› 3ctz

X-ray diffraction
1.6Å resolution

Structure of human cytosolic X-prolyl aminopeptidase

Released:
DOI: 10.2210/pdb3ctz/pdb
PDB entry 3ctz coloured by chain, front view.
PDB entry 3ctz coloured by chain, side view.
PDB entry 3ctz coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of human cytosolic X-prolyl aminopeptidase: a double Mn(II)-dependent dimeric enzyme with a novel three-domain subunit.
Li X, Lou Z, Li X, Zhou W, Ma M, Cao Y, Geng Y, Bartlam M, Zhang XC, Rao Z
J Biol Chem 283 22858-66 (2008)
PMID: 18515364

Function and Biology Details

Reaction catalysed: 
Release of any N-terminal amino acid, including proline, that is linked to proline, even from a dipeptide or tripeptide.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192519 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Xaa-Pro aminopeptidase 1 Chain: A
Molecule details ›
Chain: A
Length: 623 amino acids
Theoretical weight: 70.03 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9NQW7 (Residues: 1-623; Coverage: 100%)
Gene names: XPNPEP1, XPNPEPL, XPNPEPL1
Sequence domains:
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand MN 2 x MN
Ligand CA 1 x CA
Ligand NA 1 x NA
Ligand P6G 1 x P6G
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: C2221
Unit cell:
a: 71.444Å b: 131.429Å c: 169.076Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.156 0.154 0.196
Expression system: Escherichia coli

Quick links

Citations

17 citation in other articles

Individuals with mutations in XPNPEP3, which encodes a mitochondrial protein, develop a nephronophthisis-like nephropathy.
O'Toole et al. (2010)
16 more

12 mentions without citation

AIDA: ab initio domain assembly for automated multi-domain protein structure prediction and domain-domain interaction prediction.
Xu et al. (2015)
11 more