# List of top-scoring protein chains for t04-100-30-dssp-ebghstl 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 1tljA 213 9.22e-27 1w1kA 560 4.45e-01 1e8gA 560 4.69e-01 1qltA d.58.32.1 39455 d.145.1.1 41718 1t7pA 698 5.62e-01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1f7uA 607 6.35e-01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1gpjA 404 6.51e-01 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1i1kA 309 6.93e-01 1daaA e.17.1.1 61533 2ctc 307 8.69e-01 1aye c.56.5.1 33802 1nal1 297 8.75e-01 1nal3 1iyeA 309 9.48e-01 e.17.1.1 83786 1hl2A 297 1.17e+00 c.1.10.1 83581 1ftrA 296 1.36e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1m4lA 307 1.40e+00 c.56.5.1 78604 1kwgA 645 1.68e+00 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1brwA 433 2.17e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1oo0B 110 2.51e+00 d.58.7.1 87183 1j5yA 187 2.57e+00 a.4.5.1 71592 d.94.2.1 71593 1ofuX 119 2.62e+00 c.37.1.22 86976 1a8q 274 2.79e+00 1brt c.69.1.12 34702 1b65A 375 3.01e+00 1b65A d.154.1.1 42020 1pjqA 457 3.03e+00 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 1ihoA 283 3.05e+00 1ihoA c.26.1.4 62390 1j3mA 129 3.27e+00 1f0xA 571 3.58e+00 1f0xA d.58.32.2 39483 d.145.1.1 41746 1uouA 474 3.83e+00 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1qo7A 394 4.55e+00 1qo7A c.69.1.11 34697 1pyaB 228 4.83e+00 1pyaB 1eudB 396 5.14e+00 2scuB c.23.4.1 31150 d.142.1.4 41571 1rpjA 288 5.40e+00 2dri c.93.1.1 35656 1b8oA 284 5.52e+00 1b8oA c.56.2.1 33762 1a04A 215 5.67e+00 1a04A a.4.6.2 16234 c.23.1.1 31089 1rk8A 165 5.95e+00 d.58.7.1 -10018 1sk4A 163 5.98e+00 1ni4A 365 6.15e+00 c.36.1.7 85728 1rkqA 282 6.40e+00 c.108.1.10 -6847 1v7oA 165 7.06e+00 unknown_sccs -10249 1gefA 123 7.13e+00 1gefA c.52.1.18 60465 1qysA 106 7.36e+00 unknown_sccs -13432 1ohvA 472 8.20e+00 c.67.1.4 -8181 1eqfA 280 8.84e+00 1eqfA a.29.2.1 16972 a.29.2.1 16973 1p2fA 220 9.14e+00 a.4.6.1 87720 c.23.1.1 87721 1byb 495 9.35e+00 1byb c.1.8.1 28790 1npyA 271 9.60e+00 c.2.1.7 85995 c.58.1.5 85996 1agi 125 9.82e+00 7rsa d.5.1.1 37303 1ecfA 504 1.03e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1v3hA 495 1.06e+01 1kl7A 514 1.10e+01 c.79.1.1 72678 2irfG 113 1.11e+01 2irfG a.4.5.23 16185 1j6oA 268 1.14e+01 c.1.9.12 77088 1dxeA 256 1.22e+01 1dxeA c.1.12.5 29310 1ad2 228 1.31e+01 1ad2 e.24.1.1 43353 1o0xA 262 1.37e+01 d.127.1.1 80755 1s98A 107 1.42e+01 1han 297 1.42e+01 1han d.32.1.3 38506 d.32.1.3 38507 1q6cA 495 1.43e+01 c.1.8.1 -5300 1bd3A 243 1.44e+01 1bd3A c.61.1.1 34098 1aw7A 194 1.50e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1lkdA 297 1.61e+01 d.32.1.3 78059 d.32.1.3 78060 1gw5S 142 1.61e+01 d.110.4.2 70633 1ytw 306 1.63e+01 1ytw c.45.1.2 32689 1h0pA 182 