As a said the -hbn option in g_hbond is probably not informative in your case. First tell us what do you really want to observe? The no. of hydrogen bonds between specific amino acid residues and your ligand binding sites? If yes, use g_hbond with -num option that will give you the exact no of hydrogen bonds (second column of the num.xvg output file) and if you want to perform a kinetic analysis of hydrogen bond formation use the -ac flag. >From the part of the file you sent in the previous mail I can not understand what exactly you want to achieve from g_hbond.
Cheers, Soumadwip -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-requ...@gromacs.org.
