CreatePredAlphaCost pred_alpha2k alpha11 T0198.t2k.alpha.rdb 2 alpha alpha_prev min
CreatePredAlphaCost pred_alpha04 alpha11 T0198.t04.alpha.rdb 2 alpha alpha_prev min


SetCost wet6.5 3 near_backbone 3 way_back 3 dry5 10 dry6.5 10 dry8 10 dry12 4 \
	phobic_fit 1 \
	sidechain 6 \
	bystroff 5 \
	soft_clashes 10  backbone_clashes 2 \
	break 20  \
	pred_alpha2k 5 \
	pred_alpha04 5 \
	constraints 10 \
	hbond_geom 0.5 \
	hbond_geom_backbone 1 \
	hbond_geom_beta 0.1 \
	hbond_geom_beta_pair 0.1

# The beta cost functions were down-weighted for this alpha-protein

// 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...

HelixConstraint 	R3	E36	2
HelixConstraint 	E39	L69	1
HelixConstraint 	P76	L107	2
HelixConstraint 	P115	A138	1
HelixConstraint 	V142	M171	1
HelixConstraint 	V177	V208	1


#  somewhat less loose constraints for up-down bundle
# These should be made still more specific once the bundles start forming.
constraint	F12.CZ	L69.CG	-10	4	10	1
constraint	L34.CG	V104.CB	-10	4	10	1
constraint	L77.CG	F137.CZ	-10	4	10	1
constraint	I119.CB	M170.CB	-10	4	10	0.5
constraint	F137.CZ	I200.CB	-10	4	20	0.2