editconf -princ will put the long axis of the protein in x-direction, after that you may need editconf -rotate 0 90 0 -c to make it in z-direction
-Jianguo ----- Original Message ----- From: Shima Arasteh <[email protected]> To: Discussion list for GROMACS users <[email protected]> Cc: Sent: Tuesday, 11 September 2012, 15:18 Subject: [gmx-users] Orientation of protein Hi all, I used this command to put the orientation of protein in z-direction, but didn't work! # editconf -princ -f protein.pdb -o protein-princ.pdb Any suggstions? Is it not the correct command? Sincerely, Shima -- gmx-users mailing list [email protected] http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/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/Support/Mailing_Lists -- gmx-users mailing list [email protected] http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/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/Support/Mailing_Lists
