# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1zq1A 438 3.75e-02 1v54B 227 1.34e-01 b.6.1.2,f.17.2.1 100322,100323 1zkdA 387 1.99e-01 1usuA 260 2.40e-01 d.14.1.8 99885 2basA 431 2.50e-01 1c9oA 66 2.80e-01 1mjc b.40.4.5 25325 1wjnA 97 3.40e-01 1y14B 171 5.11e-01 1yavA 159 6.39e-01 1fr3A 67 7.81e-01 1fr3A b.40.6.1 25436 1dhn 121 7.86e-01 1dhn d.96.1.3 40663 1o6lA 337 9.16e-01 d.144.1.7 81092 1ihjA 98 1.09e+00 1pdr b.36.1.1 62382 1z7gA 217 1.10e+00 1m26A 133 1.31e+00 4ubpC 570 1.41e+00 1ubpC b.92.1.1,c.1.9.2 28431,29053 1j5wA 298 1.55e+00 d.104.1.1 71589 2cwpA 112 1.70e+00 1xxqA 161 1.84e+00 1uspA 139 1.89e+00 d.227.1.1 99879 2fwkA 121 1.94e+00 2d9rA 104 1.96e+00 1ugxA 133 2.12e+00 1k0iA 394 2.36e+00 c.3.1.2,d.16.1.2 67942,67943 1ofdA 1520 2.41e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1bia 321 2.41e+00 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1tc1A 220 2.47e+00 1tc1A c.61.1.1 34083 1ykjA 394 2.53e+00 1ts9A 102 2.61e+00 1u0mA 382 2.67e+00 c.95.1.2,c.95.1.2 107557,107558 1h0bA 256 2.92e+00 b.29.1.11 83422 1zx8A 136 3.24e+00 1kqqA 139 3.53e+00 a.4.3.1 72885 2h6lA 146 3.56e+00 1zybA 232 3.63e+00 1cbf 285 3.73e+00 1cbf c.90.1.1 35587 2a5zA 262 3.81e+00 1fthA 122 4.10e+00 d.150.1.2 60028 5abp 306 4.11e+00 8abp c.93.1.1 35651 1q6hA 224 4.43e+00 d.26.1.1 95975 1vj0A 380 4.51e+00 b.35.1.2,c.2.1.1 100786,100787 1fehA 574 5.10e+00 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1dfcA 493 5.15e+00 1dfcA b.42.5.1,b.42.5.1,b.42.5.1,b.42.5.1 25616,25617,25618,25619 1g2iA 166 5.35e+00 1g2iA c.23.16.2 31438 1kzlA 208 5.48e+00 b.43.4.3,b.43.4.3 77635,77636 1khoA 370 5.73e+00 a.124.1.1,b.12.1.3 72489,72490 1ha3A 405 5.82e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1qd6C 240 5.97e+00 1qd5A 1exmA 405 6.24e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1l6pA 125 6.49e+00 b.1.17.1 73626 1aszB 490 6.50e+00 1b8aA b.40.4.1,d.104.1.1 25241,40762 2gzvA 114 6.54e+00 8abp 306 6.75e+00 8abp c.93.1.1 35647 1iz0A 302 7.07e+00 b.35.1.2,c.2.1.1 83821,83822 2aj6A 159 7.08e+00 1db3A 372 7.13e+00 1db3A c.2.1.2 29813 1p4kA 295 7.19e+00 d.153.1.5 87772 2c78A 405 7.26e+00 2gu2A 312 7.41e+00 9gafA 295 7.47e+00 1apyA d.153.1.5 42008 2arcA 164 7.48e+00 2arcA b.82.4.1 28148 1am2 199 7.61e+00 1am2 b.86.1.2 28381 1qlaA 656 7.80e+00 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1yphE 97 7.90e+00 1gg6C 97 8.15e+00 5ptp 1cjwA 166 8.96e+00 1cjwA d.108.1.1 40818 1a8p 258 9.02e+00 1fdr b.43.4.2,c.25.1.1 25654,31544 1llfA 534 9.03e+00 c.69.1.17 78094 1cleA 534 9.58e+00 1thg c.69.1.17 34771 1k3yA 221 9.77e+00 a.45.1.1,c.47.1.5 77245,77246 1f3aA 222 1.02e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1abrB 267 1.04e+01 1abrB b.42.2.1,b.42.2.1 25563,25564 1yfuA 174 1.05e+01 1h10A 125 1.13e+01 b.55.1.1 83446 1unqA 125 1.13e+01 b.55.1.1 107968 1i6pA 220 1.14e+01 1ddzA c.53.2.1 61848 2cu3A 