5fqd

X-ray diffraction
2.45Å resolution

Structural basis of Lenalidomide induced CK1a degradation by the crl4crbn ubiquitin ligase

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-155795 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
DNA damage-binding protein 1 Chains: A, D
Molecule details ›
Chains: A, D
Length: 856 amino acids
Theoretical weight: 95.77 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q16531 (Residues: 1-395, 706-1140; Coverage: 73%)
Gene names: DDB1, XAP1
Sequence domains:
Structure domains:
Protein cereblon Chains: B, E
Molecule details ›
Chains: B, E
Length: 426 amino acids
Theoretical weight: 48.98 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q96SW2 (Residues: 41-442; Coverage: 91%)
Gene names: AD-006, CRBN
Sequence domains:
Structure domains:
Casein kinase I isoform alpha Chains: C, F
Molecule details ›
Chains: C, F
Length: 341 amino acids
Theoretical weight: 39.3 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P48729 (Residues: 1-337; Coverage: 100%)
Gene name: CSNK1A1
Sequence domains: Protein kinase domain
Structure domains:

Ligands and Environments

2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: P1
Unit cell:
a: 87.97Å b: 109.93Å c: 112.4Å
α: 106.02° β: 93.19° γ: 101.63°
R-values:
R R work R free
0.182 0.181 0.21
Expression system: Trichoplusia ni