PDBe 5jp3

X-ray diffraction
2.9Å resolution

Structure of Xanthomonas campestris effector protein XopD bound to ubiquitin

Released:

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Xanthomonas outer protein D Chains: A, C, E, G
Molecule details ›
Chains: A, C, E, G
Length: 220 amino acids
Theoretical weight: 24.44 KDa
Source organism: Xanthomonas campestris pv. vesicatoria str. 85-10
Expression system: Escherichia coli
UniProt:
  • Canonical: Q3BYJ5 (Residues: 298-515; Coverage: 40%)
Gene names: XCV0437, xopD
Structure domains: Adenoviral Proteinase; Chain A
Ubiquitin Chains: B, D, F, H
Molecule details ›
Chains: B, D, F, H
Length: 76 amino acids
Theoretical weight: 8.56 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

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: C2
Unit cell:
a: 117.748Å b: 132.281Å c: 117.31Å
α: 90° β: 105.84° γ: 90°
R-values:
R R work R free
0.243 0.241 0.285
Expression system: Escherichia coli