8PY3 image
Entry Detail
PDB ID:
8PY3
Keywords:
Title:
Crystal structure of human Sirt2 in complex with a 1,2,4-oxadiazole based inhibitor
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2023-07-24
Release Date:
2024-06-19
Method Details:
Experimental Method:
Resolution:
1.65 Å
R-Value Free:
0.18
R-Value Work:
0.16
R-Value Observed:
0.16
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:NAD-dependent protein deacetylase sirtuin-2
Chain IDs:A
Chain Length:304
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
Structure-Activity Studies of 1,2,4-Oxadiazoles for the Inhibition of the NAD + -Dependent Lysine Deacylase Sirtuin 2.
J.Med.Chem. 67 10076 10095 (2024)
PMID: 38847803 DOI: 10.1021/acs.jmedchem.4c00229

Abstact

The NAD+-dependent lysine deacylase sirtuin 2 (Sirt2) is involved in multiple pathological conditions such as cancer. Targeting Sirt2 has thus received an increased interest for therapeutic purposes. Furthermore, the orthologue from Schistosoma mansoni (SmSirt2) has been considered for the potential treatment of the neglected tropical disease schistosomiasis. We previously identified a 1,2,4-oxadiazole-based scaffold from the screening of the "Kinetobox" library as a dual inhibitor of human Sirt2 (hSirt2) and SmSirt2. Herein, we describe the structure-activity studies on 1,2,4-oxadiazole-based analogues, which are potent inhibitors of human Sirt2 deacetylation. As proposed by docking studies, a substrate-competitive and cofactor-noncompetitive binding mode of inhibition could be determined in vitro via binding assays and kinetic analysis and further confirmed by a crystal structure of an oxadiazole inhibitor in complex with hSirt2. Optimized analogues reduced cell viability and inhibited prostate cancer cell migration, in correlation with Sirt2 deacetylase inhibition both in vitro and in cells.

Legend

Protein

Chemical

Disease

Primary Citation of related structures