CreatePredAlphaCost pred_alpha2 alpha11 T0205.t2k.alpha.rdb 2 alpha alpha_prev sum 

SetCost wet6.5 3 near_backbone 3 way_back 3 dry5 5 dry6.5 10 dry8 12 dry12 2 \
	phobic_fit 2 \
	sidechain 6 \
	bystroff 5 \
	soft_clashes 20  backbone_clashes 2 \
	break 30  \
	pred_alpha2 5 \
	constraints 10 \
	hbond_geom 0.1 \
	hbond_geom_backbone 0.1 \
	hbond_geom_beta 0.6 \
	hbond_geom_beta_pair 2

// 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 T0205.t2k.dssp-ehl2.constraints
include T0205.t2k.str2.constraints
include T0205.t2k.stride-ebghtl.constraints
include T0205.t2k.alpha.constraints

# from try3-opt2
# Hbond S17.O	R22.N	# 2.51398

Hbond N21.O	E50.N	# 3.0415
Hbond I23.N	E50.O	# 2.86114
Hbond I23.O	S52.N	# 2.93825
Hbond V25.N	S52.O	# 2.86975

# Hbond R41.O	Y46.N	# 3.14027

Hbond N47.O	I102.N	# 2.75394
Hbond V49.N	I100.O	# 2.84655
Hbond V49.O	I100.N	# 2.84954
Hbond L51.N	A98.O	# 2.87324
Hbond L51.O	A98.N	# 2.97004
Hbond A53.N	Q96.O	# 3.12525
Hbond A53.O	Q96.N	# 2.93791
Hbond G55.N	P94.O	# 2.81118

# try moving bulge to poke hydrophobics in.
Hbond K78.N	E101.O	
Hbond K78.O	E101.N	
Hbond T81.N	K99.O	
Hbond T81.O	K99.N

Hbond S82.N	K97.O	# 2.85133
Hbond S82.O	K97.N	# 2.73833
Hbond V84.N	V95.O	# 2.99058
Hbond V84.O	V95.N	# 2.77084
Hbond I86.N	R93.O	# 2.87135
Hbond I86.O	R93.N	# 2.79496



# try to fix up initial strand.
Hbond N12.O	S26.N
Hbond A14.N	Q24.O	# 2.80988
Hbond A14.O	Q24.N	# 2.84953
Hbond D16.N	R22.O	# 2.92149


# try to maintain final antiparallel strands

hbond	V75.N	T103.O	0.5
hbond	V75.O	T103.N	0.5
hbond	K77.N	E101.O	0.5
hbond	K77.O	E101.N	0.5
hbond	I79.N	K99.O	0.5
hbond	I79.O	K99.N	0.5
hbond	T81.N	K97.O	0.5
hbond	T81.O	K97.N	0.5
hbond	I83.N	V95.O	0.5
hbond	I83.O	V95.N	0.5