› 1uho

X-ray diffraction
2.5Å resolution

Crystal structure of Human Phosphodiesterase 5 complexed with Vardenafil(Levitra)

Released:
DOI: 10.2210/pdb1uho/pdb
PDB entry 1uho coloured by chain, front view.
PDB entry 1uho coloured by chain, side view.
PDB entry 1uho coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of the catalytic domain of human phosphodiesterase 5 with bound drug molecules.
Sung BJ, Hwang KY, Jeon YH, Lee JI, Heo YS, Kim JH, Moon J, Yoon JM, Hyun YL, Kim E, Eum SJ, Park SY, Lee JO, Lee TG, Ro S, Cho JM
Nature 425 98-102 (2003)
PMID: 12955149

Function and Biology Details

Reaction catalysed: 
Guanosine 3',5'-cyclic phosphate + H(2)O = guanosine 5'-phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-131208 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
cGMP-specific 3',5'-cyclic phosphodiesterase Chain: A
Molecule details ›
Chain: A
Length: 324 amino acids
Theoretical weight: 37.53 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O76074 (Residues: 537-860; Coverage: 37%)
Gene names: PDE5, PDE5A
Sequence domains: 3'5'-cyclic nucleotide phosphodiesterase
Structure domains: 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain

Ligands and Environments

3 bound ligands:
Ligand ZN 1 x ZN
Ligand MG 1 x MG
Ligand VDN 1 x VDN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PAL/PLS BEAMLINE 6B
Spacegroup: C2221
Unit cell:
a: 60.523Å b: 156.721Å c: 89.983Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.199 0.197 0.21
Expression system: Escherichia coli

Quick links

Citations

24 review citations

Biochemistry and physiology of cyclic nucleotide phosphodiesterases: essential components in cyclic nucleotide signaling.
Conti et al. (2007)
23 more

5 mentions without citation

Identification of a Novel 1,2,3,4-Tetrahydrobenzo[b][1,6]naphthyridine Analogue as a Potent Phosphodiesterase 5 Inhibitor with Improved Aqueous Solubility for the Treatment of Alzheimer's Disease.
Fiorito et al. (2017)
4 more