# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1r1hA 696 8.62e-02 d.92.1.4 104756 1dmtA 696 1.08e-01 1dmtA d.92.1.4 40296 1yy7A 213 1.58e-01 1zs9A 261 1.64e-01 1u46A 291 5.32e-01 d.144.1.7 107656 1dgsA 667 6.11e-01 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1xb4A 202 1.83e+00 1cll 148 2.42e+00 1cll a.39.1.5 17263 1o6dA 163 2.48e+00 c.116.1.3 92567 1s2oA 244 2.77e+00 1u5tC 202 3.39e+00 a.4.5.54,a.4.5.54 107688,107689 1xhnA 184 3.55e+00 1wzzA 334 3.66e+00 2es7A 142 4.26e+00 2gz4A 207 4.46e+00 2g3bA 208 4.96e+00 1y9kA 157 5.02e+00 1exrA 148 5.12e+00 1cll a.39.1.5 17299 1d9tA 289 5.25e+00 1deaA 1fjgT 106 5.35e+00 1fjfT a.7.6.1 16338 1ne7A 289 5.40e+00 c.124.1.1 91833 1osa 148 7.10e+00 1cll a.39.1.5 17300 1f4kA 122 7.32e+00 1bm9A a.4.5.7 59646 1cfzA 162 7.35e+00 1cfzA c.56.1.1 33754 1zq6A 359 7.96e+00 1ldm 329 8.44e+00 3ldh c.2.1.5,d.162.1.1 30160,42127 1afsA 323 8.97e+00 1frb c.1.7.1 28694 1s1pA 331 9.74e+00 c.1.7.1 98350 1yzxA 226 1.00e+01 1o26A 232 1.00e+01 d.207.1.1 86566 180lA 164 1.03e+01 1l92 d.2.1.3 36867 1wpbA 172 1.06e+01 1xvxA 312 1.07e+01 3cln 148 1.09e+01 1cll a.39.1.5 17286 1tig 94 1.11e+01 1tig d.68.1.1 39566 1kjnA 157 1.11e+01 c.115.1.1 72614 2erfA 209 1.17e+01 1nz6A 101 1.18e+01 a.2.3.1 86441 1kq4A 232 1.18e+01 d.207.1.1 68791 1m70A 190 1.21e+01 a.3.1.4,a.3.1.4 91200,91201 1yh1A 359 1.24e+01 1bvoA 175 1.24e+01 1a3qA b.2.5.3 22457 1gqvA 135 1.25e+01 d.5.1.1 70376 6ldh 330 1.26e+01 3ldh c.2.1.5,d.162.1.1 30161,42128 1ckeA 227 1.29e+01 1ckeA c.37.1.1 31846 1hi2A 135 1.32e+01 7rsa d.5.1.1 61057 1etpA 190 1.39e+01 1etpA a.3.1.4,a.3.1.4 15962,15963 1xnfA 275 1.40e+01 1tdj 514 1.45e+01 1tdj c.79.1.1,d.58.18.2,d.58.18.2 35297,39356,39357 1zklA 353 1.48e+01 1qg0A 308 1.49e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1nekA 588 1.51e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1xyiA 66 1.56e+01 2bfdA 400 1.63e+01 1hdoA 206 1.67e+01 1he2A c.2.1.2 60965 1iuhA 198 1.68e+01 d.61.1.2 83711 1u55A 188 1.69e+01 d.278.1.1 107677 1gz0A 253 1.73e+01 c.116.1.1,d.79.3.3 76391,76392 1x7yA 400 1.73e+01 1mbmA 198 1.77e+01 b.47.1.3 78916 1csjA 531 1.82e+01 1quvA e.8.1.4 43120 1azpA 66 1.88e+01 1azpA b.34.13.1 37467 1glqA 209 1.92e+01 1pgtA a.45.1.1,c.47.1.5 17588,32882 