› 5olj

X-ray diffraction
2.2Å resolution

Crystal structure of Porphyromonas gingivalis dipeptidyl peptidase 4

Released:
DOI: 10.2210/pdb5olj/pdb
PDB entry 5olj coloured by chain, front view.
PDB entry 5olj coloured by chain, side view.
PDB entry 5olj coloured by chain, top view.
Source organism: Porphyromonas gingivalis
Primary publication:
Crystal structure of Porphyromonas gingivalis dipeptidyl peptidase 4 and structure-activity relationships based on inhibitor profiling.
Rea D, Van Elzen R, De Winter H, Van Goethem S, Landuyt B, Luyten W, Schoofs L, Van Der Veken P, Augustyns K, De Meester I, Fülöp V, Lambeir AM
Eur J Med Chem 139 482-491 (2017)
PMID: 28826083

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-109710 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Dipeptidyl peptidase IV Chain: A
Molecule details ›
Chain: A
Length: 723 amino acids
Theoretical weight: 82.09 KDa
Source organism: Porphyromonas gingivalis
Expression system: Porphyromonas gingivalis
UniProt:
  • Canonical: B2RKU3 (Residues: 1-723; Coverage: 100%)
Gene names: PGN_1469, dppIV
Sequence domains:
Structure domains: alpha/beta hydrolase

Ligands and Environments

1 bound ligand:
Ligand GOL 1 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: Xenocs GeniX 3D Cu HF
Spacegroup: P41212
Unit cell:
a: 109.1Å b: 109.1Å c: 157.81Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.225 0.224 0.255
Expression system: Porphyromonas gingivalis

Quick links

Citations

2 review citations

Porphyromonas gingivalis: where do we stand in our battle against this oral pathogen?
Howard et al. (2021)
1 more

1 mention without citation

Anti-biofilm efficacy of green-synthesized ZnO nanoparticles on oral biofilm: In vitro and in silico study.
Lahiri et al. (2022)