From: Deng, Jinxia (Nancy) (
Date: Mon Feb 15 2016 - 10:51:28 CST

Hi All,

I am attempting to analyze MD trajectory from NAMD by VMD.

I really like the plugin for H-bond contact describes the H-bond interaction between two selections( peptide and lipid membrane is what I am interested), but wonder whether any one would like to advice me how to analyze the hydrophobic contact between peptide and lipid, such as C(peptide)-C(lipid) interaction...

Any input is greatly appreciated.



Nancy Deng, Ph.D. | Principal Scientist, Computational Chemistry & Molecular Modeling
Zoetis Inc| Global Therapeutics Research | 333 Portage Street, Kalamazoo, MI 49007
Office: 2693599121 |