[gmx-users] building_insertion_mutants

Erik Marklund erikm at xray.bmc.uu.se
Thu Aug 30 21:45:05 CEST 2012

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.


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
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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
erikm at xray.bmc.uu.se

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