// MATCH HBONDING of 1seiA alignment of final sheet:
// R163-E204 I165-A202 F167-L200 
// L188-L203 E190-Y201 D192-A199 T194-R197
Constraint 1292	1642	2.0 2.7 3.2	// N R163	O E204
Constraint 1301	1635	2.0 2.7 3.2	// O R163	N E204
Constraint 1314	1625	2.0 2.7 3.2	// N I165	O A202
Constraint 1320	1622	2.0 2.7 3.2	// O I165	N A202
Constraint 1330	1608	2.0 2.7 3.2	// N F167	O L200
Constraint 1339	1602	2.0 2.7 3.2	// O F167	N L200

Constraint 1506	1633	2.0 2.7 3.2	// N L188	O L203
Constraint 1512	1627	2.0 2.7 3.2	// O L188	N L203
Constraint 1518	1620	2.0 2.7 3.2	// N E190	O Y201
Constraint 1525	1610	2.0 2.7 3.2	// O E190	N Y201
Constraint 1537	1600	2.0 2.7 3.2	// N D192	O A199
Constraint 1543	1597	2.0 2.7 3.2	// O D192	N A199
Constraint 1552	1587	2.0 2.7 3.2	// N T194	O R197
Constraint 1558	1578	2.0 2.7 3.2	// O T194	N R197

// try to keep second sheet connected to first sheet, 
// skipping the strand whose alignment we're having trouble with

Constraint 881	1324	8 10.2 12	//CBs W110 M166
Constraint 900	1305	8 10.2 12	//CBs A112 R164


//CB constraints to keep the central sheet intact
Constraint 330	775	3 5.12 7	// CBs  Y43 S97
Constraint 341	770	3 5.12 7	// CAs  G44 G96
Constraint 346	763	3 5.12 7	// CBs  L45 I95
Constraint 354	755	3 5.12 7	// CBs  R46 L94
Constraint 365	748	3 5.12 7	// CBs  V47 P93
// Attach Y43-V47  antiparallel to P93-W98
Constraint	340	771	2.0 2.7 3.2	// N G44	O G96
Constraint	342	769	2.0 2.7 3.2	// O G44	N G96
Constraint	352	759	2.0 2.7 3.2	// N R46	O L94
Constraint	361	753	2.0 2.7 3.2	// O R46	N L94


// lengthening the sheet interaction with a possible bulge
// Loosened constraints on L92 and P93, since P93 will have trouble H-bonding.
Constraint	740	861	3 5.12 9	// CBs  L92 L108
Constraint	748	852	3 5.12 9	// CBs  P93 E107
Constraint	755	844	3 5.12 7	// CBs  L94 L106
Constraint	763	832	3 5.12 7	// CBs  I95 Y105
Constraint	770	827	3 5.12 7	// CAs  G96 G104
Constraint	775	816	3 5.12 7	// CBs  S97 D102 bulge

// adding hbonding constraints to the above strand pairs 
// (removed Hbond constraint on P93.N, as it makes no sense)
Constraint	751	850	2 2.7 3.5	// O P93 N E107
Constraint	761	840	2 2.7 3.5	// N I95 O Y105
Constraint	767	830	2 2.7 3.5	// O I95 N Y105

// Add hbonding anti-parallel constraints Y125-L108 and D123-W110
// WARNING: may be off-register by 1.

//Constraint	859	1014	2 2.7 3.5	// L108.N	Y125.O
//Constraint	865	1004	2 2.7 3.5	// L108.O	Y125.N

//Constraint	879	995	2 2.7 3.5	// W110.N	D123.O
//Constraint	891	990	2 2.7 3.5	// W110.O	D123.N


// Add CB constraints for a possible parallel strand pair to connect  the two sheets


Constraint	1046	1305	3 5.12 7		// CBs H130	R164
Constraint	1056    1316	3 5.12 7		// CBs A131	I165
Constraint	1061	1324	3 5.12 7		// CBs A132	M166
Constraint	1066	1332	3 5.12 7		// CBs I133	F167

// add Hbonds constraints to align strand 3 and strand 4 of first sheet
Constraint	859	1014	2 2.7 3.5	// D102.N	H130.O
Constraint	865	1004	2 2.7 3.5	// D102.O	H130.N
Constraint	859	1014	2 2.7 3.5	// G104.N	G128.O
Constraint	865	1004	2 2.7 3.5	// G104.O	G128.N