rescue.
Hushpulian et al. (2021)
3 more