CreatePredAlphaCost pred_alpha2k alpha11 T0281.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0281.t04.alpha.rdb 2 alpha alpha_prev sum

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

// 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 T0281.t2k.dssp-ehl2.constraints
StrandConstraint	V20	M23	0.6578	# s1
StrandConstraint	H28	T32	0.6904	# s2
StrandConstraint	I38	V40	0.7453	# s3

HelixConstraint 	P7	R16	0.8659
HelixConstraint 	K50	D59	0.7687
HelixConstraint 	E64	H68	0.6182

# from align3.sheets
SheetConstraint F19 A24 	P34 R29	hbond V20 12	# s1 ^v s2
SheetConstraint Y31 H33 	V40 I38	hbond T32 12	# s2 ^v s3

# attempt to bury one side of the hydrophobic strand s3
# across s2 as well
# using helix K50-D59

Constraint I56.CB  V40.CB	1.0 4.5 6.0	4.0
Constraint A60.CB  Y31.CB	1.0 4.5 6.0	4.0

# attempt to bury the other side of the sheet
# using helix P7-R15
Constraint V10.CB  L30.CB	1.0 4.5 6.0	4.0