CreatePredAlphaCost pred_alpha2k alpha11 T0268.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0268.t04.alpha.rdb 2 alpha alpha_prev sum

SetCost wet6.5 15 near_backbone 3 way_back 3 dry5 15 dry6.5 25 dry8 15 dry12 5 \
	phobic_fit 2 \
	sidechain 4 \
	bystroff 5 \
	soft_clashes 30  backbone_clashes 2 \
	break 60  \
	pred_alpha2k 3 \
	pred_alpha04 5 \
	constraints 10 \
	hbond_geom 1 \
	hbond_geom_backbone 1 \
	hbond_geom_beta 5 \
	hbond_geom_beta_pair 15

// 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,
//	sheet constraints, ssbonds, hbonds, or just arbitrary pairs of atoms.

# from T0268.t04.dssp-ehl2.constraints
HelixConstraint 	P8	L17	0.6848
HelixConstraint 	A37	L41	0.6117
HelixConstraint 	P54	G62	0.6267
HelixConstraint 	F75	A84	0.6511
HelixConstraint 	A130	N135	0.6094
HelixConstraint 	L139	E148	0.8802
HelixConstraint 	Q154	E167	0.6408
HelixConstraint 	T174	A184	0.8144
HelixConstraint 	A194	V222	0.7261
HelixConstraint 	L237	R247	0.7707
HelixConstraint 	E263	A267	0.8333

StrandConstraint	V25	A29	0.6856
StrandConstraint	R46	L50	0.7794
StrandConstraint	T69	V71	0.8105
StrandConstraint	G92	D96	0.6296
StrandConstraint	R228	A233	0.7037
StrandConstraint	K252	L254	0.6074

# from decoys/try1-opt2.sheets
SheetConstraint Y26 D28  	V47 G49  	hbond Y26
SheetConstraint Y26 A29  	G92 A95  	hbond V27
SheetConstraint I48 D51  	T69 Q72  	hbond G49
SheetConstraint R89 V90  	V222 L223  	hbond V90
SheetConstraint D91 L97  	G227 A233  	hbond I93
SheetConstraint G227 F234  	K282 A275  	hbond L229
SheetConstraint G250 L254  	E283 A279  	hbond K252
SheetConstraint L259 V260  	L277 K276  	hbond L259