Computational insights into the interaction mechanism of triazolyl substituted tetrahydrobenzofuran derivatives with H+,K+-ATPase at different pH

• Published in: Journal of computer-aided molecular design 2016-01, Vol.30 (1), p.27-37
• Main Authors: Luo, Hua-Jun, Wang, Jun-Zhi, Huang, Nian-Yu, Deng, Wei-Qiao, Zou, Kun
• Format: Article
• Language: English
• Subjects: Amino Acid Sequence; Animal Anatomy; Animals; Benzofurans - chemistry; Benzofurans - pharmacology; Binding Sites; Chemistry; Chemistry and Materials Science; Computer Applications in Chemistry; H(+)-K(+)-Exchanging ATPase - chemistry; H(+)-K(+)-Exchanging ATPase - metabolism; Histology; Hydrogen-Ion Concentration; Molecular Docking Simulation; Molecular Sequence Data; Morphology; Physical Chemistry; Proton Pump Inhibitors - chemistry; Proton Pump Inhibitors - pharmacology; Sequence Alignment; Swine; Thermodynamics
• ISSN: 0920-654X; 1573-4951
• DOI: 10.1007/s10822-015-9886-8

The interaction mechanism of triazolyl substituted tetrahydrobenzofuran derivatives (compound 1 (N, N-Dipropyl-1-(2-phenyl-4,5,6,7-tetrahydrobenzofuran-4-yl)-1H-1,2,3-triazole-4-methanamine) and 2 (1-(2-Phenyl-4,5,6,7-tetrahydrobenzofuran-4-yl)-4-(morpholin-4-ylmethyl)-1H-1,2,3-triazole)) with H + ,K + -ATPase at different pH were studied by induced-fit docking, QM/MM optimization and MM/GBSA binding free energy calculations of two forms (neutral and protonated form) of compounds. The inhibition activity of compound 1 is measured and almost unchanged at different pH, while the activity of compound 2 increases significantly with pH value decreased. This phenomenon could be explained by their protonated form percentages and the calculated binding free energies of protonated and neutral mixture of compounds at different pH. The binding free energy of protonated form is higher than that of neutral form of compound, and the protonated form could be a powerful inhibitor of H + ,K + -ATPase. By the decomposed energy comparisons of residues in binding sites, Asp137 should be the key binding site to protonated form of compound because of the hydrogen bond and electrostatic interactions. These calculation results could help for further rational design of novel H + ,K + -ATPase inhibitors.