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SQM/COSMO Scoring Function: Reliable Quantum-Mechanical Tool for Sampling and Ranking in Structure-Based Drug Design

Chempluschem. 2020-06-01; 
Adam Pecina, Saltuk M Eyrilmez, Cemal Köprülüoğlu, Vijay Madhav Miriyala, Martin Lepšík, Jindřich Fanfrlík, Jan Řezáč, Pavel Hobza
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Peptide Synthesis … assay. Ten μL of colouring agent (DTNB) was added in each assay reaction. Peptide inhibitors (GenScript Corporation, Piscataway, NJ, USA) were dissolved in dimethyl sulfoxide and only 5 μL added to the assay. Peptide concentrations … Get A Quote

摘要

Quantum mechanical (QM) methods have been gaining importance in structure-based drug design where a reliable description of protein-ligand interactions is of utmost significance. However, strategies i. e. QM/MM, fragmentation or semiempirical (SQM) methods had to be pursued to overcome the unfavorable scaling of QM methods. Various SQM-based approaches have significantly contributed to the accuracy of docking and improvement of lead compounds. Parametrizations of SQM and implicit solvent methods in our laboratory have been instrumental to obtain a reliable SQM-based scoring function. The experience gained in its application for activity ranking of ligands binding to tens of protein targets resulted in setting... More

关键词

in silico drug design, protein-ligand binding, quantum mechanics, semiempirical methods, virtual screening
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