ISDA: 4IA0

Deposition Date 2012-12-05

Release Date 2014-01-01

Last Version Date 2024-10-16

Entry Detail

PDB ID:

4IA0

Keywords:

HYDROLASE/HYDROLASE INHIBITOR

Title:

Crystal structure of the PDE5A1 catalytic domain in complex with novel inhibitors

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.17 Å

R-Value Free:

0.25

R-Value Work:

0.21

R-Value Observed:

0.21

Space Group:

P 31 2 1

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:cGMP-specific 3',5'-cyclic phosphodiesterase
Gene (Uniprot):PDE5A
Chain IDs:A
Chain Length:347
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:O76074 Pfam ID:PF00233 EC:3.1.4.35

Ligand Molecules

5BB

Primary Citation

Exploration of the 5-bromopyrimidin-4(3H)-ones as potent inhibitors of PDE5.

Gong, X, Wang, G, Ren, J, Liu, Z, Wang, Z, Chen, T, Yang, X, Jiang, X, Shen, J, Jiang, H, Aisa, H.A, Xu, Y, Li, J.Show

Bioorg.Med.Chem.Lett. 23 4944 4947 (2013)

PMID: 23867165 DOI: 10.1016/j.bmcl.2013.06.062

Abstact

The substituents both at the 6-position of the 5-bromopyrimidinone ring and at the 5'-position of the phenyl ring of 5-bromopyrimidin-4(3H)-ones were explored. 5-Bromo-6-isopropyl-2-(2-propoxy-phenyl)pyrimidin-4(3H)-one was identified as a new scaffold for potent PDE5 inhibitors. The crystal structures of PDE5/2e and PDE5/10a complexes provided a structural basis for the inhibition of 5-bromopyrimidinones to PDE5. In addition, it was also found that there is a great tolerance for the substitution at the 5'-position of the phenyl ring of 5-bormopyrimidinones and the resulted compound 13a has the highest inhibition activity to PDE5 (IC50, 1.7 nM).

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