[gmx-users] Gmx hbond

farial tavakoli farial.tavakoli at ymail.com
Fri Aug 4 17:13:23 CEST 2017

 blockquote, div.yahoo_quoted { margin-left: 0 !important; border-left:1px #715FFA solid !important; padding-left:1ex !important; background-color:white !important; }  Dear gromacs user
I am performing protein ligand complex (t4lysosim) and now i need to analyze JZ4 hydrogen bonding, but when i type Gmx hbondThere is no JZ4 in the list to choose. It is because of i used :Gmx make_ndx -f em.gro -o index.ndxAnd merged the " protein " and " JZ4" groupsIs there anyone help me how to check the hydrogen bond of JZ4 ligand? 
Thanks in advanceFarial

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