# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1wolA 122 2.78e-17 1ufbA 127 4.66e-13 a.24.16.3 99331 1o3uA 135 3.27e-11 a.24.16.3 86615 1wwpA 119 9.83e-01 1h1wA 289 1.03e+00 d.144.1.7 83460 1uu3A 310 1.38e+00 d.144.1.7 99999 2g0qA 173 3.38e+00 1v3wA 173 4.08e+00 b.81.1.5 100291 3grx 82 5.09e+00 1aba c.47.1.1 32769 1wkbA 810 5.65e+00 1frvB 536 5.84e+00 1h2rL e.18.1.1 43296 1wtyA 119 5.99e+00 2ag5A 246 6.13e+00 16vpA 366 6.16e+00 16vpA d.180.1.1 42601 1a17 166 6.61e+00 1a17 a.118.8.1 19206 1o04A 500 6.74e+00 c.82.1.1 86508 1n5dA 288 7.12e+00 c.2.1.2 80030 1hu4A 288 7.13e+00 1hu4A 1e2aA 105 7.52e+00 1e2aA a.7.2.1 16322 1qcrF 103 7.81e+00 1be3F f.27.1.1 43676 1yf3A 259 8.01e+00 1spvA 184 8.54e+00 c.50.1.2 98957 1q0sA 259 8.69e+00 c.66.1.28 95509 1e7uA 961 9.20e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 2frvB 536 9.57e+00 1h2rL e.18.1.1 43291 2e2aA 105 1.03e+01 a.7.2.1 88499 1ppjF 110 1.08e+01 f.27.1.1 104262 2anxA 146 1.13e+01 1b8dA 164 1.14e+01 1cpcA a.1.1.3 15665 1ii6A 368 1.18e+01 1bg2 c.37.1.9 62413 1na3A 91 1.27e+01 k.38.1.1 85481 1uarA 285 1.51e+01 c.46.1.2,c.46.1.2 107762,107763 1adt 356 1.52e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17887,45362,45368 1eg7A 557 1.58e+01 1eg7A c.37.1.10 32241 1bccF 109 1.60e+01 1be3F f.27.1.1 43700 2avpA 70 1.61e+01 1p0iA 529 1.66e+01 c.69.1.1 93867 1e8xA 961 1.78e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19148,23183,37631,41711 1np8A 159 1.78e+01 a.39.1.8 92022 2cfuA 658 1.79e+01 1ti6A 875 1.81e+01 b.52.2.2,c.81.1.1 106974,106975 1iujA 106 1.91e+01 d.58.4.5 90701 1tueB 218 2.05e+01 b.91.1.1 107324 1zdrA 164 2.14e+01 3gcb 470 2.17e+01 3gcb d.3.1.1 37032 1a6r 471 2.18e+01 3gcb d.3.1.1 37033 1izmA 184 2.26e+01 a.199.1.1 90725 1knzA 164 2.28e+01 e.34.1.1 68709 1kmiZ 214 2.47e+01 h.4.11.1 72752 1gcb 454 2.49e+01 3gcb d.3.1.1 37034 1liaA 164 2.50e+01 1cpcA a.1.1.3 15661 1jagA 241 2.65e+01 c.37.1.1 66463 1elwA 118 2.72e+01 1a17 a.118.8.1 19207 2evrA 246 2.73e+01 1t46A 313 2.75e+01 d.144.1.7 106397 1u5dA 108 2.76e+01 1kbqA 273 2.82e+01 c.23.5.3 68391 1d4aA 273 2.83e+01 1d4aA c.23.5.3 31219 1alvA 173 2.94e+01 1alvA a.39.1.8 17370 1e8yA 966 2.94e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 2ex3B 264 2.96e+01 1zybA 232 2.99e+01 1w7jA 795 3.00e+01 1w3iA 293 3.04e+01 c.1.10.1 109152 1a03A 90 3.06e+01 4icb a.39.1.2 17157 1rzrA 332 3.34e+01 1v7nV 163 3.37e+01 a.26.1.2 100476 1ouvA 273 3.38e+01 a.118.18.1 93570 1siqA 392 3.46e+01 a.29.3.1,e.6.1.1 105585,105586 1d7mA 101 3.57e+01 1d7mA h.1.10.1 45628 1gtxA 472 3.58e+01 1gtxA 1itkA 731 3.66e+01 a.93.1.3,a.93.1.3 71417,71418 2c31A 568 3.68e+01 2pgd 482 3.70e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1ohvA 472 3.73e+01 c.67.1.4 93031 1e7wA 291 3.78e+01 c.2.1.2 59373 1atg 231 3.81e+01 1atg c.94.1.1 35834 1k47A 337 3.85e+01 d.14.1.5,d.58.26.4 72040,72041 1qbgA 272 3.86e+01 1d4aA c.23.5.3 31227 1lqaA 346 3.88e+01 c.1.7.1 84674 2cveA 191 3.90e+01 1ng4A 390 4.00e+01 c.3.1.2,d.16.1.3 85666,85667 1j30A 144 4.02e+01 a.25.1.1 90806 1khoA 370 4.07e+01 a.124.1.1,b.12.1.3 72489,72490 1qwiA 143 