Investigation of mechanism-based thrombin inhibitors: Implications of a highly conserved water molecule for the binding of coumarins within the S pocket

Bioorg Med Chem Lett. 2006 Apr 1;16(7):2017-21. doi: 10.1016/j.bmcl.2005.12.070. Epub 2006 Jan 18.

Abstract

The synthesis of novel coumarins bearing on the lateral side chain in the 3-position an amine or a guanidine group is described. In vitro evaluation highlighted 14d which possesses a meta aniline side chain as a very potent THR inhibitor. Surprisingly, the introduction of a guanidine moiety always led to a decrease in THR inhibiting properties. We, thus, used docking experiments to rationalize the SAR in the series. This study showed the crucial role of a conserved water molecule in the specificity pocket of THR during docking simulation in order to explain the inactivity of guanidine derivatives.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Antithrombins / chemistry*
  • Binding Sites
  • Coumarins / chemistry*
  • Models, Molecular
  • Water / chemistry*

Substances

  • Antithrombins
  • Coumarins
  • Water
  • coumarin