64 1.16e+01 2bs3A 656 1.17e+01 1i0lA 221 1.18e+01 c.61.1.1 71096 1bzyA 217 1.18e+01 1qk3A c.61.1.1 34071 1a8vA 121 1.20e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1yezA 68 1.22e+01 1v9kA 228 1.23e+01 d.265.1.3 108449 1h2kA 349 1.27e+01 b.82.2.6 76572 2fb7A 95 1.29e+01 1vjkA 98 1.29e+01 d.15.3.1 108631 1dl2A 511 1.29e+01 1dl2A a.102.2.1 18844 1m6kA 251 1.30e+01 e.3.1.1 78695 2fdiA 211 1.36e+01 1xpiA 231 1.37e+01 1f37A 110 1.39e+01 1f37A c.47.1.11 33088 1gdoA 240 1.43e+01 1gdoA 2bw8A 227 1.43e+01 1s4iA 175 1.49e+01 1z1yA 186 1.52e+01 1gyzA 60 1.54e+01 a.144.2.1 70793 1qd5A 275 1.56e+01 1qd5A f.4.2.1 43748 1ejbA 168 1.57e+01 1rvv1 c.16.1.1 59417 1vc3B 97 1.57e+01 1tyyA 339 1.58e+01 1nykA 165 1.68e+01 b.33.1.1 86408 1dciA 275 1.68e+01 1dciA c.14.1.3 30918 1l1qA 186 1.69e+01 c.61.1.1 77653 1xjvA 294 1.74e+01 1nofA 383 1.75e+01 b.71.1.2,c.1.8.3 92020,92021 1y6zA 263 1.76e+01 1sefA 274 1.78e+01 b.82.1.11 105452 2fcfA 103 1.79e+01 1r17A 343 1.79e+01 b.2.3.4,b.2.3.4 96796,96797 1gutA 68 1.84e+01 b.40.6.1 65576 1ei1A 391 1.85e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1jtkA 136 1.86e+01 c.97.1.1 71862 1fdr 248 1.87e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1v9nA 360 1.88e+01 1t3cA 421 1.90e+01 d.92.1.7 106343 1uwzA 136 1.90e+01 c.97.1.1 108081 1vl6A 388 1.90e+01 c.2.1.7,c.58.1.3 108724,108725 1e0gA 48 1.92e+01 1e01A d.7.1.1 37325 1qwrA 319 1.94e+01 b.82.1.3 96491 1st0A 337 1.97e+01 d.13.1.3,d.246.1.1 98979,98980 1go7P 462 1.98e+01 b.80.7.1,d.92.1.6 76245,76246 2g8yA 385 2.01e+01 1ht6A 405 2.03e+01 b.71.1.1,c.1.8.1 83629,83630 1vlrA 350 2.05e+01 d.13.1.3,d.246.1.1 108860,108861 1fm2A 169 2.07e+01 1fm2A d.153.1.2 59877 1d3bB 91 2.12e+01 1d3bB b.38.1.1 24804 1hk9A 74 2.15e+01 b.38.1.2 83541 1mfgA 95 2.16e+01 b.36.1.1 79043 1b8aA 438 2.19e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1fa0A 537 2.25e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1xffA 240 2.31e+01 d.153.1.1 109580 1zd7A 159 2.31e+01 1c24A 263 2.34e+01 1c24A d.127.1.1 41148 1sk4A 163 2.35e+01 d.118.1.1 105664 1xnzA 264 2.39e+01 1oa4A 222 2.40e+01 b.29.1.11 86731 1kwiA 101 2.41e+01 d.17.1.3 77564 2h3lA 103 2.43e+01 1z90A 469 2.44e+01 1a62 130 2.52e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1k7iA 479 2.54e+01 b.80.7.1,d.92.1.6 77281,77282 1rkiA 102 2.57e+01 1adt 356 2.57e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17887,45362,45368 1xneA 113 2.58e+01 1jmxA 494 2.61e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1wqaA 455 2.62e+01 1yloA 348 2.63e+01 1e4cP 215 2.65e+01 2fua c.74.1.1 34969 1b00A 127 2.65e+01 3chy c.23.1.1 31122 1cl1A 395 2.68e+01 1cl2A c.67.1.3 34395 1cliA 345 2.70e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1pueE 89 2.72e+01 1awcA a.4.5.21 16165 1h8eA 510 2.74e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1wsrA 375 2.74e+01 1sxrA 183 2.80e+01 