5IX0

HDAC2 WITH LIGAND BRD7232

Summary for 5IX0

• Entry DOI: 10.2210/pdb5ix0/pdb
• Related: 5IWG
• Descriptor: Histone deacetylase 2, ZINC ION, CALCIUM ION, ... (10 entities in total)
• Functional Keywords: hdac histone deacetylase, hydrolase
• Biological source: Homo sapiens (Human)
• Cellular location: Nucleus : Q92769
• Total number of polymer chains: 3
• Total formula weight: 131245.71

Authors

Steinbacher, S. (deposition date: 2016-03-23, release date: 2016-08-31, Last modification date: 2024-03-06)

Primary citation

Wagner, F.F.,Weiwer, M.,Steinbacher, S.,Schomburg, A.,Reinemer, P.,Gale, J.P.,Campbell, A.J.,Fisher, S.L.,Zhao, W.N.,Reis, S.A.,Hennig, K.M.,Thomas, M.,Muller, P.,Jefson, M.R.,Fass, D.M.,Haggarty, S.J.,Zhang, Y.L.,Holson, E.B.
Kinetic and structural insights into the binding of histone deacetylase 1 and 2 (HDAC1, 2) inhibitors.
Bioorg.Med.Chem., 24:4008-4015, 2016

PubMed Abstract: The structure-activity and structure-kinetic relationships of a series of novel and selective ortho-aminoanilide inhibitors of histone deacetylases (HDACs) 1 and 2 are described. Different kinetic and thermodynamic selectivity profiles were obtained by varying the moiety occupying an 11Å channel leading to the Zn(2+) catalytic pocket of HDACs 1 and 2, two paralogs with a high degree of structural similarity. The design of these novel inhibitors was informed by two ligand-bound crystal structures of truncated hHDAC2. BRD4884 and BRD7232 possess kinetic selectivity for HDAC1 versus HDAC2. We demonstrate that the binding kinetics of HDAC inhibitors can be tuned for individual isoforms in order to modulate target residence time while retaining functional activity and increased histone H4K12 and H3K9 acetylation in primary mouse neuronal cell culture assays. These chromatin modifiers, with tuned binding kinetic profiles, can be used to define the relation between target engagement requirements and the pharmacodynamic response of HDACs in different disease applications.

PubMed: 27377864
DOI: 10.1016/j.bmc.2016.06.040

Experimental method

X-RAY DIFFRACTION (1.72 Å)