Using Relax to asses conformational space

Member Site Forums Rosetta 3 Rosetta 3 – General Using Relax to asses conformational space

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    • #995

        Hi all,
        I am a new user to Rosetta and i have a question regrading the relax protocol. I have been using it to create decoys for a target protein, however, I get a sense that the configurations that I am getting are too close to the original structure and so I am not getting a good enough sampling of the conformational space. Is there another protocol I can try or maybe a flag to be used inside the relax protocol to get a more rigorous sampling?

      • #5913

          You want to use the Backrub Application to create an ensemble of structures for your target protein.
          Check it out here:

          There is also a server for it as well from the Kortemme Lab:


        • #5917

            You may also be able to use ab initio folding to generate a wider ensemble.

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