6L6E image
Entry Detail
PDB ID:
6L6E
Keywords:
HYDROLASE/HYDROLASE INHIBITOR
Title:
Human PDE5 catalytic core in complex with avanafil
Biological Source:
Source Organism:
Homo sapiens
Host Organism:
Escherichia coli BL21(DE3)
PDB Version:
Deposition Date:
2019-10-28
Release Date:
2020-09-02
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
1.92 Å
R-Value Free:
0.20
R-Value Work:
0.19
Space Group:
P 43 21 2
6L6E validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Description:cGMP-specific 3',5'-cyclic phosphodiesterase
Chain IDs:A
Chain Length:335
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O76074 Pfam ID:PF00233 EC:3.1.4.35
Ligand Molecules
E6L
MG
SO4
ZN
Primary Citation
Structure of Human Phosphodiesterase 5A1 Complexed with Avanafil Reveals Molecular Basis of Isoform Selectivity and Guidelines for Targeting alpha-Helix Backbone Oxygen by Halogen Bonding.
J.Med.Chem. 63 8485 8494 (2020)
PMID: 32663396 DOI: 10.1021/acs.jmedchem.0c00853

Abstact

Phosphodiesterase 5A1 (PDE5) is a key target for treating cardiovascular diseases and erectile dysfunction. Here, we report the crystal structure of PDE5 complexed with the sole second generation drug avanafil. Analysis of protein-drug interactions revealed the structural basis of avanafil's superior isoform selectivity. Moreover, a halogen bonding was observed between avanafil and a backbone carbonyl oxygen of an adjacent α-helix, whose contribution to inhibitory potency illustrates the feasibility of exploiting α-helix backbone in structure-based drug design.

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Primary Citation of related structures
6L6E