Modelling a loopless structure

Member Site › Forums › Rosetta 3 › Rosetta 3 – General › Modelling a loopless structure

Viewing 2 reply threads
  • Author
    Posts
    • November 22, 2011 at 7:39 pm #1096
      Anonymous

        I am new to Rosetta, and I would like to have Rosetta3.3 predict the detailed structure of a sequence homologous to that of a short two-chain loopless structure (it is an alpha-helical coiled coil). I tried comparative modeling in minirosetta, and since there are no loops, I simply tried deleting all the -loops commands, but the program was coming back with an error: Fragment IO: could not open file frag9. Do I have to supply fragment files and loop commands when there are no loops? And how would I do that? Thanks for any help.

      • November 22, 2011 at 7:45 pm #6298
        Anonymous

          It’s not clear to me which executable you are using. Providing fragments (get them from the robetta server) won’t hurt in any case; try that first.

        • November 29, 2011 at 7:50 pm #6347
          Anonymous

            Thanks so much. I was able to get fragments using Robetta, and am continuing to debug…

        • Author
          Posts
        Viewing 2 reply threads
        • You must be logged in to reply to this topic.