CreatePredAlphaCost pred_alpha2k alpha11 T0263.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0263.t04.alpha.rdb 2 alpha alpha_prev sum

SetCost wet6.5 10 near_backbone 5 way_back 5 dry5 15 dry6.5 20 dry8 10 dry12 5 \
	phobic_fit 2 \
	sidechain 1 \
	bystroff 10 \
	soft_clashes 10  backbone_clashes 2 \
	break 20  \
	pred_alpha2k 1 \
	pred_alpha04 1 \
	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 T0263.t04.dssp-ehl2.constraints in the monomer
HelixConstraint 	G16	N31	6.339
HelixConstraint 	E59	N75	8.062

StrandConstraint	L4	F9	6.147
StrandConstraint	L37	E43	6.113
StrandConstraint	A50	F56	6.195
StrandConstraint	V81	D87	7.319

# hand-picked constraint 
StrandConstraint	Q94	A101	10

#repeated for the second part of the new monomer (from dimer)
HelixConstraint 	G117	N132	6.339
HelixConstraint 	E160	N176	8.062

StrandConstraint	L105	F110	6.147
StrandConstraint	L138	E144	6.113
StrandConstraint	A151	F157	6.195
StrandConstraint	V182	D188	7.319

# hand-picked constraint 
StrandConstraint	Q195	A202	10

#from dimer1.sheets
SheetConstraint A2 F11    	T57 H48   	hbond T3	10
SheetConstraint T3 F9     	N89 A83   	hbond L4	10
SheetConstraint H8 N12    	A83 E79   	hbond A10	10
SheetConstraint G35 E43   	T57 E49   	hbond L37	10

SheetConstraint A103 F112	T158 H149	hbond T104	10
SheetConstraint T104 F110	N190 A184	hbond L105	10
SheetConstraint H109 N113	A184 E180	hbond A111	10
SheetConstraint G136 E144	T158 E150	hbond L138	10

# make sheet constraints to connect the two ends
SheetConstraint L37 T42		A202 N197	hbond V40	20
SheetConstraint L138 T143	A101 N96	hbond V141	20