Secondary structure calculation program - copyright by David Keith Smith, 1989
1ytfC.pdb
1YTF COMPLEX (TRANSCRIPTION REGULATION/DNA) MOL_ID: 1; MOL_ID: 1;
Sequence length - 46
A A K K hydrogen bonding Ooi's
strk chain/ l amino u & S structure bridge dihedral angles donor acceptor donor acceptor N N
num seq.no t acids t S + patterns partners phi psi omega alpha kappa tco to/energy fr/energy to/energy fr/energy 8 14
1 C 241 GLU E 0 0 999.9 61.7 -179.0 999.9 999.9 999.9 0 0.0 0 0.0 0 0.0 0 0.0 6 13
2 C 242 ASN N + 0 0 64.4 62.0 -179.9 151.6 999.9 8.4 28 -0.6 0 0.0 0 0.0 0 0.0 8 16
3 C 243 LEU L E E AA - 28 0 -127.2 130.6 178.4 -161.3 31.4 171.3 28 -0.6 28 -1.3 0 0.0 0 0.0 7 20
4 C 244 MET M E E AA - 27 0 -114.7 123.5 178.6 -170.1 5.3 166.7 0 0.0 0 0.0 0 0.0 0 0.0 8 29
5 C 245 LEU L E E AA + 26 0 -113.4 128.1 -178.1 113.1 33.0 164.7 26 -2.3 26 -2.2 0 0.0 0 0.0 7 27
6 C 246 CYS C E E A* - 0 0 -167.0 -166.0 178.2 -82.1 58.7 156.0 0 0.0 0 0.0 0 0.0 0 0.0 9 27
7 C 247 LEU L E E AA - 23 0 -118.3 150.6 177.8 -135.6 33.8 151.4 23 -2.1 23 -2.5 0 0.0 0 0.0 8 23
8 C 248 TYR Y E E AA + 22 0 -112.7 138.1 178.4 179.6 19.5 155.0 0 0.0 0 0.0 0 0.0 0 0.0 9 24
9 C 249 ASP D E E A* S- 0 0 -95.9 -44.5 -178.2 -6.2 75.0 37.2 21 -3.3 0 0.0 0 0.0 0 0.0 8 20
10 C 250 LYS K E E AA - 21 0 -156.6 144.1 177.4 -169.1 52.4 175.3 21 -1.0 21 -2.8 0 0.0 0 0.0 7 20
11 C 251 VAL V E E AA + 20 0 -134.3 129.3 179.7 172.2 19.6 175.4 0 0.0 0 0.0 0 0.0 0 0.0 9 25
12 C 252 THR T E E AA - 19 0 -134.5 169.0 -179.7 -164.6 12.9 153.7 19 -2.5 19 -1.9 0 0.0 0 0.0 7 20
13 C 253 ARG R E E AA - 18 0 -155.8 143.6 177.9 -177.8 9.9 170.3 0 0.0 0 0.0 0 0.0 0 0.0 8 18
14 C 254 THR T E E AA > TS- 17 0 -144.3 112.9 -177.3 -40.7 75.0 156.5 17 -1.7 17 -2.0 0 0.0 0 0.0 6 16
15 C 255 LYS K T T 3 TS- 0 0 62.5 -131.7 179.8 -25.3 126.6 117.7 0 0.0 0 0.0 0 0.0 0 0.0 4 13
16 C 256 ALA A T e 3 TS+ 0 0 -99.6 24.9 -179.6 105.4 115.0 85.4 0 0.0 45 -3.1 0 0.0 18 -0.6 8 15
17 C 257 ARG R E E AAB< T - 14 44 -110.4 119.0 -178.9 -170.6 49.1 155.7 14 -2.0 14 -1.7 0 0.0 0 0.0 10 17
18 C 258 TRP W E E AAB - 13 43 -109.9 144.9 179.4 -172.4 4.8 147.5 43 -3.3 43 -2.3 16 -0.6 0 0.0 13 22
19 C 259 LYS K E E AAB - 12 42 -135.1 139.5 -178.1 -170.7 3.5 172.0 12 -1.9 12 -2.5 0 0.0 0 0.0 11 23
20 C 260 CYS C E E AAB - 11 41 -139.2 132.1 178.7 -153.4 17.3 172.1 41 -1.7 41 -2.1 0 0.0 22 -0.8 13 29
21 C 261 SER S E E AAB - 10 40 -104.2 100.7 -178.9 -176.3 27.6 150.7 10 -2.8 9 -3.3 0 0.0 10 -1.0 12 26
22 C 262 LEU L E E AAB - 8 39 -96.9 157.5 -179.8 -169.7 3.4 129.2 39 -3.1 39 -2.1 20 -0.8 0 0.0 14 29
23 C 263 LYS K E E AAB + 7 38 -142.9 165.3 177.0 9.6 51.6 156.8 7 -2.5 7 -2.1 0 0.0 0 0.0 12 24
24 C 264 ASP D E E A** S+ 0 0 29.1 80.0 -178.9 142.8 84.4 37.7 37 -2.0 0 0.0 0 0.0 0 0.0 10 22
