CreatePredAlphaCost pred_alpha2k alpha11 T0370.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0370.t04.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha06 alpha11 T0370.t06.alpha.rdb 2 alpha alpha_prev sum

SetCost wet6.5 15 near_backbone 5 way_back 5 dry5 20 dry6.5 25 dry8 15 dry12 5 \
	phobic_fit 2 \
	sidechain 4 \
	n_ca_c	10 bad_peptide 10 \
	bystroff 5 \
	soft_clashes 80  backbone_clashes 2 \
	break 160  \
	pred_alpha2k 2 \
	pred_alpha04 2 \
	pred_alpha06 2 \
	constraints 10 \
	hbond_geom 5 \
	hbond_geom_backbone 10 \
	hbond_geom_beta 50 \
	hbond_geom_beta_pair 100 \
	missing_atoms 1 \
	maybe_metal 0 \
	maybe_ssbond 0

// remove maybe_ssbond weight if protein known to be in reducing environment.
// remove maybe_metal weight if protein known to have disulfides or
//	known not to bind metal ions.

// Add the following for extra-cellular proteins:
#	known_ssbond 0.5	# and put ssbond command in constraints file

// 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 T0370.dssp-ehl2.constraints
//include T0370.undertaker-align.sheets
//include rr.constraints

//from decoys/try1-opt2.helices
HelixConstraint (T0370)P4	(T0370)N18	1
HelixConstraint (T0370)S60	(T0370)T69	1
HelixConstraint (T0370)A95	(T0370)T109	1


//from decoys/try31-opt2.sheets
SheetConstraint (T0370)A26 (T0370)A33	(T0370)S44 (T0370)A37	hbond (T0370)W27	1
SheetConstraint (T0370)W27 (T0370)A31	(T0370)I76 (T0370)V72	hbond (T0370)V28	1
SheetConstraint (T0370)Y45 (T0370)D48	(T0370)V54 (T0370)T51	hbond (T0370)D48	1
SheetConstraint (T0370)T51 (T0370)A58	(T0370)S126 (T0370)S119	hbond (T0370)F52	1
SheetConstraint (T0370)G70 (T0370)I76	(T0370)A89 (T0370)V83	hbond (T0370)V72	1
SheetConstraint (T0370)R80 (T0370)G87	(T0370)E135 (T0370)R128	hbond (T0370)L82	1
SheetConstraint (T0370)E86 (T0370)L92	(T0370)R128 (T0370)Y122	hbond (T0370)L90	1
SheetConstraint (T0370)V130 (T0370)E135	(T0370)M145 (T0370)S140	hbond (T0370)A132	1
SheetConstraint (T0370)R142 (T0370)R146	(T0370)T153 (T0370)E149	hbond (T0370)L144	1


//RR constraints

Constraint W27.CB P38.CB -10. 7.0 14.0 1
Constraint W133.CB R129.CB -10. 7.0 14.0 1

//distance constraints to close breaks

Constraint Y45.CA L46.N -1 0.5 2 1
Constraint R115.CA L116.N -1 0.5 2 1
Constraint A37.CA P38.N -1 0.5 2 1