1.68e+01 b.62.1.1 76450 1qwdA 177 1.68e+01 b.60.1.1 -4455 1q7sA 117 1.75e+01 unknown_sccs -7522 1mszA 86 1.75e+01 d.68.7.1 79428 1nxiA 132 1.77e+01 d.58.47.1 86381 1rcf 169 1.80e+01 1rcf c.23.5.1 31170 1e42A 258 1.81e+01 1e42A b.1.10.1 22316 d.105.1.1 40792 1gudA 288 1.83e+01 c.93.1.1 83326 1afb1 154 1.83e+01 1rtm1 1jeyB 565 1.84e+01 1jeqB unknown_sccs -4431 unknown_sccs -7995 1vc4A 254 1.88e+01 c.1.2.4 -5172 1o5zA 442 1.93e+01 c.59.1.2 -7939 c.72.2.2 -8418 1oboA 169 1.98e+01 c.23.5.1 86776 1gz6A 319 2.02e+01 c.2.1.2 76410 1g6sA 427 2.04e+01 1eps d.68.2.2 39584 1gxjA 186 2.08e+01 d.215.1.1 70707 1nwaA 203 2.09e+01 d.58.28.1 86295 1o1yA 239 2.09e+01 c.23.16.1 86554 1st0A 337 2.14e+01 unknown_sccs -9014 unknown_sccs -9474 1vkbA 161 2.19e+01 1izcA 339 2.19e+01 c.1.12.5 83838 1k2yX 463 2.23e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1nbwB 117 2.24e+01 c.51.3.2 80396 1c3pA 375 2.32e+01 1c3pA c.42.1.2 32606 1r94A 118 2.35e+01 b.124.1.1 -4402 1tltA 319 2.36e+01 1rlkA 117 2.36e+01 unknown_sccs -7526 1j5vA 351 2.37e+01 c.72.1.1 71585 2lhb 149 2.38e+01 2fal a.1.1.2 15597 1g57A 217 2.40e+01 1g57A d.115.1.2 60253 1lc0A 294 2.40e+01 c.2.1.3 73823 d.81.1.4 73824 9gafA 295 2.41e+01 1apyA d.153.1.5 42008 1dkzA 219 2.45e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1p5dX 463 2.51e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1k2xA 177 2.51e+01 d.153.1.5 -11450 1h1nA 305 2.53e+01 c.1.8.3 70855 1umgA 362 2.57e+01 1pvmA 184 2.58e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1p4kA 295 2.61e+01 d.153.1.5 87772 1pl5A 142 2.68e+01 1gcuA 295 2.85e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1vhoA 346 2.93e+01 unknown_sccs -4283 c.56.5.4 -7893 1lyvA 306 3.01e+01 c.45.1.2 74348 1chmA 401 3.19e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 1f60A 458 3.22e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1fc4A 401 3.25e+01 1bs0A c.67.1.4 59760 1bjt 793 3.26e+01 1bjt e.11.1.1 43249 1nlfA 279 3.28e+01 c.37.1.11 85850 1om4A 422 3.33e+01 d.174.1.1 87067 1d6jA 211 3.38e+01 1d6jA c.37.1.4 31940 1b74A 254 3.38e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1nyhA 166 3.41e+01 h.1.23.1 86403 1lx7A 253 3.48e+01 c.56.2.1 74329 1hkhA 279 3.48e+01 c.69.1.12 -8342 1ecsA 126 3.54e+01 1ecsA d.32.1.2 59407 1rxyA 253 3.59e+01 c.56.2.1 -7834 1qwiA 143 3.66e+01 d.227.1.1 -11183 2viuA 328 3.68e+01 1hgeA b.19.1.2 23797 1euaA 213 3.69e+01 1fwrA c.1.10.1 29155 1a53 247 3.69e+01 1a53 c.1.2.4 28564 1iu8A 206 3.72e+01 c.56.4.1 71436 1rfzA 168 3.79e+01 unknown_sccs -1206 1agjA 242 3.79e+01 1agjA b.47.1.1 25827 2liv 344 3.79e+01 2liv c.93.1.1 35708 1hwxA 501 3.91e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 2oatA 439 3.93e+01 2dkb c.67.1.4 34452 1sz9A 144 3.93e+01