PDBe 5e33

X-ray diffraction
1.84Å resolution

Structure of human DPP3 in complex with met-enkephalin


Function and Biology Details

Reaction catalysed:
Release of an N-terminal dipeptide from a peptide comprising four or more residues, with broad specificity. Also acts on dipeptidyl 2-naphthylamides.
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Dipeptidyl peptidase 3 Chain: A
Molecule details ›
Chain: A
Length: 726 amino acids
Theoretical weight: 81.55 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
  • Canonical: Q9NY33 (Residues: 1-726; Coverage: 99%)
Gene name: DPP3
Sequence domains: Peptidase family M49
Structure domains:
Met-enkephalin-Arg-Phe Chain: B
Molecule details ›
Chain: B
Length: 5 amino acids
Theoretical weight: 574 Da
Source organism: Homo sapiens
Expression system: Not provided
  • Canonical: P01210 (Residues: 261-265; Coverage: 2%)
Gene name: PENK

Ligands and Environments

3 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: C2
Unit cell:
a: 119.79Å b: 105.76Å c: 65.167Å
α: 90° β: 93.49° γ: 90°
R R work R free
0.184 0.182 0.224
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided