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    • Volume 131 Issue 2 February 2019 Article ID 0016

      Molecular dynamics based antimicrobial activity descriptors for synthetic cationic peptides

      MALAY RANJAN BISWAL SANDHYA RAI MEHER K PRAKASH

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      There is an urgent need to identify novel antimicrobial drugs in light of the development of resistance by the bacteria for a broad spectrum of antibiotics. Antimicrobial peptides are proving to be an effective remedy to which bacteria have not been able to develop resistance easily. With the goal of progressing towards a rational design of AMPs, we developed a neural network based quantitative model relating their physicochemical properties to their activity. A set of synthetic cationic polypeptides (CAMEL-s) (Mee et al. in J. Peptide Res.49:89, 1997) which were studied systematically in experiments was used in the development of our model. Intuitive variables derived from short molecular dynamics simulations in octanol were used as descriptors, resulting in a good prediction of activity and underscoring the possibility of a rational design.

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