// helix length constraints
constraint	L95.CA	I102.CA	9.5 10.5 11.5
constraint	M130.CA	C137.CA	9.5 10.5 11.5
constraint	E149.CA	N156.CA	9.5 10.5 11.5
constraint	Q229.CA	R236.CA	9.5 10.5 11.5
constraint	Q280.CA	M287.CA	9.5 10.5 11.5
constraint	D315.CA	A322.CA	9.5 10.5 11.5
constraint	I318.CA I325.CA	9.5 10.5 11.5


//Constraints for Jen's ap sheet A-B-C
//definite hairpin (A-B).
constraint      N170.N  E189.O  2.2 2.7 3.2 //5
constraint      N170.O  E189.N  2.2 2.7 3.2 //jenny
constraint      V172.N  I187.O  2.2 2.7 3.2 //5
constraint      V172.O  I187.N  2.2 2.7 3.2 //5
constraint      D174.N  H185.O  2.2 2.7 3.2 //5
constraint      D174.O  H185.N  2.2 2.7 3.2 //5
constraint      T176.N  E183.O  2.2 2.7 3.2 //5
constraint      T176.O  E183.N  2.2 2.7 3.2 //5
//ap pairing of E182-E189 and L209-V212 (B-C)
//register is a complete guess
// 208> dLVFVKt
// 188< aIIHVEe
constraint      I186.N  V210.O  2.2 2.7 3.2 
constraint      I186.O  V210.N  2.2 2.7 3.2 
constraint      V184.N  V212.O  2.2 2.7 3.2 
constraint      V184.O  V212.N  2.2 2.7 3.2 
constraint L209.CB I187.CB 4 4.7 8
constraint V210.CB I186.CB 4 4.7 8
constraint F211.CB H185.CB 4 4.7 8
constraint V212.CB V184.CB 4 4.7 8
constraint K213.CB E183.CB 4 4.7 8


//constraints to pair the first three strands
//into a small, all-antiparallel sheet (jen's 1-2-3)
// 11> vKILGIDr (1) 
// 28< mYTLVPS  (2)
// 45> pHTVHMmd (3)
constraint H46.CB M50.CB 17 18.3 20 //make strand 3 straight 
constraint D17.O S22.N 2.2 2.7 3.2
constraint D17.N S22.O 2.2 2.7 3.2
constraint G15.O V24.N 2.2 2.7 3.2
constraint G15.N V24.O 2.2 2.7 3.2
constraint I13.O T26.N 2.2 2.7 3.2
constraint I13.N T26.O 2.2 2.7 3.2
//constraint K12.CB Y27.CB  4 4.7 8
//constraint I13.CB T26.CB  4 4.7 8
//constraint L14.CB L25.CB  4 4.7 8
//constraint G15.CA V24.CA  4 4.7 8

constraint P23.O M50.N 2.2 2.7 3.2
constraint P23.N M50.O 2.2 2.7 3.2
constraint L25.O V48.N 2.2 2.7 3.2
constraint L25.N V48.O 2.2 2.7 3.2
constraint Y27.O H46.N 2.2 2.7 3.2
constraint Y27.O H46.N 2.2 2.7 3.2
//constraint H46.CB Y27.CB  4 4.7 8
//constraint T47.CB T26.CB  4 4.7 8
//constraint V48.CA L25.CB  4 4.7 8
//constraint H49.CB V24.CB  4 4.7 8

//Jonathan
// constraints to extend the above anti-parallel sheet
//constraint V48.CA I69.CA 4 4.7 8
//constraint I69.CA I113.CA 4 4.7 8

//constraints make a hairpin (jen's D-E)
// 294>  eGFEVQq    
// 308< klAVLIGg
//definate hairpin (D-E)
constraint      G295.N  A306.O  2.2 2.7 3.2
constraint      G295.O  A306.N  2.2 2.7 3.2
constraint      E297.N  L304.O  2.2 2.7 3.2
constraint      E297.O  L304.N  2.2 2.7 3.2
constraint      Q299.N  G302.O  2.2 2.7 3.2 
constraint      Q299.O  G302.N  2.2 2.7 3.2 

//constraints to pair jen's D-F
constraint      V305.N  T351.O  2.2 2.7 3.2
constraint      V305.O  T351.N  2.2 2.7 3.2
constraint      L307.N  L349.O  2.2 2.7 3.2
constraint      L307.O  L349.N  2.2 2.7 3.2


//a hairpin for L349-L352 & C362-V370 (jen's F-G)
constraint V364.CB V370.CB 20 22.4 24 //straightness
constraint L352.N C362.O 2.2 2.7 3.2
constraint L352.O C362.N 2.2 2.7 3.2
constraint V350.N V364.O 2.2 2.7 3.2
constraint V350.O V364.N 2.2 2.7 3.2
//constraint L349.CB C362.CB 4 4.7 8
//constraint V350.CB R363.CB 4 4.7 8
//constraint T351.CB V364.CB 4 4.7 8
//constraint L352.CB V365.CB 4 4.7 8

//jen's attempt at bringing the large sheet together (G-Z-1)
//G-Z ap pairing
constraint R363.N E274.O 2.2 2.7 3.2
constraint R363.O E274.N 2.2 2.7 3.2
constraint V365.N C272.O 2.2 2.7 3.2
constraint V365.N C272.O 2.2 2.7 3.2
//constraint V364.CB T271.CB 4 5.12 8
//constraint V365.CB C272.CB 4 5.12 8
//constraint L366.CB L273.CB 4 5.12 8
//constraint Q367.CB E274.CB 4 5.12 8
//constraint I368.CB V275.CB 4 5.12 8
//constraint E369.CB E276.CB 4 5.12 8

//Z-1 antip pairing
constraint V275.O L14.N 2.2 2.7 3.2
constraint V275.N K12.O 2.2 2.7 3.2
constraint L273.O K12.N 2.2 2.7 3.2
constraint L273.N R10.O 2.2 2.7 3.2
//constraint G15.CB T271.CB 4 4.7 8
//constraint L14.CB C272.CB 4 4.7 8
//constraint I13.CB L273.CB 4 4.7 8
//constraint K12.CB E274.CB 4 4.7 8
//constraint V11.CB V275.CB 4 4.7 8
//constraint R10.CB E276.CB 4 4.7 8


//parallel CB: 4 5.12 8
//antiparallel CB: 4 4.7 8