1wrd

X-ray diffraction
1.75Å resolution

Crystal structure of Tom1 GAT domain in complex with ubiquitin

Released:

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero dimer (preferred)
hetero 48-mer
PDBe Complex ID:
PDB-CPX-130089 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Target of Myb1 membrane trafficking protein Chain: A
Molecule details ›
Chain: A
Length: 103 amino acids
Theoretical weight: 11.8 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O60784 (Residues: 215-312; Coverage: 20%)
Gene name: TOM1
Sequence domains: GAT domain
Structure domains: Methane Monooxygenase Hydroxylase; Chain G, domain 1
Ubiquitin Chain: B
Molecule details ›
Chain: B
Length: 76 amino acids
Theoretical weight: 8.58 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P0CH28 (Residues: 609-684; Coverage: 11%)
Gene name: UBC
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: PHOTON FACTORY BEAMLINE BL-6A, PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: F432
Unit cell:
a: 168.317Å b: 168.317Å c: 168.317Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.214 0.213 0.259
Expression system: Escherichia coli