25 C 265 GLY G E E A*B - 0 36 -139.7 178.2 179.7 -140.2 44.9 142.6 36 -1.8 36 -2.4 0 0.0 0 0.0 13 26
26 C 266 VAL V E E AAB - 5 35 -141.6 136.3 -178.6 -172.4 19.5 176.7 5 -2.2 5 -2.3 0 0.0 0 0.0 11 26
27 C 267 VAL V E E AAB - 4 34 -131.1 151.7 175.6 -153.2 18.9 161.7 34 -2.7 34 -2.5 0 0.0 29 -0.5 11 26
28 C 268 THR T E E AAB + 3 33 -124.0 109.8 -179.5 174.4 23.9 168.1 3 -1.3 3 -0.6 0 0.0 2 -0.6 12 17
29 C 269 ILE I E E A B> T - 0 32 -121.0 120.8 179.4 -17.8 69.5 171.5 32 -2.7 32 -2.0 27 -0.5 0 0.0 10 16
30 C 270 ASN N T T 3 TS- 0 0 49.0 56.1 178.8 -50.3 128.3 21.4 0 0.0 0 0.0 0 0.0 0 0.0 6 12
31 C 271 ARG R T T 3 TS+ 0 0 63.8 5.5 178.6 108.8 118.9 59.4 0 0.0 0 0.0 0 0.0 0 0.0 7 13
32 C 272 ASN N E E AB < T - 29 0 -113.9 147.3 -178.3 -137.2 60.3 151.9 29 -2.0 29 -2.7 0 0.0 0 0.0 6 14
33 C 273 ASP D E E AB - 28 0 -110.5 135.3 179.3 -179.2 18.6 151.6 0 0.0 0 0.0 0 0.0 0 0.0 8 19
34 C 274 TYR Y E E AB - 27 0 -127.4 148.4 178.0 -160.4 9.9 155.1 27 -2.5 27 -2.7 0 0.0 0 0.0 8 23
35 C 275 THR T E E AB - 26 0 -127.2 137.5 -178.1 -173.4 18.5 172.9 0 0.0 0 0.0 0 0.0 0 0.0 8 23
36 C 276 PHE F E E AB - 25 0 -138.7 160.0 179.4 -153.9 35.9 159.7 25 -2.4 25 -1.8 0 0.0 0 0.0 9 24
37 C 277 GLN Q E E A* S+ 0 0 -90.1 -45.9 -179.0 8.3 90.4 32.6 0 0.0 24 -2.0 0 0.0 0 0.0 7 22
38 C 278 LYS K E E AB - 23 0 -139.3 153.7 179.0 -176.0 61.5 164.3 0 0.0 0 0.0 0 0.0 0 0.0 9 25
39 C 279 ALA A E E AB - 22 0 -150.8 139.8 179.0 -152.4 11.7 172.6 22 -2.1 22 -3.1 0 0.0 0 0.0 9 28
40 C 280 GLN Q E E AB - 21 0 -117.9 131.2 -179.8 -159.8 10.1 164.4 0 0.0 0 0.0 0 0.0 0 0.0 8 30
41 C 281 VAL V E E AB - 20 0 -115.0 124.1 178.6 -179.1 10.0 164.2 20 -2.1 20 -1.7 0 0.0 43 -0.5 9 30
42 C 282 GLU E E E AB + 19 0 -122.2 102.5 -177.7 164.0 19.3 159.0 0 0.0 0 0.0 0 0.0 0 0.0 8 22
43 C 283 ALA A E E AB - 18 0 -128.6 142.0 -179.3 -143.8 29.9 164.0 18 -2.3 18 -3.3 41 -0.5 45 -0.6 7 19
44 C 284 GLU E E E AB - 17 0 -106.3 119.8 178.0 -162.3 13.7 152.7 0 0.0 0 0.0 0 0.0 0 0.0 7 16
45 C 285 TRP W e 0 0 -88.7 167.6 -179.5 999.9 999.9 120.1 16 -3.1 0 0.0 43 -0.6 0 0.0 6 15
46 C 286 VAL V 0 0 -99.7 999.9 999.9 999.9 999.9 144.1 0 0.0 0 0.0 0 0.0 0 0.0 3 10
1ytfC.pdb
1YTF COMPLEX (TRANSCRIPTION REGULATION/DNA) MOL_ID: 1; MOL_ID: 1;
author author
Kabs/Sand EEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEEEE Kabs/Sand
chirality +--+--+--+----+------++---+--+-----+----+-- chirality
bends S SSS S SS S bends
turns TTTT TTTT turns
5-turns 5-turns
3-turns >33< >33< 3-turns
bridge-2 BBBBBBB*BBBBB bridge-2
bridge-1 AAA*AA*AAAAA AAAAAAA**AAA BBBBB*BBBBBBB bridge-1
sheets AAAAAAAAAAAA AAAAAAAAAAAAA AAAAAAAAAAAAA sheets
4-turns 4-turns
summary EEEEEEEEEEEETeEEEEEEEEEEEEETTEEEEEEEEEEEEEe summary
sequence ENLMLCLYDKVTRTKARWKCSLKDGVVTINRNDYTFQKAQVEAEWV sequence
10 20 30 40