Molecular modifications on carboxylic acid derivatives as potent histone deacetylase inhibitors: Activity and docking studies

Bioorg Med Chem. 2009 Jul 15;17(14):5219-28. doi: 10.1016/j.bmc.2009.05.042. Epub 2009 May 23.


In the light of known HDAC inhibitors, 33 carboxylic acid derivatives were tested to understand the structural requirements for HDAC inhibition activity. Several modifications were applied to develop the structure-activity relationships of carboxylic acid HDAC inhibitors. HDAC inhibition activities were investigated in vitro by using HeLa nuclear extract in a fluorimetric assay. Molecular docking was also carried out for the human HDAC8 enzyme in order to predict inhibition activity and the 3D poses of inhibitor-enzyme complexes. Of these compounds, caffeic acid derivatives such as chlorogenic acid and curcumin were found to be highly potent compared to sodium butyrate, which is a well-known HDAC inhibitor.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Caffeic Acids / chemistry
  • Caffeic Acids / pharmacology
  • Carboxylic Acids / chemistry*
  • Carboxylic Acids / pharmacology*
  • Catalytic Domain
  • Chlorogenic Acid / chemistry
  • Chlorogenic Acid / pharmacology
  • Curcumin / chemistry
  • Curcumin / pharmacology
  • Enzyme Inhibitors / chemistry*
  • Enzyme Inhibitors / pharmacology*
  • HeLa Cells
  • Histone Deacetylase Inhibitors*
  • Histone Deacetylases / metabolism*
  • Humans
  • Models, Molecular
  • Molecular Structure
  • Protein Binding


  • Caffeic Acids
  • Carboxylic Acids
  • Enzyme Inhibitors
  • Histone Deacetylase Inhibitors
  • Chlorogenic Acid
  • Histone Deacetylases
  • Curcumin
  • caffeic acid