PDBe 4a49

X-ray diffraction
2.21Å resolution

Structure of phosphoTyr371-c-Cbl-UbcH5B complex

Released:
Source organism: Homo sapiens

Function and Biology Details

Reactions 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. 
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. 
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E1 ubiquitin-activating enzyme]-L-cysteine + N(6)- monoubiquitinyl-[acceptor protein]-L-lysine. 
Cellular component:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
E3 ubiquitin-protein ligase CBL Chain: A
Molecule details ›
Chain: A
Length: 84 amino acids
Theoretical weight: 9.51 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P22681 (Residues: 354-435; Coverage: 9%)
Gene names: CBL, CBL2, RNF55
Sequence domains: Prokaryotic RING finger family 4
Structure domains: Zinc/RING finger domain, C3HC4 (zinc finger)
Ubiquitin-conjugating enzyme E2 D2 Chain: B
Molecule details ›
Chain: B
Length: 147 amino acids
Theoretical weight: 16.76 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P62837 (Residues: 1-147; Coverage: 100%)
Gene names: PUBC1, UBC4, UBC5B, UBCH4, UBCH5B, UBE2D2
Sequence domains: Ubiquitin-conjugating enzyme
Structure domains: Ubiquitin Conjugating Enzyme

Ligands and Environments

2 bound ligands:

1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: P3221
Unit cell:
a: 115.877Å b: 115.877Å c: 52.572Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.17 0.168 0.206