Docking of oligopeptides

Abstract

The paper presents the results concerning the use of the supercomputer docking program SOL-P, which performs a search for low-energy minima of protein—ligand complexes in the MMFF94 force field without using a grid of precalculated potentials for protein—ligand interactions. The SOL-P docking program can be applied to the generalized docking of ligands with a large number of internal rotational degrees of freedom (torsions). This program is based on a tensor train global optimization algorithm. The SOL-P program was successfully applied to the docking of oligopeptide ligands consisting of 3–6 amino acid residues and having 18–25 internal rotational degrees of freedom.