1azqA 66 1.94e+01 1azpA b.34.13.1 37469 1zzgA 415 1.95e+01 1h3oB 76 1.96e+01 a.22.1.3 76645 2f3yA 148 1.97e+01 1winA 143 2.01e+01 1obr 326 2.01e+01 1aye c.56.5.2 33828 1xkpB 124 2.04e+01 1iwmA 186 2.11e+01 b.125.1.2 83758 1bm9A 122 2.12e+01 1bm9A a.4.5.7 16116 1vpbA 451 2.14e+01 1lbd 282 2.15e+01 1lbd a.123.1.1 19279 1quvA 578 2.16e+01 1quvA e.8.1.4 43119 1fnb 314 2.17e+01 1fnc b.43.4.2,c.25.1.1 25628,31518 1dsxA 87 2.30e+01 1t1dA d.42.1.2 38644 1sap 66 2.33e+01 1azpA b.34.13.1 37472 1f02T 66 2.34e+01 1f02T j.67.1.1 46360 1jug 125 2.48e+01 3lzt d.2.1.2 36587 1wp5A 323 2.49e+01 2gp5A 349 2.52e+01 1sk7A 198 2.54e+01 a.132.1.2 105671 1vplA 256 2.57e+01 1k99A 99 2.58e+01 a.21.1.1 68341 1cojA 212 2.72e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1eetB 427 2.76e+01 1rthA e.8.1.2 43079 1vr0A 247 3.01e+01 1gkmA 509 3.02e+01 a.127.1.2 70228 1tq8A 163 3.03e+01 c.26.2.4 107204 1fnc 314 3.04e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1fnd 314 3.06e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1xriA 151 3.13e+01 2cmwA 310 3.14e+01 1seiA 130 3.26e+01 1seiA d.140.1.1 41463 1xw2A 405 3.31e+01 1he2A 206 3.41e+01 1he2A c.2.1.2 60966 1csmA 256 3.42e+01 5csmA a.130.1.2 19495 1nnxA 109 3.44e+01 b.40.10.1 92013 1xwtA 405 3.44e+01 3thiA 371 3.46e+01 2thiA c.94.1.1 35792 2thiA 379 3.53e+01 2thiA c.94.1.1 35794 1lmzA 187 3.53e+01 a.96.1.4 74037 1dk8A 147 3.60e+01 1agrE a.91.1.1 18548 1m46A 148 3.62e+01 a.39.1.5 78599 1mvcA 240 3.68e+01 a.123.1.1 79499 1b8fA 509 3.68e+01 1b8fA a.127.1.2 19434 1top 162 3.73e+01 1ncx a.39.1.5 17223 1bx1A 314 3.76e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1lo7A 141 3.82e+01 d.38.1.1 74144 1b7rA 130 3.92e+01 3lzt d.2.1.2 36436 1bvqA 141 3.93e+01 1bvqA d.38.1.1 38542 1v58A 241 3.95e+01 c.47.1.9,d.17.3.1 108371,108372 1mznA 240 3.96e+01 a.123.1.1 79704 1oq9A 363 4.09e+01 a.25.1.2 87257 1h12A 405 4.09e+01 a.102.1.2 83447 1ncx 162 4.09e+01 1ncx a.39.1.5 17222 1qysA 106 4.10e+01 k.41.1.1 96603 1b5uA 130 4.12e+01 3lzt d.2.1.2 36453 2bs3A 656 4.27e+01 1rl2A 137 4.40e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 1rypF 233 4.41e+01 1rypF d.153.1.4 41937 1b5wA 130 4.43e+01 3lzt d.2.1.2 36557 1hc7A 477 4.44e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1dbuA 