Problem with AtomPair constraint

Member Site › Forums › Rosetta 3 › Rosetta 3 – Applications › Problem with AtomPair constraint

Viewing 1 reply thread
  • Author
    Posts
    • October 9, 2012 at 2:28 pm #1427
      Anonymous

        Dear all,

        I am doing protein-protein docking. To limit myself to a particular docking site I use the following site constraint:
        SiteConstraint CA 521A S FLAT_HARMONIC 0 1 5
        This works perfectly fine, and I’m getting poses only around the residue 521A.

        Later on, I decided to restrict my poses to only the ones that have a particular
        aminoacid contact between chain A and S. I changed the constraint file to:
        AtomPair CA 521A CA 13S HARMONIC 6.23 2.0

        what I’m getting now is the following error message:
        error in constraint (no such atom in pose!) AtomPair 521 218795944098 218795944098 func: 13S

        Am I doing something obviously wrong?

        Thanks for help

        Jarek

      • October 9, 2012 at 2:51 pm #7885
        Anonymous

          It looks like Rosetta has drifted away from AtomPairConstraint (that error message is not associated with AtomPairConstraint). I think whichever format Rosetta is trying to use disallows the chain designator. Which constraint file format are you using (attach the file as .txt?) Are you intentionally using the NMR NamedAtomPairConstraint?

      • Author
        Posts
      Viewing 1 reply thread
      • You must be logged in to reply to this topic.