d.118.1.1 106101 1m2dA 110 2.80e+01 c.47.1.11 78476 2bi7A 384 2.88e+01 1q6uA 245 2.90e+01 d.26.1.1 95998 1qzgA 187 2.91e+01 b.40.4.3 96643 1hl9A 449 2.91e+01 b.71.1.3,c.1.8.11 90650,90651 1smd 496 2.94e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1olmA 403 3.04e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1yrrA 382 3.07e+01 1e94F 449 3.09e+01 1do0A c.37.1.20 32443 1reoA 486 3.12e+01 c.3.1.2,d.16.1.5 97325,97326 2cqsA 842 3.28e+01 1wzoA 246 3.28e+01 1vjrA 271 3.31e+01 c.108.1.14 100832 1iz5A 249 3.33e+01 d.131.1.2,d.131.1.2 83834,83835 1o6uA 403 3.35e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1k8tA 510 3.36e+01 e.41.1.1 68316 1fsgA 233 3.39e+01 1qk3A c.61.1.1 34029 1pl8A 356 3.40e+01 b.35.1.2,c.2.1.1 94878,94879 1nriA 306 3.41e+01 c.80.1.3 86123 2ew2A 316 3.41e+01 1vr9A 213 3.44e+01 1g0hA 252 3.44e+01 1dk4A e.7.1.1 60171 1lf6A 684 3.46e+01 a.102.1.5,b.30.5.5 77918,77919 1uekA 275 3.47e+01 d.14.1.5,d.58.26.5 88483,88484 1vpzA 73 3.50e+01 1vi2A 300 3.50e+01 c.2.1.7,c.58.1.5 100726,100727 1fnsA 196 3.51e+01 1auq c.62.1.1 34136 1mjc 69 3.55e+01 1mjc b.40.4.5 25319 1rutX 188 3.59e+01 1a7tA 232 3.62e+01 1a7tA d.157.1.1 42041 1eg9B 194 3.64e+01 1ndoB d.17.4.4 38120 1e79A 510 3.64e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1o7nB 194 3.67e+01 d.17.4.4 81164 1rkd 309 3.67e+01 1rkd c.72.1.1 34928 1zchA 255 3.68e+01 1k8qA 377 3.69e+01 c.69.1.6 72177 1vrbA 342 3.69e+01 1zud2 66 3.74e+01 1ois 223 3.77e+01 1a36A e.15.1.1 43267 1krhA 338 3.80e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1thqA 170 3.80e+01 f.4.1.2 106920 1vphA 149 3.88e+01 2f2lX 167 3.89e+01 1yb3A 175 3.97e+01 1ltoA 245 4.01e+01 b.47.1.2 84707 1vk4A 298 4.02e+01 c.72.1.1 100850 1ibyA 112 4.06e+01 1ibzA b.6.1.4 62233 1xtlA 175 4.10e+01 2ck3A 510 4.14e+01 1ea7A 310 4.15e+01 c.41.1.1 70086 1zesA 125 4.16e+01 1ug6A 431 4.19e+01 c.1.8.4 88490 1h8gA 95 4.21e+01 b.109.1.1 65735 1edg 380 4.25e+01 1edg c.1.8.3 28807 1qqcA 773 4.26e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 2a9fA 398 4.28e+01 1mvfD 82 4.34e+01 b.129.1.1 85143 1wocA 103 4.34e+01 1l2mA 118 4.35e+01 d.89.1.4 77657 1mm4A 170 4.37e+01 f.4.1.2 79294 1z4eA 153 4.49e+01 1td5A 202 4.59e+01 d.110.2.2 106767 1vr0A 247 4.62e+01 1ogoX 574 4.63e+01 b.133.1.1,b.80.1.10 92925,92926 1wdiA 345 4.63e+01 1gj7B 253 4.68e+01 1njrA 284 4.69e+01 c.50.1.2 103858 1y8xB 98 4.87e+01 2gfgA 193 4.88e+01 1v8gA 329 5.02e+01 a.46.2.1,c.27.1.1 100505,100506 1ijbA 202 5.05e+01 c.62.1.1 71229 1o5uA 101 5.13e+01 b.82.1.8 92518 1vz6A 393 5.13e+01 d.154.1.2 108949 1j1lA 290 5.17e+01 b.82.1.12 90766 1v1pA 211 5.18e+01 b.40.2.2,d.15.6.1 108268,108269 2cs7A 55 5.26e+01 1e3jA 352 5.28e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1xw3A 110 5.36e+01 1vmfA 145 5.40e+01 1mpxA 615 5.41e+01 b.18.1.13,c.69.1.21 85041,85042 1hnuA 280 5.41e+01 1hnoA c.14.1.3 61096 1j5yA 187 