CreatePredAlphaCost pred_alpha2k alpha11 T0240.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0240.t04.alpha.rdb 2 alpha alpha_prev sum

SetCost wet6.5 10 near_backbone 5 way_back 5 dry5 10 dry6.5 40 dry8 15 dry12 10 \
	phobic_fit 3 \
	sidechain 0.5 \
	bystroff 3 \
	soft_clashes 10  backbone_clashes 2 \
	break 70  \
	pred_alpha2k 2 \
	pred_alpha04 4 \
	constraints 10 \
	hbond_geom 3 \
	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.

# no constraints for the polishing effort
# except for constraints to close a final gap

Constraint P4.CA  I83.CA	7.5 8.0 8.5	5.0
Constraint K70.CB L80.CD2	3.5 4.0 4.5	2.0
Constraint R9.CA  T87.CA	6.5 7.0 7.5	5.0