158 4.46e+01 1dbuA d.116.1.1 40930 1rd5A 262 4.46e+01 1gx5A 536 4.47e+01 e.8.1.4 70682 1n3yA 198 4.47e+01 c.62.1.1 79976 2d2eA 250 4.48e+01 1b7pA 130 4.52e+01 3lzt d.2.1.2 36551 1b5yA 130 4.53e+01 3lzt d.2.1.2 36570 1nnhA 294 4.57e+01 d.104.1.1 92005 1m45A 148 4.62e+01 a.39.1.5 78598 1lz1 130 4.69e+01 3lzt d.2.1.2 36415 1b7qA 130 4.72e+01 3lzt d.2.1.2 36549 1a68 95 4.80e+01 1t1dA d.42.1.2 38639 1kdoA 227 4.88e+01 c.37.1.1 68478 1lmt 136 4.88e+01 3lzt d.2.1.2 36416 1b5vA 130 4.90e+01 3lzt d.2.1.2 36563 1wduA 245 4.92e+01 d.151.1.1 109286 1io7A 368 4.92e+01 1f4tA a.104.1.1 18971 1r4wA 226 4.94e+01 c.47.1.13 97050 164l 164 4.96e+01 1l92 d.2.1.3 36714 1wxcA 281 4.97e+01 1ak8 76 5.09e+01 1cll a.39.1.5 17281 1v8yA 170 5.12e+01 1dbxA 158 5.15e+01 1dbuA d.116.1.1 40928 133l 130 5.16e+01 3lzt d.2.1.2 36524 1bf4A 63 5.25e+01 1azpA b.34.13.1 37461 1b7s 130 5.29e+01 3lzt d.2.1.2 36571 1hzmA 154 5.30e+01 c.46.1.1 65975 2bivA 243 5.31e+01 1oafA 261 5.35e+01 a.93.1.1 86734 1azsA 220 5.37e+01 1azsA d.58.29.1 39416 1g9uA 454 5.41e+01 c.10.2.6 65172 1jl5A 454 5.44e+01 c.10.2.6 66830 2cmkA 227 5.48e+01 1ckeA c.37.1.1 31847 1gjnA 153 5.49e+01 a.1.1.2 70191 1b5zA 130 5.49e+01 3lzt d.2.1.2 36567 1b7lA 130 5.64e+01 3lzt d.2.1.2 36515 1b7nA 130 5.65e+01 3lzt d.2.1.2 36468 1emy 153 5.67e+01 1a6m a.1.1.2 15204 1c2pA 576 5.73e+01 1quvA e.8.1.4 43117 1pujA 282 5.73e+01 c.37.1.8 88294 1jsf 130 5.74e+01 3lzt d.2.1.2 36410 1ngnA 155 5.75e+01 a.96.1.2 85697 1vr4A 103 5.94e+01 1uzbA 516 5.98e+01 c.82.1.1 100220 1afrA 345 6.00e+01 1afrA a.25.1.2 16805 1gpmA 525 6.09e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1nuuA 252 6.09e+01 c.26.1.3 86209 2fa8A 105 6.13e+01 1rx0A 393 6.16e+01 a.29.3.1,e.6.1.1 98007,98008 2fhfA 1083 6.19e+01 1c8cA 64 6.20e+01 1azpA b.34.13.1 59084 2abqA 306 6.21e+01 2h1nA 567 6.21e+01 1m0wA 491 6.24e+01 c.30.1.4,d.142.1.6 78363,78364 1i1gA 141 6.32e+01 a.4.5.32,d.58.4.2 65982,65983 1oznA 285 6.33e+01 c.10.2.7 87621 1b5xA 130 6.33e+01 3lzt d.2.1.2 36550 2gaeA 346 6.38e+01 1dyoA 160 6.48e+01 1dyoA b.18.1.7 23771 2ghcX 261 6.50e+01 1jvwA 167 6.54e+01 d.26.1.1 71907 1avsA 90 6.58e+01 1cll a.39.1.5 17226 1lkxA 697 6.58e+01 c.37.1.9 73981 1zac 90 6.59e+01 1ncx a.39.1.5 