PDBe 3db3

X-ray diffraction
2.4Å resolution

Crystal structure of the tandem tudor domains of the E3 ubiquitin-protein ligase UHRF1 in complex with trimethylated histone H3-K9 peptide


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:
hetero dimer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
E3 ubiquitin-protein ligase UHRF1 Chain: A
Molecule details ›
Chain: A
Length: 161 amino acids
Theoretical weight: 19.01 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
  • Canonical: Q96T88 (Residues: 126-285; Coverage: 20%)
Gene names: ICBP90, NP95, RNF106, UHRF1
Sequence domains: Tandem tudor domain within UHRF1
Structure domains:
Histone H3.2 Chain: B
Molecule details ›
Chain: B
Length: 6 amino acids
Theoretical weight: 707 Da
Source organism: Homo sapiens
Expression system: Not provided
  • Canonical: Q71DI3 (Residues: 7-12; Coverage: 4%)
Gene names: H3F2, H3FM, HIST2H3A, HIST2H3C, HIST2H3D

Ligands and Environments

No bound ligands

2 modified residues:

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P62
Unit cell:
a: 99.622Å b: 99.622Å c: 41.232Å
α: 90° β: 90° γ: 120°
R R work R free
0.215 0.212 0.282
Expression systems:
  • Escherichia coli
  • Not provided