› 2i1a

X-ray diffraction
2.3Å resolution

A Retroviral Protease-Like Domain in the Eukaryotic Protein Ddi1

Released:
DOI: 10.2210/pdb2i1a/pdb
PDB entry 2i1a coloured by chain, front view.
PDB entry 2i1a coloured by chain, side view.
PDB entry 2i1a coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Ddi1, a eukaryotic protein with the retroviral protease fold.
Sirkis R, Gerst JE, Fass D
J Mol Biol 364 376-87 (2006)
PMID: 17010377

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-154022 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA damage-inducible protein 1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 148 amino acids
Theoretical weight: 16.74 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P40087 (Residues: 178-325; Coverage: 35%)
Gene names: DDI1, VSM1, YER143W
Sequence domains: gag-polyprotein putative aspartyl protease
Structure domains: Acid Proteases

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P212121
Unit cell:
a: 46.8Å b: 74.33Å c: 153.54Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.229 0.229 0.266
Expression system: Escherichia coli

Quick links

Citations

14 review citations

Recognition and processing of ubiquitin-protein conjugates by the proteasome.
Finley D. (2009)
13 more

14 mentions without citation

Identification, analysis, and prediction of protein ubiquitination sites.
Radivojac et al. (2010)
13 more