17236 1ldg 316 6.61e+01 1ceqA c.2.1.5,d.162.1.1 30165,42132 2frfA 153 6.63e+01 2bf6A 449 6.64e+01 1exqA 154 6.64e+01 1b9dA c.55.3.2 33646 2b30A 301 6.64e+01 1i9yA 347 6.69e+01 1i9yA d.151.1.2 62101 1fc3A 120 6.71e+01 1fc3A a.4.6.3 16237 1hmvB 440 6.80e+01 1rthA e.8.1.2 43047 134l 130 6.83e+01 3lzt d.2.1.2 36505 1k6kA 143 6.84e+01 a.174.1.1 77274 2phy 125 6.86e+01 3pyp d.110.3.1 40901 1dwtA 153 6.95e+01 1a6m a.1.1.2 15190 1y0vH 146 6.98e+01 1h6yA 170 7.01e+01 b.18.1.7 70904 1b7oA 130 7.22e+01 3lzt d.2.1.2 36491 1swyA 164 7.23e+01 1qqyA 130 7.24e+01 3lzt d.2.1.2 36586 1dl5A 317 7.26e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1nigA 152 7.31e+01 a.25.2.1 85740 1xfxO 149 7.35e+01 2ffjA 300 7.39e+01 2ae0X 345 7.45e+01 4hb1 108 7.46e+01 4hb1 k.8.1.1 46414 2fm9A 215 7.47e+01 156l 164 7.49e+01 1l92 d.2.1.3 36709 1ii7A 333 7.49e+01 1ii7A d.159.1.4 62415 1g5yA 238 7.55e+01 1lbd a.123.1.1 60294 1h7cA 108 7.57e+01 a.7.5.1 70914 2bl0C 142 7.57e+01 1lqbC 162 7.60e+01 b.3.3.1 74186 1qnf 484 7.61e+01 1qnf a.99.1.1,c.28.1.1 18777,31632 1x0rA 249 7.69e+01 1yozA 116 7.72e+01 1uehA 253 7.79e+01 c.101.1.1 99259 3crd 100 7.83e+01 3crd a.77.1.3 18429 1g0uE 234 7.86e+01 d.153.1.4 41950 1ahr 146 7.88e+01 1cll a.39.1.5 17287 1j6wA 175 7.88e+01 1j98A d.185.1.2 62663 1bj4A 470 8.05e+01 1bj4A c.67.1.4 34479 111l 164 8.08e+01 1l92 d.2.1.3 36661 1bnzA 64 8.10e+01 1azpA b.34.13.1 37468 1p36A 164 8.20e+01 d.2.1.3 93978 1mhqA 148 8.25e+01 a.118.9.2 84973 1kkhA 317 8.26e+01 d.14.1.5,d.58.26.3 72645,72646 195l 164 8.26e+01 1l92 d.2.1.3 36841 158l 164 8.27e+01 1l92 d.2.1.3 36747 170l 164 8.30e+01 1l92 d.2.1.3 36968 1lm8V 160 8.37e+01 b.3.3.1 74035 2b0tA 738 8.40e+01 1ngr 85 8.47e+01 1ngr a.77.1.2 18422 1djtA 64 8.47e+01 1aho g.3.7.1 44132 1y0nA 78 8.53e+01 2bjkA 516 8.70e+01 1owlA 484 8.74e+01 a.99.1.1,c.28.1.1 93647,93648 1tkeA 224 8.74e+01 1cby 259 8.79e+01 1cby d.103.1.1 40705 1i56A 130 8.82e+01 d.2.1.2 66033 1fjgC 239 8.86e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 1fuiA 591 8.92e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1jr5A 90 8.92e+01 a.150.1.1 67113 1dkfA 233 8.95e+01 3erdA a.123.1.1 19280 1khyA 148 8.98e+01 a.174.1.1 77410 1dpuA 99 8.98e+01 1dpuA a.4.5.16 16150 1xx0A 127 8.99e+01