# COST FCN FOR AN ALL-HELIX MODEL

CreatePredAlphaCost pred_alpha2k alpha11 T0242.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0242.t04.alpha.rdb 2 alpha alpha_prev sum

SetCost wet6.5 3 near_backbone 3 way_back 3 dry5 5 dry6.5 6 dry8 5 dry12 2 \
	phobic_fit 5 \
	sidechain 6 \
	bystroff 5 \
	soft_clashes 10  backbone_clashes 2 \
	break 20  \
	pred_alpha2k 3 \
	pred_alpha04 3 \
	constraints 20 \
	hbond_geom 1 \
	hbond_geom_backbone 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

# from t2k.dssp-ehl2.constraints
# StrandConstraint	V4	T7	0.7616
# StrandConstraint	T20	T23	0.6506
# HelixConstraint 	E29	L34	0.6346
# HelixConstraint 	G43	I46	0.617
# HelixConstraint 	D52	C62	0.6396
# StrandConstraint	R70	M75	0.648
# StrandConstraint	E80	S87	0.7018
# HelixConstraint 	D98	R106	0.7949
# StrandConstraint	I110	E114	0.6163

HelixConstraint 	S11	K16
HelixConstraint 	E29	K35
HelixConstraint 	E41	I49
HelixConstraint 	H51	G63
HelixConstraint 	S97	Q107