CreatePredAlphaCost pred_alpha2k alpha11 T0211.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0211.t04.alpha.rdb 2 alpha alpha_prev sum

SetCost wet6.5 3 near_backbone 3 way_back 3 dry5 9 dry6.5 12 dry8 8 dry12 2 \
	phobic_fit 2 \
	sidechain 4 \
	bystroff 6 \
	soft_clashes 10  backbone_clashes 2 \
	break 60  \
	pred_alpha2k 1 \
	pred_alpha04 6 \
	constraints 5 \
	hbond_geom 0.2 \
	hbond_geom_backbone 0.1 \
	hbond_geom_beta 1 \
	hbond_geom_beta_pair 1

// Add the following for extra-cellular proteins:
#	known_ssbond 0.5	# and put ssbond command in constraints file
#	maybe_ssbond 0.5

// For comparative modeling, increase weight of break and hbond_geom...

// put any constraints here, such as helix constraints, strand constraints,
//	ssbond, hbond, or just arbitrary pairs of atoms.

include T0211.t04.stride-ebghtl.constraints
include T0211.t04.str2.constraints
include T0211.t04.alpha.constraints
include T0211.t04.bys.constraints