7922 compounds were downloaded from NPC database (https://tripod.nih.gov/npc/). In order to eliminate the non-specific binders, some criteria including molecular weight, between 100 to 1000 g/mol; number of rotatable bonds, <100; number of atoms, between 10 and 100; number of aliphatic and aromatic rings, <10; number of hydrogen-bond acceptor and donors, <10 were set and as a result the total number of compounds was decreased to 6654. These ligands were prepared using LigPrep module of Maestro at neutral pH (LigPrep, Schrodinger v.2017). In molecular docking, we used following protein structure: Spike Protein/ACE-2, (PDB, 6M0J). The protein was prepared using Protein Preparation module of Maestro. PROPKA was used for determination of protonation states of amino acid residues. Restrained minimization was performed with OPLS3 force field for the protein using 0.3 Å heavy atom convergence. Docking was performed with Glide/SP using default settings. Top-100 docking poses were provided.

For more information: durdagilab.com, E-mail: serdar.durdagi@med.bau.edu.tr