› 5ojj

X-ray diffraction
1.85Å resolution

Crystal structure of the Zn-bound ubiquitin-conjugating enzyme Ube2T

Released:
DOI: 10.2210/pdb5ojj/pdb
PDB entry 5ojj coloured by chain, front view.
PDB entry 5ojj coloured by chain, side view.
PDB entry 5ojj coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Mind the Metal: A Fragment Library-Derived Zinc Impurity Binds the E2 Ubiquitin-Conjugating Enzyme Ube2T and Induces Structural Rearrangements.
Morreale FE, Testa A, Chaugule VK, Bortoluzzi A, Ciulli A, Walden H
J Med Chem 60 8183-8191 (2017)
PMID: 28933844

Function and Biology Details

Reaction catalysed: 
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192478 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ubiquitin-conjugating enzyme E2 T Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 154 amino acids
Theoretical weight: 17.69 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q9NPD8 (Residues: 1-154; Coverage: 78%)
Gene names: HSPC150, PIG50, UBE2T
Sequence domains: Ubiquitin-conjugating enzyme
Structure domains: Ubiquitin Conjugating Enzyme

Ligands and Environments

3 bound ligands:
Ligand ACT 6 x ACT
Ligand ZN 8 x ZN
Ligand TRS 2 x TRS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P21
Unit cell:
a: 56.02Å b: 96.383Å c: 89.996Å
α: 90° β: 93.28° γ: 90°
R-values:
R R work R free
0.179 0.178 0.199
Expression system: Escherichia coli BL21

Quick links

Citations

4 review citations

New Insights into the Role of E2s in the Pathogenesis of Diseases: Lessons Learned from UBE2O.
Hormaechea-Agulla et al. (2018)
3 more

2 mentions without citation

Fanconi anemia pathway as a prospective target for cancer intervention.
Liu et al. (2020)
1 more