5MAT

Structure of human Sirtuin 2 in complex with a selective thienopyrimidinone based inhibitor

Summary for 5MAT

• Entry DOI: 10.2210/pdb5mat/pdb
• Descriptor: NAD-dependent protein deacetylase sirtuin-2, ZINC ION, (7~{R})-7-[(3,5-dimethyl-1,2-oxazol-4-yl)methylamino]-3-[(4-methoxynaphthalen-1-yl)methyl]-5,6,7,8-tetrahydro-[1]benzothiolo[2,3-d]pyrimidin-4-one, ... (7 entities in total)
• Functional Keywords: nad-dependent protein deacylase, sirtuin, inhibitor complex, hydrolase
• Biological source: Homo sapiens (Human)
• Cellular location: Nucleus. Isoform 1: Cytoplasm . Isoform 2: Cytoplasm . Isoform 5: Cytoplasm : Q8IXJ6
• Total number of polymer chains: 2
• Total formula weight: 71172.22

Authors

Moniot, S.,Steegborn, C. (deposition date: 2016-11-04, release date: 2017-02-08, Last modification date: 2024-01-17)

Primary citation

Sundriyal, S.,Moniot, S.,Mahmud, Z.,Yao, S.,Di Fruscia, P.,Reynolds, C.R.,Dexter, D.T.,Sternberg, M.J.,Lam, E.W.,Steegborn, C.,Fuchter, M.J.
Thienopyrimidinone Based Sirtuin-2 (SIRT2)-Selective Inhibitors Bind in the Ligand Induced Selectivity Pocket.
J. Med. Chem., 60:1928-1945, 2017

PubMed Abstract: Sirtuins (SIRTs) are NAD-dependent deacylases, known to be involved in a variety of pathophysiological processes and thus remain promising therapeutic targets for further validation. Previously, we reported a novel thienopyrimidinone SIRT2 inhibitor with good potency and excellent selectivity for SIRT2. Herein, we report an extensive SAR study of this chemical series and identify the key pharmacophoric elements and physiochemical properties that underpin the excellent activity observed. New analogues have been identified with submicromolar SIRT2 inhibtory activity and good to excellent SIRT2 subtype-selectivity. Importantly, we report a cocrystal structure of one of our compounds (29c) bound to SIRT2. This reveals our series to induce the formation of a previously reported selectivity pocket but to bind in an inverted fashion to what might be intuitively expected. We believe these findings will contribute significantly to an understanding of the mechanism of action of SIRT2 inhibitors and to the identification of refined, second generation inhibitors.

PubMed: 28135086
DOI: 10.1021/acs.jmedchem.6b01690

Experimental method

X-RAY DIFFRACTION (2.069 Å)