CreatePredAlphaCost pred_alpha2k alpha11 T0364.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0364.t04.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha06 alpha11 T0364.t06.alpha.rdb 2 alpha alpha_prev sum

SetCost wet6.5 15 near_backbone 5 way_back 5 dry5 20 dry6.5 25 dry8 17 dry12 5 \
	phobic_fit 2 \
	sidechain 5 \
	n_ca_c	5 bad_peptide 10 \
	bystroff 5 \
	soft_clashes 20  backbone_clashes 2 \
	break 50  \
	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 0.5 \

// 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 T0364.dssp-ehl2.constraints
//include T0364.undertaker-align.sheets
//include rr.constraints

//Sheet constraints from try1-opt2
SheetConstraint (T0364)I5 (T0364)V11	(T0364)T79 (T0364)T73	hbond (T0364)I5	1
SheetConstraint (T0364)S55 (T0364)L59	(T0364)V114 (T0364)M110	hbond (T0364)S55	1
SheetConstraint (T0364)E60 (T0364)L66	(T0364)M110 (T0364)L104	hbond (T0364)E60	1
SheetConstraint (T0364)V75 (T0364)L82	(T0364)R97 (T0364)H90	hbond (T0364)W76	1
SheetConstraint (T0364)G83 (T0364)D85	(T0364)H90 (T0364)R88	hbond (T0364)G83	1
SheetConstraint (T0364)K87 (T0364)L95	(T0364)H113 (T0364)A105	hbond (T0364)L89	1
SheetConstraint (T0364)H113 (T0364)L116	(T0364)A122 (T0364)P119	hbond (T0364)D115	1


//Helix constraints from try1-opt2
HelixConstraint (T0364)A25	(T0364)I42	1
HelixConstraint (T0364)D45	(T0364)G50	1
HelixConstraint (T0364)G125	(T0364)E140	1
HelixConstraint (T0364)Q143	(T0364)L154	1