CreatePredAlphaCost pred_alpha2k alpha11 T0300.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0300.t04.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha06 alpha11 T0300.t06.alpha.rdb 2 alpha alpha_prev sum

SetCost wet6.5 15 near_backbone 5 way_back 5 dry5 15 dry6.5 25 dry8 15 dry12 5 \
	phobic_fit 1 \
	sidechain 3 \
	n_ca_c	5 bad_peptide 10 \
	bystroff 5 \
	soft_clashes 20  backbone_clashes 2 \
	break 50  \
	pred_alpha2k 2 \
	pred_alpha04 2 \
	pred_alpha06 2 \
	constraints 20 \
	hbond_geom 5 \
	hbond_geom_backbone 10 \
	hbond_geom_beta 50 \
	hbond_geom_beta_pair 100 \
	missing_atoms 1 

# from decoys/try3-opt2.helices
HelixConstraint K5	V37	10
# HelixConstraint L44	V72
# HelixConstraint A70	V80
HelixConstraint L44	V80	10
HelixConstraint T81	T93



#I added constraints from rr.constraints but those didn't work, see try13
#I have put in my own constraints to try to keep the coiled-coil sturcture

Constraint V72.CB M13.CB -10. 5.0 11.0 1
Constraint I68.CB V17.CB -10. 5.0 11.0 1
Constraint A64.CB L20.CB -10. 5.0 8.0 1
Constraint L60.CB E23.CB -10. 5.0 8.0 1
Constraint S57.CB L27.CB -10. 4.0 8.0 1
Constraint V31.CB I53.CB -10. 4.0 8.0 1
Constraint E50.CB S34.CB -10. 4.0 8.0 1