CreatePredAlphaCost pred_alpha2k alpha11 T0335.t2k.alpha.rdb 2 alpha alpha_prev sum CreatePredAlphaCost pred_alpha04 alpha11 T0335.t04.alpha.rdb 2 alpha alpha_prev sum CreatePredAlphaCost pred_alpha06 alpha11 T0335.t06.alpha.rdb 2 alpha alpha_prev sum SetCost wet6.5 15 near_backbone 5 way_back 5 dry5 20 dry6.5 30 dry8 10 dry12 5 \ phobic_fit 3 \ sidechain 5 \ n_ca_c 5 bad_peptide 10 \ bystroff 5 \ soft_clashes 40 backbone_clashes 2 \ break 100 \ pred_alpha2k 2 \ pred_alpha04 2 \ pred_alpha06 2 \ constraints 10 \ hbond_geom 5 \ hbond_geom_backbone 10 \ hbond_geom_beta 50 \ hbond_geom_beta_pair 100 \ missing_atoms 1 # from M1-H77/decoys/try7-opt2.helices HelixConstraint S3 G20 2 HelixConstraint T23 L49 2 HelixConstraint T63 H77 2 # attempting to improve hairpin Hbond G59.N D56.O 1 SheetConstraint I54 D56 D61 G59 hbond I54 5