5.42e+01 a.4.5.1,d.94.2.1 71592,71593 2bg9A 370 5.44e+01 1xg9A 260 5.47e+01 1zghA 260 5.47e+01 1zp7A 206 5.51e+01 1e3dB 542 5.54e+01 1h2rL e.18.1.1 59189 1yckA 175 5.57e+01 1xw4X 110 5.59e+01 1h9sA 140 5.64e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1or0A 160 5.66e+01 d.153.1.2 93445 1adjA 421 5.74e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 2dpmA 284 5.78e+01 2dpmA c.66.1.28 34246 1dbhA 354 5.86e+01 1awe a.87.1.1,b.55.1.1 18514,26967 4tsvA 150 5.88e+01 2tnfA b.22.1.1 23860 1pxgA 382 5.90e+01 c.1.20.1 95287 1yzsA 121 5.96e+01 1pud 386 6.05e+01 1pud c.1.20.1 29658 1rznA 205 6.08e+01 2akrA 285 6.20e+01 1pk6A 133 6.32e+01 b.22.1.1 94801 2fikA 287 6.36e+01 1aop 497 6.49e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1kngA 156 6.51e+01 c.47.1.10 72777 1ekjA 221 6.59e+01 1ekjB c.53.2.1 33364 1v1qA 134 6.60e+01 1u9tA 354 6.69e+01 1y7tA 327 6.70e+01 1jpyA 137 6.70e+01 g.17.1.6 67065 1bmdA 327 6.73e+01 1bmdA c.2.1.5,d.162.1.1 30139,42106 1x74A 360 6.73e+01 1n0qA 93 6.74e+01 k.37.1.1 79754 1xwiA 322 6.75e+01 1bdmA 327 6.80e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1vq2A 193 6.81e+01 2fn0A 437 6.90e+01 1v5lA 103 6.95e+01 b.36.1.1 108378 1ww8A 439 6.95e+01 1wp5A 323 6.98e+01 1u1sA 82 7.05e+01 5nul 138 7.10e+01 5nul c.23.5.1 31191 1z02A 446 7.11e+01 1eq6A 189 7.11e+01 1eq6A d.107.1.1 40796 1h4vB 421 7.12e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1auyA 189 7.15e+01 1auyA b.121.4.6 23311 1ci3M 249 7.16e+01 1hcz b.2.6.1,b.84.2.2 22480,28266 1zn8A 180 7.17e+01 1bjt 793 7.22e+01 1bjt e.11.1.1 43249 2c3gA 98 7.24e+01 2g0cA 76 7.30e+01 1t9mA 214 7.30e+01 1vkkA 154 7.40e+01 d.109.1.2 108669 1q7hA 153 7.43e+01 b.122.1.1,d.17.6.2 96042,96043 1z9hA 290 7.47e+01 2c2xA 281 7.49e+01 1v7pB 128 7.53e+01 d.169.1.1 108407 1zm0A 114 7.65e+01 1jv1A 505 7.65e+01 c.68.1.5 71892 2gokA 429 7.67e+01 2azeA 155 7.69e+01 1s98A 107 7.72e+01 b.124.1.1 105377 1qrrA 394 7.79e+01 1qrrA c.2.1.2 29824 1pzxA 289 7.83e+01 c.119.1.1 95484 1l4dB 122 7.83e+01 d.15.5.1 77684 1u04A 771 7.95e+01 b.34.14.1,c.55.3.10 107539,107540 2fr5A 146 7.95e+01 1n1tA 641 7.99e+01 b.29.1.15,b.68.1.1 79821,79822 1ukmB 128 8.00e+01 d.169.1.1 99500 1c5yB 253 8.12e+01 5ptp 1l3iA 192 8.15e+01 c.66.1.22 77676 2gaiA 633 8.16e+01 1ecsA 126 8.19e+01 1ecsA d.32.1.2 59407 1rc6A 261 8.21e+01 b.82.1.11 97287 2cxaA 256 8.26e+01 2gr8A 99 8.32e+01 1m2eA 135 8.56e+01 c.23.1.5 78478 1zxxA 319 8.57e+01 1i24A 404 8.57e+01 c.2.1.2 83663 1uzkA 162 8.58e+01 1fzqA 181 8.61e+01 1hurA c.37.1.8 32060 1kk1A 410 8.63e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1jk4A 89 8.66e+01 b.9.1.1 77130 1ml8A 134 8.69e+01 d.227.1.2 85013 1pjhA 280 8.80e+01 c.14.1.3 94761 1ryjA 70 8.85e+01 d.15.3.2 98104 1vk3A 615 8.86e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 2aaiB 262 8.92e+01 1abrB b.42.2.1,b.42.2.1 25561,25562 2g9zA 348 8.94e+01