CreatePredAlphaCost pred_alpha2k alpha11 T0216.t2k.alpha.rdb 2 alpha alpha_prev sum
CreatePredAlphaCost pred_alpha04 alpha11 T0216.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,
//	sheet constraints, ssbonds, hbonds, or just arbitrary pairs of atoms.

# include T0216.t2k.dssp-ehl2.constraints
# include T0216.t2k.dssp-ebghstl.constraints
# include T0216.t2k.stride-ebghtl.constraints
# include T0216.t2k.str2.constraints
# include T0216.t2k.alpha.constraints
# include T0216.t2k.bys.constraints

include T0216.t04.dssp-ehl2.constraints
include T0216.t04.dssp-ebghstl.constraints
include T0216.t04.stride-ebghtl.constraints
include T0216.t04.str2.constraints
include T0216.t04.alpha.constraints
include T0216.t04.bys.constraints

# added bonus RR constraints for try2
Constraint L235.CB A245.CB -10. 7.0 14.0 8.94	bonus
Constraint G361.CA N399.CB -10. 7.0 14.0 8.69	bonus
Constraint P241.CB A422.CB -10. 7.0 14.0 8.59	bonus
Constraint E360.CB K378.CB -10. 7.0 14.0 8.55	bonus
Constraint M350.CB V382.CB -10. 7.0 14.0 8.53	bonus
Constraint R330.CB I421.CB -10. 7.0 14.0 8.5	bonus
Constraint E237.CB R330.CB -10. 7.0 14.0 8.37	bonus
Constraint E246.CB L375.CB -10. 7.0 14.0 8.22	bonus
Constraint M227.CB V359.CB -10. 7.0 14.0 8.13	bonus
Constraint G361.CA A377.CB -10. 7.0 14.0 8.08	bonus
Constraint A245.CB I329.CB -10. 7.0 14.0 8.06	bonus
Constraint S244.CB P331.CB -10. 7.0 14.0 8.02	bonus
Constraint F373.CB G398.CA -10. 7.0 14.0 8.0	bonus
Constraint E360.CB I369.CB -10. 7.0 14.0 7.9	bonus
Constraint M236.CB I421.CB -10. 7.0 14.0 7.86	bonus
Constraint P241.CB R330.CB -10. 7.0 14.0 7.72	bonus
Constraint P241.CB I421.CB -10. 7.0 14.0 7.65	bonus
Constraint M238.CB R330.CB -10. 7.0 14.0 7.43	bonus
Constraint F373.CB N399.CB -10. 7.0 14.0 7.41	bonus
Constraint I240.CB I421.CB -10. 7.0 14.0 7.36	bonus
Constraint I270.CB L334.CB -10. 7.0 14.0 7.32	bonus
Constraint E237.CB A422.CB -10. 7.0 14.0 7.29	bonus
Constraint L375.CB I421.CB -10. 7.0 14.0 7.15	bonus
Constraint D272.CB K295.CB -10. 7.0 14.0 7.15	bonus
Constraint M236.CB R330.CB -10. 7.0 14.0 7.1	bonus
Constraint L232.CB S244.CB -10. 7.0 14.0 7.05	bonus
Constraint P241.CB P331.CB -10. 7.0 14.0 7.02	bonus
Constraint A245.CB V332.CB -10. 7.0 14.0 7.0	bonus
Constraint E360.CB G398.CA -10. 7.0 14.0 6.95	bonus
Constraint S244.CB R330.CB -10. 7.0 14.0 6.92	bonus
Constraint F239.CB T420.CB -10. 7.0 14.0 6.84	bonus
Constraint E237.CB P331.CB -10. 7.0 14.0 6.84	bonus
Constraint G361.CA G398.CA -10. 7.0 14.0 6.82	bonus
Constraint A377.CB I394.CB -10. 7.0 14.0 6.79	bonus
Constraint E372.CB N399.CB -10. 7.0 14.0 6.77	bonus
Constraint I329.CB T420.CB -10. 7.0 14.0 6.77	bonus
Constraint L233.CB R330.CB -10. 7.0 14.0 6.77	bonus
Constraint L232.CB I396.CB -10. 7.0 14.0 6.77	bonus
Constraint M236.CB P331.CB -10. 7.0 14.0 6.74	bonus
Constraint I240.CB R330.CB -10. 7.0 14.0 6.69	bonus
Constraint V225.CB V359.CB -10. 7.0 14.0 6.69	bonus
Constraint I240.CB P331.CB -10. 7.0 14.0 6.66	bonus
Constraint E237.CB I421.CB -10. 7.0 14.0 6.66	bonus
Constraint Q22.CB K54.CB -10. 7.0 14.0 6.66	bonus
Constraint G353.CA I387.CB -10. 7.0 14.0 6.61	bonus
Constraint F239.CB R330.CB -10. 7.0 14.0 6.61	bonus
Constraint K378.CB I394.CB -10. 7.0 14.0 6.58	bonus
Constraint P241.CB L375.CB -10. 7.0 14.0 6.55	bonus
Constraint A231.CB I396.CB -10. 7.0 14.0 6.55	bonus
Constraint M236.CB L334.CB -10. 7.0 14.0 6.53	bonus
Constraint Q22.CB G361.CA -10. 7.0 14.0 6.53	bonus
Constraint D234.CB I396.CB -10. 7.0 14.0 6.5	bonus
Constraint M227.CB E360.CB -10. 7.0 14.0 6.5	bonus
Constraint V355.CB V382.CB -10. 7.0 14.0 6.44	bonus
Constraint L33.CB A377.CB -10. 7.0 14.0 6.42	bonus
Constraint E360.CB A377.CB -10. 7.0 14.0 6.39	bonus
Constraint M236.CB G328.CA -10. 7.0 14.0 6.39	bonus
Constraint S24.CB K54.CB -10. 7.0 14.0 6.39	bonus
Constraint I240.CB A422.CB -10. 7.0 14.0 6.36	bonus
Constraint G361.CA S370.CB -10. 7.0 14.0 6.3	bonus
Constraint P331.CB A422.CB -10. 7.0 14.0 6.28	bonus
Constraint E246.CB I421.CB -10. 7.0 14.0 6.28	bonus
Constraint P241.CB S374.CB -10. 7.0 14.0 6.28	bonus
Constraint P331.CB I421.CB -10. 7.0 14.0 6.25	bonus
Constraint G361.CA G371.CA -10. 7.0 14.0 6.22	bonus
Constraint E237.CB L375.CB -10. 7.0 14.0 6.22	bonus
Constraint L233.CB I396.CB -10. 7.0 14.0 6.22	bonus
Constraint L375.CB T420.CB -10. 7.0 14.0 6.19	bonus