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Electronic properties investigation of human dihydrofolate reductase complexes with ligands

Naumovich, V.
Grishina, M.
Novak, J.
Pathak, P.
Potemkin, V.
Shahbaaz, M.
Abdellattif, M.H.
Abstract
Despite the fact that there are already drugs for cancer, they still show strong toxicity to the human organism. That is why it is necessary to establish the factors affecting activity in order to develop new, more effective drugs aimed at tumor cells, minimizing harm to healthy cells. The present research is based on electronic properties calculation of the complexes using AlteQ approach. In the focus of this study are complexes of human dihydrofolate reductase (hDHFR) with a series of known inhibitors bound in the active site. Further, a statistical analysis was performed to establish the relationships between a myriad electronic characteristics and IC50. The change in total volume and the change of own electrons number of hydrogen atoms in their atomic basins are identified as the descriptors correlating the most with the hDHFR inhibition potency. Additionally, two lipophilic parts of protein (Thr56, Ser59, Ile60 and Ile7, Val8, Ala9) were found, which act as a key factor in decreasing bioactivity. The depth analysis of intermolecular interactions showed that the interactions between water molecules and ligand play a crucial role in hDHFR inhibition. Furthermore, the molecular dynamics simulations were used for deeper understanding of the structural inhibition, each for 50 ns time scale in explicit water conditions. Thus, the AlteQ approach made it possible to determine the factors influencing the activity and evaluate them not only qualitatively, but also quantitatively.Communicated by Ramaswamy H. Sarma.
Description
Date
2020
Journal Title
Journal ISSN
Volume Title
Publisher
Taylor and Francis
Research Projects
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Keywords
AlteQ approach , DHFR activity , DHFR-ligand complexes , Electron density , Quantum theory of atoms
Citation
Naumovich V, Grishina M, Novak J, et al. Electronic properties investigation of human dihydrofolate reductase complexes with ligands. J Biomol Struct Dyn. 2022 Jul;40(11):4775-4790. doi: 10.1080/07391102.2020.1861985.
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