mutate residue at termini

Member Site Forums Rosetta 3 Rosetta 3 – General mutate residue at termini

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    • #1720
      Anonymous

        interface design is changing a terminal aminoacid in my complex and
        I would like to mutate it back to wildtype using the MutateResidue
        mover, but every time I try to do that for the N or C terminus I get
        segmentation fault. This is system independant, I see this for every complex I work with.
        Is there a way around it, without going back to the interface design ?

        Thanks

        Jarek

      • #9303
        Anonymous

          The problem is that you’re not providing the appropriate residue type name. The issue is that terminal residue types are “patched” to add the appropriate atoms for the terminal behavior. Take a look at the output PDBs, specifically the energy table at the end. Notice that the names of the terminal residues aren’t just “ALA”, but are “ALA_p:NtermProteinFull” or “ALA_p:CtermProteinFull”. the “_p:” means it’s a patched residue type, and the “NtermProteinFull” and “CtermProteinFull” are the patch types applied to the residue. The full string, with the patch designator and patch type string is what you need to give to the new_res parameter of MutateResidue.

          That said, the fact that you’re getting a segmentation fault is a bug. At the very least it should be giving you a (hopefully helpful) error message.

        • #9305
          Anonymous

            Hi Thanks for quick reply.
            It works great now!

            J

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