Design, synthesis and antimicrobial activity of amide derivatives of pyrimidine-piperidine hybrids

A new class of amide derivatives of pyrimidine-piperidine hybrids were designed and synthesized in pursuit of their biological activity towards antimicrobial applications. The synthetic approach allowed for rapid assembly of pyrimidine-piperidine backbone through amide linkages. The designed compounds were analysed through molecular docking for binding affinity with protein receptor (PDB ID:7F72) using schrodinger’s software and the docking score of compounds SB00-1, SB00-3 and SB00-13 showed-6.822,-6.639 and-6.443 respectively. The compounds (SB00-1, SB00-3 and SB00-13) were synthesized, confirmed by spectroscopic techniques such as IR, NMR and mass spectrometry and performed their in-vitro antimicrobial activity against S. aureus (gram-positive) and E. coli (gram-negative) bacteria using vancomycin as reference drug. Some derivatives (SB00-3 and SB00-13) represented potent inhibitory activities and compound SB00-1 (zone of inhibition = 2.2 cm for gram positive and 2.1 cm for gram negative bacteria) was more active than the standard drug (vancomycin zone of inhibition = 2.0 cm). It can be concluded from the results that the amide-linked pyrimidine-piperidine hybrids are potentially considered as the lead molecules for the discovery of novel antimicrobial agents.