› 5oxi

X-ray diffraction
1.63Å resolution

C-terminally retracted ubiquitin L67S mutant

Released:
DOI: 10.2210/pdb5oxi/pdb
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PDB entry 5oxi coloured by chain, front view.
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PDB entry 5oxi coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
An invisible ubiquitin conformation is required for efficient phosphorylation by PINK1.
Gladkova C, Schubert AF, Wagstaff JL, Pruneda JN, Freund SM, Komander D
OpenAccess logo EMBO J 36 3555-3572 (2017)
PMID: 29133469

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-143327 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ubiquitin Chains: A, B
Molecule details ›
Chains: A, B
Length: 76 amino acids
Theoretical weight: 8.55 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P0CG48 (Residues: 609-684; Coverage: 11%)
Gene name: UBC
Sequence domains: Ubiquitin family

Ligands and Environments

1 bound ligand:
Ligand SO4 6 x SO4
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: DIAMOND BEAMLINE I04
Unit cell:
a: 41.055Å b: 48.813Å c: 74.401Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.196 0.193 0.237
Expression system: Escherichia coli

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Citations

6 review citations

Building and decoding ubiquitin chains for mitophagy.
Harper et al. (2018)
5 more

2 mentions without citation

Structure of PINK1 in complex with its substrate ubiquitin.
Schubert et al. (2017)
1 more

PDB-REDO

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