Molecular dynamics and computational study of Mannich-based coumarin derivatives: Potent tyrosine kinase inhibitor.

The manifestation of bacterial UTI (Urinary Tract Infection) has been predominantly endemic, globally; eventually, the development of new UTI anti-bacterial agent(s) remains the call of the day. Herein, two series of Mannich-based 4-hydroxy coumarin derivatives, 7a-m and 8a-m were designed by suitable heterocyclic amines condensed with aldehydes. The synthesized molecules were interpreted by ¹H and ¹³C NMR spectral analyses with in vitro antibacterial studies. The compound, 4-hydroxy-3-((4-hydroxy-3-methoxyphenyl)(morpholino)methyl)-2H-chromen-2-one 8l was the significant derivative against pathogenic bacteria Staphylococcus aureus and Escherichia coli with MIC values 12.50 and 25µM, respectively. Computational assessments with the Lipinski's rule of five, ADMET properties and molecular docking studies revealed that analogues, 7f, 7l, 8d, 8j and 8k could be potent druggable molecules with significant binding affinity towards bacterial tyrosine kinase, as target. To understand the mode of binding and intrinsic stabilities of potent receptor-ligand complexes, each system was subjected molecular dynamics simulations for 100 ns. Inter-molecular contact analysis and intrinsic hydrogen-bond stability portrayed the analogues 8l form a number of non-bonded contacts with the receptor tyrosine kinase being mostly dominated by electrostatic and hydrophobic contacts. The results from the present structure-based designing approach might be a valuable tool towards identification of a new antibacterial drug candidate(s) against UTI in near future.List of Abbreviations: 4-HC, 4-hydroxy coumarin; ADMET, absorption, distribution, metabolism, excretion, toxicity; DCE, 1,2-dichloroethane; DCM, dichloromethane; DMSO, dimethyl sulfoxide ; MD, molecular dynamics; MIC, minimum inhibitory concentration; NMR, nuclear magnetic resonance; NPT, isothermal isobaric ensembles; NVT, canonical ensembles; PCA, principal component analysis; PDB, protein data bank; Rg, radius gyration, RMSF, root mean square fluctuations RSMD, root mean square deviation; UTI, Urinary Tract Infection.