7CWG image
Deposition Date 2020-08-28
Release Date 2021-09-01
Last Version Date 2024-10-16
Entry Detail
PDB ID:
7CWG
Keywords:
Title:
Crystal structure of PDE8A catalytic domain in complex with 3a
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.80 Å
R-Value Free:
0.31
R-Value Work:
0.27
R-Value Observed:
0.27
Space Group:
C 2 2 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:High affinity cAMP-specific and IBMX-insensitive 3',5'-cyclic phosphodiesterase 8A
Gene (Uniprot):PDE8A
Chain IDs:A
Chain Length:338
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
Rational Design of 2-Chloroadenine Derivatives as Highly Selective Phosphodiesterase 8A Inhibitors.
J.Med.Chem. 63 15852 15863 (2020)
PMID: 33291877 DOI: 10.1021/acs.jmedchem.0c01573

Abstact

To validate the hypothesis that Tyr748 is a crucial residue to aid the discovery of highly selective phosphodiesterase 8A (PDE8A) inhibitors, we identified a series of 2-chloroadenine derivatives based on the hit clofarabine. Structure-based design targeting Tyr748 in PDE8 resulted in the lead compound 3a (IC50 = 0.010 μM) with high selectivity with a reasonable druglike profile. In the X-ray crystal structure, 3a bound to PDE8A with a different mode from 3-isobutyl-1-methylxanthine (a pan-PDE inhibitor) and gave a H-bond of 2.7 Å with Tyr748, which possibly interprets the 220-fold selectivity of 3a against PDE2A. Additionally, oral administration of compound 3a achieved remarkable therapeutic effects against vascular dementia (VaD), indicating that PDE8 inhibitors could serve as potential anti-VaD agents.

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Primary Citation of related structures