› 8y59

X-ray diffraction
1.89Å resolution

Crystal structure of TRIM21 PRYSPRY (D355A) in complex with (S)-hydroxyl-acepromazine.

Released:
DOI: 10.2210/pdb8y59/pdb
PDB entry 8y59 coloured by chain, front view.
PDB entry 8y59 coloured by chain, side view.
PDB entry 8y59 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Selective degradation of multimeric proteins by TRIM21-based molecular glue and PROTAC degraders.
Lu P, Cheng Y, Xue L, Ren X, Xu X, Chen C, Cao L, Li J, Wu Q, Sun S, Hou J, Jia W, Wang W, Ma Y, Jiang Z, Li C, Qi X, Huang N, Han T
Cell (2024)
PMID: 39488207

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:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-539136 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
E3 ubiquitin-protein ligase TRIM21 Chain: A
Molecule details ›
Chain: A
Length: 192 amino acids
Theoretical weight: 21.6 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P19474 (Residues: 287-475; Coverage: 40%)
Gene names: RNF81, RO52, SSA1, TRIM21
Sequence domains:

Ligands and Environments

1 bound ligand:
Ligand A1D5Y 1 x A1D5Y
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17UM
Spacegroup: P41212
Unit cell:
a: 100.908Å b: 100.908Å c: 49.955Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.191 0.186 0.234
Expression system: Escherichia coli

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