CreatePredAlphaCost pred_alpha2k alpha11 T0237.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0237.t04.alpha.rdb 2 alpha alpha_prev sum

SetCost wet6.5 3 near_backbone 3 way_back 3 dry5 5 dry6.5 6 dry8 5 dry12 2 \
	phobic_fit 2 \
	sidechain 6 \
	bystroff 5 \
	soft_clashes 10  backbone_clashes 2 \
	break 20  \
	pred_alpha2k 3 \
	pred_alpha04 3 \
	constraints 30 \
	hbond_geom 1 \
	hbond_geom_backbone 1 \
	hbond_geom_beta 4 \
	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.

include T0237.t2k.dssp-ehl2.constraints
include T0237.t2k.dssp-ebghstl.constraints
include T0237.t2k.stride-ebghtl.constraints
include T0237.t2k.str2.constraints
include T0237.t2k.alpha.constraints
include T0237.t2k.bys.constraints

include T0237.t04.dssp-ehl2.constraints
include T0237.t04.dssp-ebghstl.constraints
include T0237.t04.stride-ebghtl.constraints
include T0237.t04.str2.constraints
include T0237.t04.alpha.constraints
include T0237.t04.bys.constraints


# from mutual information files

SSBond	C150	C178	1.0
SSBond	C205	C223	1.0
SSbond	C346	C402	1.0
SSBond	C390	C407	1.0
SSBond	C392	C409	1.0


# file generated by validate2rr
# based on 280 inputs
# using the NN280-240n300.net.28 network
# limited to score of .30 or greater.
# The score is an approximation of the probability
Constraint D107.CB K214.CB -10. 7.0 14.0 0.602
Constraint A73.CB L193.CB -10. 7.0 14.0 0.448 bonus
Constraint A73.CB D107.CB -10. 7.0 14.0 0.418 bonus
Constraint D37.CB Q77.CB -10. 7.0 14.0 0.409 bonus
Constraint K102.CB T149.CB -10. 7.0 14.0 0.395 bonus
Constraint A73.CB K106.CB -10. 7.0 14.0 0.395 bonus
Constraint G58.CA D220.CB -10. 7.0 14.0 0.378 bonus
Constraint S136.CB T149.CB -10. 7.0 14.0 0.353 bonus
Constraint I357.CB I381.CB -10. 7.0 14.0 0.345 bonus
Constraint R31.CB A73.CB -10. 7.0 14.0 0.345 bonus
Constraint I93.CB N115.CB -10. 7.0 14.0 0.342 bonus
Constraint A73.CB K214.CB -10. 7.0 14.0 0.342 bonus
Constraint V32.CB W218.CB -10. 7.0 14.0 0.342 bonus
Constraint I117.CB F127.CB -10. 7.0 14.0 0.337 bonus
Constraint A73.CB V219.CB -10. 7.0 14.0 0.329 bonus
Constraint H123.CB Y137.CB -10. 7.0 14.0 0.321 bonus
Constraint E356.CB I381.CB -10. 7.0 14.0 0.313 bonus
Constraint A38.CB D107.CB -10. 7.0 14.0 0.303 bonus
Constraint D37.CB A73.CB -10. 7.0 14.0 0.3 bonus