PDBe 5m4g

X-ray diffraction
1.48Å resolution

Crystal Structure of Wild-Type Human Prolidase with Mn ions


Function and Biology Details

Reaction catalysed:
Hydrolysis of Xaa-|-Pro dipeptides. Also acts on aminoacyl-hydroxyproline analogs. No action on Pro-|-Pro.
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
Xaa-Pro dipeptidase Chains: A, B
Molecule details ›
Chains: A, B
Length: 483 amino acids
Theoretical weight: 53.65 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
  • Canonical: P12955 (Residues: 6-488; Coverage: 98%)
Gene names: PEPD, PRD
Sequence domains:

Ligands and Environments

3 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.1
Spacegroup: C2221
Unit cell:
a: 103.641Å b: 108.282Å c: 211.452Å
α: 90° β: 90° γ: 90°
R R work R free
0.151 0.151 0.167
Expression system: Escherichia coli BL21