Biophysical and physicochemical methods differentiate highly ligand-efficient human D-amino acid oxidase inhibitors

Many early drug research efforts are too reductionist thereby not delivering key parameters such as kinetics and thermodynamics of target–ligand binding. A set of human D-Amino Acid Oxidase (DAAO) inhibitors 1–6 was applied to demonstrate the impact of key biophysical techniques and physicochemical methods in the differentiation of chemical entities that cannot be adequately distinguished on the basis of their normalized potency (ligand efficiency) values. The resulting biophysical and physicochemical data were related to relevant pharmacodynamic and pharmacokinetic properties. Surface Plasmon Resonance data indicated prolonged target–ligand residence times for 5 and 6 as compared to 1–4, based on the observed koff values. The Isothermal Titration Calorimetry-derived thermodynamic binding profiles of 1–6 to the DAAO enzyme revealed favorable contributions of both ΔH and ΔS to their ΔG values. Surprisingly, the thermodynamic binding profile of 3 elicited a substantially higher favorable contribution of ΔH to ΔG in comparison with the structurally closely related fused bicyclic acid 4. Molecular dynamics simulations and free energy calculations of 1, 3, and 4 led to novel insights into the thermodynamic properties of the binding process at an atomic level and in the different thermodynamic signatures of 3 and 4. The presented holistic approach is anticipated to facilitate the identification of compounds with best-in-class properties at an early research stage.

Graphical abstractA set of human d-amino acid oxidase inhibitors 1–6 was used to demonstrate the impact of key biophysical techniques and physicochemical methods in the differentiation of compounds with comparable potencies.Figure optionsDownload full-size imageDownload as PowerPoint slideHighlights► Current early drug research in general is too reductionist. ► Biophysical techniques differentiated six equipotent human DAAO inhibitors. ► The applied holistic approach identified two best-in-class compounds. ► Dedicated in silico methods explained binding thermodynamics at an atomic level. ► Holistic approaches can identify best-in-class compounds at an early stage.