Hello all, I have tried using trjconv -pbc(all options) to get a continuous trjactoary visulations on VMD. I am modeling an 11 residue receptor antiparellel to itself and one of the receptor strand jumps outside the box sometimes.
I have used search to solve the problem but everthing i tried didnt work and the -pbc just makes it worse. I tried using the -pbc nojump alone and this made my two receptor strands away from each other all the way (one inside and one outside the box). However i want them to be close together since they are hydrogen bonded. I have also tried: nojump then whole; whole then nojump and they make the receptor just fly around or pieces of it stretch. anyhelp is appreciated. Belquis _______________________________________________ gmx-users mailing list gmx-users@gromacs.org http://www.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to [EMAIL PROTECTED] Can't post? Read http://www.gromacs.org/mailing_lists/users.php
