3olm

X-ray diffraction
2.5Å resolution

Structure and Function of a Ubiquitin Binding Site within the Catalytic Domain of a HECT Ubiquitin Ligase

Released:
Source organism: Saccharomyces cerevisiae

Function and Biology Details

Reaction catalysed:
(1a) S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [HECT-type E3 ubiquitin transferase]-L-cysteine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + S-ubiquitinyl-[HECT-type E3 ubiquitin transferase]-L-cysteine
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
PDBe Complex ID:
PDB-CPX-143469 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
E3 ubiquitin-protein ligase RSP5 Chain: A
Molecule details ›
Chain: A
Length: 429 amino acids
Theoretical weight: 50.37 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P39940 (Residues: 384-809; Coverage: 53%)
Gene names: MDP1, NPI1, RSP5, SYGP-ORF41, YER125W
Sequence domains:
Structure domains:
Ubiquitin Chain: D
Molecule details ›
Chain: D
Length: 79 amino acids
Theoretical weight: 8.84 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P0CG63 (Residues: 305-380; Coverage: 20%)
Gene names: SCD2, UBI4, YLL039C
Sequence domains: Ubiquitin family
Structure domains: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: C2
Unit cell:
a: 161.57Å b: 50.331Å c: 79.684Å
α: 90° β: 116.72° γ: 90°
R-values:
R R work R free
0.223 0.22 0.272
Expression system: Escherichia coli