RT Journal Article
SR Electronic
T1 DFT Modelling of the Electronic Structure and Stabilities of (Sb<sub>2</sub>O<sub>5</sub>.nH<sub>2</sub>O) Clusters towards Cysteine, Glucose and Trypanothione Complexation
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.06.29.177360
DO 10.1101/2020.06.29.177360
A1 Hassan Rabaa
A1 Andriy Garfov
A1 Dage Sundholm
YR 2020
UL http://biorxiv.org/content/early/2020/06/29/2020.06.29.177360.abstract
AB A large series of dipeptides containing sulfur groups and antimony SbV were modeled to understand their inhibitor activity against Leishmaniasis. The trypanothione reductase (TR), which acts as a reducing agent in several vital processes, is responsible for maintaining the parasite’s cellular thiol redox balance. The antimonic SbV acid (Sb2O5·nH2O) is being evaluated as a drug with inhibitory activity against Leishmaniasis. In the present work, we investigated the inhibitory effect of antimony oxide on (TR) activity modeled as a substrate by probing two model clusters in gas phase and continuum water medium: A [(Sb2O10H8)]−2 coordinated to cysteine, and B [Sb7O28H21] coordinated to trypanothione, including glucose adduct. We report here density functional theory (DFT and DFT-D3) using (B3LYP/LANL2DZ and (TPSS/def2TZVP) results on the binding energy of cysteine and trypanthione complexed to these clusters as possible sites promoting the inhibition process. Upon viewing the results of the computational studies of cluster models and theoretical thermochemistry data for receptor-substrate interactions, identification of ligand-cluster interactions helps to unravel the mechanism of inhibition. The acidity of (Sb2O5,nH2O) leads to great cluster-dipeptide passivation. The electrostatic forces between cluster interface and dipeptide interaction present relevant inhibition effects through proton transfer or mobility from the different amine and ketone groups. The reactivity differences come from the unoccupied lone pairs 5pSb which lie at higher energy but remain available to make a good interaction with the lowest orbital p nitrogen in NH2, and in the CO groups substrate fragment in the zone HOMO-LUMO. Further cluster stability comparisons show a lower Gibbs free energy in B3 (B/trypanthione/glucose) (18 – 30 kcal/mol) at both used level in this study and gives good accurate intramolecular interactions, confirmed by the use of the dispersion-corrected density functional (DFT-D3). Given the dipeptide H-mobility and the (Sb2O5,nH2O) cluster acidity, (donor-acceptor duality), the system is predicted to be potent cluster of the inhibitors by endothermic and spontaneous reaction requiring 3.10 kcal/mol in aqueous medium.