› 8vk8

X-ray diffraction
2.99Å resolution

Function and Biology Details

Reactions 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
(1a) S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [(E3-independent) E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-monoubiquitinyl-[(E3-independent) ubiquitin-conjugating enzyme]-L-cysteine
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assemblies composition:
hetero trimer
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-549063 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Ubiquitin-conjugating enzyme E2 D2 Chains: A, D, G
Molecule details ›
Chains: A, D, G
Length: 152 amino acids
Theoretical weight: 17.12 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P62837 (Residues: 1-147; Coverage: 100%)
Gene names: PUBC1, UBC4, UBC5B, UBCH4, UBCH5B, UBE2D2
Sequence domains: Ubiquitin-conjugating enzyme
Ubiquitin variant D2.1 Chains: B, C, E, F, H
Molecule details ›
Chains: B, C, E, F, H
Length: 94 amino acids
Theoretical weight: 10.37 KDa
Source organism: synthetic construct
Expression system: Escherichia coli

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Spacegroup: P3121
Unit cell:
a: 129.774Å b: 129.774Å c: 123.106Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.249 0.247 0.295
Expression system: Escherichia coli

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