CreatePredAlphaCost pred_alpha2k alpha11 T0208.t2k.alpha.rdb 2 alpha alpha_prev sum 
CreatePredAlphaCost pred_alpha04 alpha11 T0208.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 10 \
	hbond_geom 0.1 \
	hbond_geom_backbone 0.1 \
	hbond_geom_beta 0.4 \
	hbond_geom_beta_pair 1

// 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,
//	ssbond, hbond, or just arbitrary pairs of atoms.

include T0208.t2k.dssp-ehl2.constraints
include T0208.t2k.dssp-ebghstl.constraints
include T0208.t2k.stride-ebghtl.constraints
include T0208.t2k.str2.constraints
include T0208.t2k.alpha.constraints
include T0208.t2k.bys.constraints

include T0208.t04.dssp-ehl2.constraints
include T0208.t04.dssp-ebghstl.constraints
include T0208.t04.stride-ebghtl.constraints
include T0208.t04.str2.constraints
include T0208.t04.alpha.constraints
include T0208.t04.bys.constraints


#from t04-thin35
# found 4 significant column pairs
Constraint K277.CB H289.CB -10. 7.0 12.0 0.109984
Constraint E200.CB V235.CB -10. 7.0 12.0  0.10989
Constraint K96.CB S105.CB -10. 7.0 12.0 0.107367
Constraint T243.CB P258.CB -10. 7.0 12.0 0.106614

# from t04-thin50
# found 10 significant column pairs
Constraint K277.CB H289.CB -10. 7.0 12.0  0.12262
Constraint T243.CB H318.CB -10. 7.0 12.0 0.109738
Constraint V102.CB T243.CB -10. 7.0 12.0 0.109469
Constraint T243.CB R320.CB -10. 7.0 12.0 0.109412
Constraint R220.CB R315.CB -10. 7.0 12.0 0.106716
Constraint C245.CB D317.CB -10. 7.0 12.0 0.106347
Constraint L232.CB H318.CB -10. 7.0 12.0 0.106207
Constraint N255.CB H318.CB -10. 7.0 12.0 0.106148
Constraint K277.CB A288.CB -10. 7.0 12.0 0.105833
Constraint F189.CB H318.CB -10. 7.0 12.0 0.105542

# from t2k-thin50
# found 4 significant column pairs
Constraint N121.CB E200.CB -10. 7.0 12.0 0.111523
Constraint R187.CB A327.CB -10. 7.0 12.0 0.107618
Constraint A60.CB E311.CB -10. 7.0 12.0 0.107238
Constraint L129.CB V306.CB -10. 7.0 12.0 0.105917


# try to make a ring of nearest-neighbor connections around the barrel

constraint	R320.CB	R6.CB	4.8	5.15	5.5	1.0
constraint	R6.CB	L61.CB	4.8	5.15	5.5	0.2
constraint	E65.CB	C103.CB	4.8	5.15	5.5	0.5
constraint	C103.CB	S151.CB	4.8	5.15	5.5	0.2

constraint	R155.CB	H207.CB	4.8	5.15	5.5	0.1
constraint	H207.CB	C245.CB	4.8	5.15	5.5	1.0
constraint	C245.CB	H272.CB	4.8	5.15	5.5	1.0
constraint	H272.CB R320.CB	4.8	5.15	5.5	1.0