Reply To: RosettaDesign (each run produces the same sequence with many GLY residues )

Member Site › Forums › Rosetta++ › Rosetta++ – General › RosettaDesign (each run produces the same sequence with many GLY residues ) › Reply To: RosettaDesign (each run produces the same sequence with many GLY residues )

May 13, 2009 at 5:53 pm #4087
Anonymous

    1) It means the packer really likes that sequence. How large is the sequence space you’re searching? How many rotamers? If it’s small you may be searching it exhaustively.

    2) It probably means you’re getting a lot of sidechain clashes. Look up the soft_rep_design flag and see if it helps (it softens VDW repulsion).