HDAC7 Inhibition by Phenacetyl and Phenylbenzoyl Hydroxamates

J Med Chem. 2021 Feb 25;64(4):2186-2204. doi: 10.1021/acs.jmedchem.0c01967. Epub 2021 Feb 11.

Abstract

The zinc-containing histone deacetylase enzyme HDAC7 is emerging as an important regulator of immunometabolism and cancer. Here, we exploit a cavity in HDAC7, filled by Tyr303 in HDAC1, to derive new inhibitors. Phenacetyl hydroxamates and 2-phenylbenzoyl hydroxamates bind to Zn2+ and are 50-2700-fold more selective inhibitors of HDAC7 than HDAC1. Phenylbenzoyl hydroxamates are 30-70-fold more potent HDAC7 inhibitors than phenacetyl hydroxamates, which is attributed to the benzoyl aromatic group interacting with Phe679 and Phe738. Phthalimide capping groups, including a saccharin analogue, decrease rotational freedom and provide hydrogen bond acceptor carbonyl/sulfonamide oxygens that increase inhibitor potency, liver microsome stability, solubility, and cell activity. Despite being the most potent HDAC7 inhibitors to date, they are not selective among class IIa enzymes. These strategies may help to produce tools for interrogating HDAC7 biology related to its catalytic site.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Benzamides / chemical synthesis
  • Benzamides / metabolism
  • Benzamides / pharmacology*
  • Benzeneacetamides / chemical synthesis
  • Benzeneacetamides / metabolism
  • Benzeneacetamides / pharmacology*
  • Biphenyl Compounds / chemical synthesis
  • Biphenyl Compounds / metabolism
  • Biphenyl Compounds / pharmacology
  • Histone Deacetylase Inhibitors / chemical synthesis
  • Histone Deacetylase Inhibitors / metabolism
  • Histone Deacetylase Inhibitors / pharmacology*
  • Histone Deacetylases / metabolism*
  • Humans
  • Hydroxamic Acids / chemical synthesis
  • Hydroxamic Acids / metabolism
  • Hydroxamic Acids / pharmacology*
  • Molecular Docking Simulation
  • Molecular Structure
  • Protein Binding
  • Structure-Activity Relationship
  • THP-1 Cells

Substances

  • Benzamides
  • Benzeneacetamides
  • Biphenyl Compounds
  • Histone Deacetylase Inhibitors
  • Hydroxamic Acids
  • HDAC7 protein, human
  • Histone Deacetylases