CreatePredAlphaCost pred_alpha2k alpha11 T0207.t2k.alpha.rdb 2 alpha alpha_prev sum 
CreatePredAlphaCost pred_alpha04 alpha11 T0207.t04.alpha.rdb 2 alpha alpha_prev sum 

SetCost wet6.5 4 near_backbone 6 way_back 6 dry5 10 dry6.5 10 dry8 10 dry12 2 \
	phobic_fit 5 \
	sidechain 2 \
	bystroff 5 \
	soft_clashes 80  backbone_clashes 2 \
	break 200  \
	pred_alpha2k 5 \
	pred_alpha04 5 \
	constraints 5 \
	hbond_geom 0.1 \
	hbond_geom_backbone 0.1 \
	hbond_geom_beta 0.5 \
	hbond_geom_beta_pair 2 \
	known_ssbond 0.5	
	
// Add the following for extra-cellular proteins:

#	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 T0207.t2k.dssp-ehl2.constraints
include T0207.t2k.str2.constraints
include T0207.t04.dssp-ehl2.constraints
include T0207.t04.str2.constraints

SSBond C11 C14

# from try2
Hbond T4.N	R52.O	1	# 2.9068
Hbond T4.O	R52.N	1	# 2.9194
Hbond Y6.N	V50.O	1	# 3.10297

Hbond L3.O	F30.N	0.5	# 2.7958
Hbond L5.N	F30.O	0.5	# 2.77486
Hbond L5.O	V32.N	0.5	# 2.926
Hbond Q7.N	V32.O	0.5	# 3.06955
Hbond Q7.O	I34.N	0.5	# 3.00658

# Hbond E41.O	L46.N	0.5	# 2.50172

Hbond P49.O	W61.N	0.5	# 2.7841
Hbond L51.N	L59.O	0.5	# 2.94203
Hbond L51.O	L59.N	0.5	# 3.116
Hbond D53.N	R57.O	0.5	# 2.88512


# from try3
# merged with try2 
# Hbond T4.N	R52.O	0.5	# 3.10786
# Hbond T4.O	R52.N	0.5	# 3.14922
# Hbond Y6.N	V50.O	0.5	# 2.96853
Hbond Y6.O	V50.N	0.5	# 3.22726

# merged with try4
# Hbond L3.N	A28.O	1	# 2.8368
# Hbond L3.O	F30.N	0.5	# 2.76059
# Hbond L5.N	F30.O	0.5	# 2.94598
# Hbond L5.O	V32.N	0.5	# 2.89886
# Hbond Q7.N	V32.O	0.5	# 3.30388
# Hbond Q7.O	I34.N	0.5	# 2.97167

# Hbond E41.O	L46.N	0.5	# 2.98632

# I don't like this phase of the strand as much
# Hbond M55.N	E58.O	0.5	# 3.12428
# Hbond D53.O	D60.N	0.5	# 2.83315
# Hbond D53.O	W61.N	0.5	# 3.43744

# from try4

Hbond M1.O	A28.N	2	# 2.87229
Hbond L3.N	A28.O	2	# 3.00448
Hbond L3.O	F30.N	2	# 3.22635
Hbond L5.N	F30.O	2	# 2.99407
Hbond L5.O	V32.N	2	# 3.27754
Hbond Q7.N	V32.O	2	# 2.94709
Hbond Q7.O	I34.N	2	# 2.93445

# Hbond E41.O	L46.N	1	# 3.05546

Hbond P49.O	W61.N	0.2	# 2.7738
Hbond L51.N	L59.O	1.0	# 2.96259
Hbond L51.O	L59.N	1.0	# 2.90397
# Hbond D53.N	R57.O	1.0	# 2.76385


# Added bifurcated Hbonds.
# Hbond	E41.O	G45.N	0.5

# Hbond	D53.O	R57.N	0.5
# Hbond	D53.O	G56.N	0.5


# Try burying a saltbridge
# Hbond	D53.OD1	R57.NH1	1.0
# Hbond	D53.OD2	R57.NH2	1.0

Hbond R57.NH1	A74.O	0.5
Hbond R57.NH2	A74.O	0.5