CreatePredAlphaCost pred_alpha2k alpha11 T0270.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0270.t04.alpha.rdb 2 alpha alpha_prev sum

SetCost wet6.5 15 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 5 \
	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 T0270.t2k.dssp-ehl2.constraints
HelixConstraint 	F26	W29	7.284
HelixConstraint 	L34	E53	6.876
HelixConstraint 	L83	S96	6.156
HelixConstraint 	F98	R100	6.345
HelixConstraint 	V128	R131	6.109
HelixConstraint 	A162	K178	6.048
HelixConstraint 	P207	G227	6.605
HelixConstraint 	E240	F246	7.519

StrandConstraint	Y62	V67	6.315
StrandConstraint	L74	N78	6.37
StrandConstraint	Y106	E113	6.398
StrandConstraint	Y141	Y145	6.55
StrandConstraint	M184	Q191	6.011
StrandConstraint	E197	F203	6.93
StrandConstraint	F232	V234	6.351


#from T0270.t04.dssp-ehl2.constraints
HelixConstraint 	F26	R28	6.346
HelixConstraint 	L34	E56	8.206
HelixConstraint 	D84	Y101	6.663
HelixConstraint 	A162	K178	7.621
HelixConstraint 	Q180	V186	6.172
HelixConstraint 	P207	M217	8.06
HelixConstraint 	D220	A224	6.29
HelixConstraint 	E240	F246	8.654

StrandConstraint	I64	Q66	7.194
StrandConstraint	L74	F76	6.114
StrandConstraint	F108	E113	7.542
StrandConstraint	Y141	P146	6.12
StrandConstraint	W198	L202	6.914
StrandConstraint	F232	V234	6.743


# file generated by validate2rr
# based on 280 inputs
# using the /projects/compbio/experiments/protein-predict/casp6/networks/NN280-240n300.net.28 network
# limited to score of .30 or greater.
# The score is an approximation of the probability
Constraint L18.CB F144.CB -10. 7.0 14.0 0.65
Constraint I187.CB D201.CB -10. 7.0 14.0 0.636
# Constraint C143.CB Y226.CB -10. 7.0 14.0 0.616
Constraint L202.CB I213.CB -10. 7.0 14.0 0.608
# Constraint L79.CB Y226.CB -10. 7.0 14.0 0.602
Constraint F144.CB I187.CB -10. 7.0 14.0 0.561 
Constraint V67.CG2 F108.CZ -10. 7.0 14.0 0.558 
Constraint F144.CB G176.CA -10. 7.0 14.0 0.546 bonus
Constraint R22.CB Y179.CB -10. 7.0 14.0 0.54 bonus
Constraint L18.CB V186.CB -10. 7.0 14.0 0.54 bonus
Constraint R28.CB F108.CB -10. 7.0 14.0 0.517 bonus
Constraint A27.CB F108.CB -10. 7.0 14.0 0.492 bonus
Constraint D201.CB Y226.CB -10. 7.0 14.0 0.475 bonus
Constraint L75.CB V186.CB -10. 7.0 14.0 0.475 bonus
Constraint Q66.CB D122.CB -10. 7.0 14.0 0.475 bonus
Constraint L74.CB V186.CB -10. 7.0 14.0 0.451 bonus
Constraint L202.CB Y226.CB -10. 7.0 14.0 0.442 bonus
Constraint Q185.CB Y215.CB -10. 7.0 14.0 0.433 bonus
Constraint L74.CB F144.CB -10. 7.0 14.0 0.424 bonus
Constraint F108.CB D201.CB -10. 7.0 14.0 0.421 bonus
Constraint L79.CB R225.CB -10. 7.0 14.0 0.415 bonus
Constraint Q66.CB F108.CB -10. 7.0 14.0 0.415 bonus
Constraint L18.CB L202.CB -10. 7.0 14.0 0.415 bonus
Constraint F144.CB L202.CB -10. 7.0 14.0 0.407 bonus
Constraint E90.CB F108.CB -10. 7.0 14.0 0.407 bonus
Constraint W198.CB F232.CB -10. 7.0 14.0 0.401 bonus