› 5mj6

X-ray diffraction
2.53Å resolution

Ligand-induced conformational change of Insulin-regulated aminopeptidase: insights on catalytic mechanism and active site plasticity.

Released:
DOI: 10.2210/pdb5mj6/pdb
PDB entry 5mj6 coloured by chain, front view.
PDB entry 5mj6 coloured by chain, side view.
PDB entry 5mj6 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Ligand-Induced Conformational Change of Insulin-Regulated Aminopeptidase: Insights on Catalytic Mechanism and Active Site Plasticity.
Mpakali A, Saridakis E, Harlos K, Zhao Y, Kokkala P, Georgiadis D, Giastas P, Papakyriakou A, Stratikos E
J Med Chem 60 2963-2972 (2017)
PMID: 28328206

Function and Biology Details

Reaction catalysed: 
Release of an N-terminal amino acid, Cys-|-Xaa-, in which the half-cystine residue is involved in a disulfide loop, notably in oxytocin or vasopressin. Hydrolysis rates on a range of aminoacyl arylamides exceed that for the cystinyl derivative, however.
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193794 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (5 distinct):
Leucyl-cystinyl aminopeptidase, pregnancy serum form Chains: A, B
Molecule details ›
Chains: A, B
Length: 881 amino acids
Theoretical weight: 101.18 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q9UIQ6 (Residues: 155-1025; Coverage: 85%)
Gene names: LNPEP, OTASE
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
4 bound ligands:
Ligand NAG 12 x NAG
Ligand ZN 2 x ZN
Ligand 7O2 2 x 7O2
Ligand BR 21 x BR
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P212121
Unit cell:
a: 112.24Å b: 143.17Å c: 148.99Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.177 0.174 0.229
Expression system: Homo sapiens

Quick links

Citations

5 review citations

The Role of Conformational Dynamics in Antigen Trimming by Intracellular Aminopeptidases.
Papakyriakou et al. (2017)
4 more

14 mentions without citation

IRAP Inhibitors: M1-Aminopeptidase Family Inspiration.
Barlow et al. (2020)
13 more