› 9f6g

X-ray diffraction
1.5Å resolution

Human USP30 chimera bound to Ubiquitin-PA

Released:
DOI: 10.2210/pdb9f6g/pdb
Model geometry
Fit model/data
PDB entry 9f6g coloured by chain, front view.
PDB entry 9f6g coloured by chain, side view.
PDB entry 9f6g coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Chimeric deubiquitinase engineering reveals structural basis for specific inhibition of the mitophagy regulator USP30
Kazi NH, Klink N, Gallant K, Kipka GM, Gersch M
Nat. Struct. Mol. Biol. (2025)

Function and Biology Details

Reaction catalysed: 
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-290593 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Ubiquitin carboxyl-terminal hydrolase 14; Ubiquitin carboxyl-terminal hydrolase 30; Ubiquitin carboxyl-terminal hydrolase 35 Chain: A
Molecule details ›
Chain: A
Length: 317 amino acids
Theoretical weight: 36.13 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q70CQ3 (Residues: 64-178, 190-224, 253-275, 319-349, 437-502; Coverage: 47%)
  • Canonical: P54578 (Residues: 248-272, 276-276, 295-321; Coverage: 11%)
  • Canonical: Q9P2H5 (Residues: 734-736, 834-845; Coverage: 2%)
Gene names: KIAA1372, TGT, USP14, USP30, USP34, USP35
Sequence domains: Ubiquitin carboxyl-terminal hydrolase
Ubiquitin Chain: B
Molecule details ›
Chain: B
Length: 75 amino acids
Theoretical weight: 8.52 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P0CG47 (Residues: 153-227; Coverage: 33%)
Gene name: UBB
Sequence domains: Ubiquitin family

Ligands and Environments

1 bound ligand:
Ligand AYE 1 x AYE
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: ESRF BEAMLINE MASSIF-3
Spacegroup: P212121
Unit cell:
a: 46.639Å b: 50.706Å c: 156.56Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.184 0.183 0.211
Expression system: Escherichia coli

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