› 5cdl

X-ray diffraction
1.8Å resolution

Proline dipeptidase from Deinococcus radiodurans (selenomethionine derivative)

Released:
DOI: 10.2210/pdb5cdl/pdb
PDB entry 5cdl coloured by chain, front view.
PDB entry 5cdl coloured by chain, side view.
PDB entry 5cdl coloured by chain, top view.
Source organism: Deinococcus radiodurans R1
Entry authors: Kumar A, Are V, Ghosh B, Jamdar S, Makde R

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-576980 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Proline dipeptidase Chain: A
Molecule details ›
Chain: A
Length: 349 amino acids
Theoretical weight: 37.43 KDa
Source organism: Deinococcus radiodurans R1
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9RUY4 (Residues: 1-349; Coverage: 100%)
Gene name: DR_1246
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand MN 1 x MN
Ligand PO4 3 x PO4
1 modified residue:
Ligand MSE 6 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: RRCAT INDUS-2 BEAMLINE PX-BL21
Spacegroup: P43212
Unit cell:
a: 60.632Å b: 60.632Å c: 202.824Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.179 0.177 0.201
Expression system: Escherichia coli

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