I've used Macromolecular Builder for inserting loops in proteins. You'll need further minimization and dynamics to get a relaxed structure though, but that's where Gromacs comes in.
Erik 30 aug 2012 kl. 18.07 skrev shahid nayeem: > Dear all > I am repeating this mail as it could not get uploaded on site. Please > suggest me that whether I can insert 15 residue sequence in an > existing pdb file and can I get the minimized altered coordinates from > here. If not then please suggest an external software or server where > I can model this protein and get the pdb of protein with inserted > peptide segment. > shahid Nayeem > -- > 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 ----------------------------------------------- Erik Marklund, PhD Dept. of Cell and Molecular Biology, Uppsala University. Husargatan 3, Box 596, 75124 Uppsala, Sweden phone: +46 18 471 6688 fax: +46 18 511 755 [email protected] http://www2.icm.uu.se/molbio/elflab/index.html -- 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
