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 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 10 \
	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  T0242.t04.dssp-ehl2.constraints
HelixConstraint 	I12	L15	0.7544
HelixConstraint 	E29	L34	0.6558
HelixConstraint 	H51	C62	0.6252
HelixConstraint 	D98	R106	0.6559

StrandConstraint	V4	T7	0.7212	#s1
StrandConstraint	T21	I24	0.6863	#s2
# StrandConstraint	L45	I46	0.6083	
StrandConstraint	R70	M75	0.6637	#s3
StrandConstraint	E80	I86	0.6564	#s4
StrandConstraint	I110	V115	0.7375	#s5

#from  T0242.t2k.dssp-ehl2.constraints
HelixConstraint 	E29	L34	0.6346
# HelixConstraint 	G43	I46	0.617		# too short
HelixConstraint 	D52	C62	0.6396
HelixConstraint 	D98	R106	0.7949

StrandConstraint	V4	T7	0.7616 #s1
StrandConstraint	T20	T23	0.6506 #s2
StrandConstraint	R70	M75	0.648  #s3
StrandConstraint	E80	S87	0.7018 #s4
StrandConstraint	I110	E114	0.6163 #s5

# from decoys/robetta-model5.helices
HelixConstraint I12	E17
HelixConstraint D28	R39
HelixConstraint D42	A48
HelixConstraint G50	C62
# HelixConstraint I86	G93	# I'm not so sure I believe this one
HelixConstraint S97	R106


SheetConstraint R70 N76  	M85 D79  	hbond M75	10	# s3 ^v s4
SheetConstraint E80 I84		D25 T21		hbond A81	10	# s4 ^v s2
SheetConstraint T20 D25		E114 K109	hbond T23	10	# s2 ^v s5
SheetConstraint E114 K109	K3 N8		hbond I110	10	# s5 ^v s1