6nyo

X-ray diffraction
1.5Å resolution

Crystal structure of a human Cdc34-ubiquitin thioester mimetic

Released:

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
PDBe Complex ID:
PDB-CPX-143479 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Ubiquitin-conjugating enzyme E2 R2 Chain: A
Molecule details ›
Chain: A
Length: 204 amino acids
Theoretical weight: 23.17 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q712K3 (Residues: 1-202; Coverage: 85%)
Gene names: CDC34B, UBC3B, UBE2R2
Sequence domains: Ubiquitin-conjugating enzyme
Ubiquitin Chain: E
Molecule details ›
Chain: E
Length: 96 amino acids
Theoretical weight: 10.74 KDa
Source organism: Schizosaccharomyces pombe
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0CH08 (Residues: 1-76; Coverage: 59%)
Gene names: RPL40A, UBI1, YIL148W
Sequence domains: Ubiquitin family

Ligands and Environments

3 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P212121
Unit cell:
a: 44.585Å b: 55.737Å c: 119.785Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.176 0.175 0.202
Expression system: Escherichia coli BL21(DE3)