› 3s8i

X-ray diffraction
1.7Å resolution

The retroviral-like protease (RVP) domain of human DDI1

Released:
DOI: 10.2210/pdb3s8i/pdb
PDB entry 3s8i coloured by chain, front view.
PDB entry 3s8i coloured by chain, side view.
PDB entry 3s8i coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Walker JR, Asinas A, Dong A, Bountra C, Weigelt J, Arrowsmith CH, Edwards AM, Dhe-Paganon S, Structural Genomics Consortium (SGC)

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-186704 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Protein DDI1 homolog 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 148 amino acids
Theoretical weight: 16.42 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q8WTU0 (Residues: 239-367; Coverage: 33%)
Gene name: DDI1
Sequence domains: Aspartyl protease
Structure domains: Acid Proteases

Ligands and Environments

4 bound ligands:
Ligand PO4 3 x PO4
Ligand EDO 1 x EDO
Ligand UNX 1 x UNX
Ligand PEG 1 x PEG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-E+ SUPERBRIGHT
Spacegroup: C2
Unit cell:
a: 80.981Å b: 41.04Å c: 88.975Å
α: 90° β: 107.62° γ: 90°
R-values:
R R work R free
0.177 0.176 0.199
Expression system: Escherichia coli BL21(DE3)

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