Role of hydrogen bonding in ligand interaction with the N-methyl-D-aspartate receptor ion channel

J Med Chem. 1990 May;33(5):1296-305. doi: 10.1021/jm00167a005.

Abstract

Displacement of [3H]MK-801 (dizocilpine, 1) binding to rat brain membranes has been used to evaluate the affinities of novel dibenzocycloalkenimines related to 1 for the ion channel binding site (also known as the phencyclidine or PCP receptor) on the N-methyl-D-aspartate (NMDA) subtype of excitory amino acid receptor. In common with many other agents having actions in the central nervous system, these compounds contain a hydrophobic aromatic moiety and a basic nitrogen atom. The conformational rigidity of these ligands provides a unique opportunity to evaluate the importance of specific geometrical properties that influence active-site recognition, in particular the role of the nitrogen atom in hydrogen-bonding interactions. The relative affinities (IC50s) of hydrocarbon-substituted analogues of 1 and ring homologated cyclooctenimines illustrate the importance of size-limited hydrophobic binding of both aryl rings and of the quaternary C-5 methyl group. Analysis of the binding of a series of the 10 available structurally rigid dibenzoazabicyclo[x.y.z]alkanes, by using molecular modeling techniques, uncovered a highly significant correlation between affinity and a proposed ligand-active site hydrogen bonding vector (r = 0.950, p less than 0.001). These results are used to generate a pharmacophore of the MK-801 recognition site/PCP receptor, which accounts for the binding of all of the known ligands.

MeSH terms

  • Animals
  • Anticonvulsants / chemical synthesis
  • Anticonvulsants / metabolism
  • Anticonvulsants / pharmacology*
  • Binding Sites
  • Cerebral Cortex / drug effects
  • Cerebral Cortex / metabolism
  • Dibenzocycloheptenes / metabolism
  • Dizocilpine Maleate
  • Hydrogen Bonding
  • Ion Channels / drug effects
  • Ligands
  • Models, Molecular
  • Rats
  • Receptors, N-Methyl-D-Aspartate
  • Receptors, Neurotransmitter / drug effects*
  • Receptors, Neurotransmitter / metabolism
  • Structure-Activity Relationship
  • Tritium

Substances

  • Anticonvulsants
  • Dibenzocycloheptenes
  • Ion Channels
  • Ligands
  • Receptors, N-Methyl-D-Aspartate
  • Receptors, Neurotransmitter
  • Tritium
  • Dizocilpine Maleate