4.19e+01 d.227.1.1 96474 1jyoE 105 4.21e+01 d.184.1.2 67487 1swxA 209 4.22e+01 a.224.1.1 106075 1r2rA 248 4.23e+01 c.1.1.1 96875 1rlhA 173 4.26e+01 d.256.1.1 97646 1cjcA 460 4.38e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1g3mA 294 4.42e+01 c.37.1.5 83268 1oe9A 795 4.42e+01 b.34.3.1,c.37.1.9 92792,92793 2fkzA 155 4.44e+01 1hy3A 294 4.45e+01 c.37.1.5 71090 1be3F 110 4.46e+01 1be3F f.27.1.1 43668 1xjdA 345 4.47e+01 1anv 356 4.55e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17890,45365,45371 1p4xA 250 4.58e+01 a.4.5.28,a.4.5.28 87784,87785 1sxgA 280 4.58e+01 2crbA 97 4.61e+01 1t8qA 336 4.66e+01 c.1.18.3 106669 1uwoA 92 4.67e+01 4icb a.39.1.2 17174 1ag8A 499 4.68e+01 1bpwA c.82.1.1 35341 2cq2A 114 4.79e+01 1mp8A 281 4.84e+01 d.144.1.7 91384 1tph1 247 4.84e+01 1amk 1b8oA 284 4.85e+01 1b8oA c.56.2.1 33762 1wbeA 209 5.04e+01 1xg2B 153 5.06e+01 1xkqA 280 5.08e+01 1tfjA 219 5.10e+01 1nlnA 204 5.11e+01 d.3.1.7 91962 1w9yA 319 5.35e+01 1mwwA 128 5.38e+01 d.80.1.4 91483 1o7fA 469 5.46e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1cv8 174 5.46e+01 1cv8 d.3.1.1 37089 1yn9A 169 5.47e+01 1vh4A 435 5.48e+01 b.80.6.1 100640 1ysc 421 5.48e+01 1ivyA c.69.1.5 34652 1hi0P 664 5.53e+01 1hi0P e.8.1.6 61051 1ad6 185 5.55e+01 1guxA a.74.1.3 18390 1wmaA 276 5.56e+01 2bf9A 36 5.56e+01 1jcdA 52 5.60e+01 h.1.16.1 84157 1hhsA 664 5.63e+01 1hi0P e.8.1.6 61045 1jchA 551 5.64e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1jchC 551 5.64e+01 b.101.1.1,b.110.1.1,h.4.9.1 66495,66496,66497 1uvjA 664 5.68e+01 e.8.1.6 100045 1lox 662 5.76e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1ryiA 382 5.98e+01 1wp1A 474 6.03e+01 1ydyA 356 6.06e+01 1sfjA 238 6.12e+01 1gw5S 142 6.18e+01 d.110.4.2 70633 1tzvA 142 6.26e+01 a.79.1.1 107526 1zmtA 254 6.27e+01 1t0qA 498 6.30e+01 a.25.1.2 106220 1aj5A 173 6.40e+01 1alvA a.39.1.8 17367 1zrzA 364 6.46e+01 6pfkA 319 6.48e+01 3pfk c.89.1.1 35583 1b8aA 438 6.51e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1wt4A 73 6.55e+01 1uwkA 557 6.58e+01 e.51.1.1 108065 1ppt 36 6.59e+01 1ppt j.6.1.1 46089 1o5hA 214 6.59e+01 a.191.1.1 92497 1i5pA 633 6.61e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1uuqA 440 6.67e+01 c.1.8.3 100015 1pwxA 254 6.68e+01 c.2.1.2 95262 1dd5A 185 6.68e+01 1dd5A d.67.3.1 39564 2ucz 165 6.71e+01 1u9aA d.20.1.1 38330 1mho 88 6.71e+01 1b4cA a.39.1.2 17171 1sjiA 350 6.73e+01 1m12A 84 6.77e+01 a.64.1.1 84745 1cpcA 162 6.79e+01 1cpcA a.1.1.3 15643 1vlgA 176 6.85e+01 a.25.1.1 108816 1gs5A 258 6.90e+01 c.73.1.2 70395 1eq0A 158 6.96e+01 d.58.30.1 64909 1mldA 314 6.99e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1wcrA 103 7.04e+01 1tsm 316 7.08e+01 1bkpA d.117.1.1 41024 1dj8A 89 7.11e+01 1bg8A a.57.1.1 17919 1o6lA 337 7.11e+01 d.144.1.7 81092 1k7jA 206 7.13e+01 d.115.1.1 72103 1kk9A 221 7.14e+01 d.115.1.1 77432 1irl 133 7.17e+01 3inkC a.26.1.2 16883 1mek 120 7.21e+01 1erv c.47.1.2 32775 1x92A 199 7.23e+01 1on0A 158 7.24e+01 d.108.1.1 87095 1vpqA 273 7.25e+01 1cpy 421 7.35e+01 1ivyA c.69.1.5 34651 2gwxA 267 7.40e+01 2prgA a.123.1.1 19323 1ugpB 226 7.42e+01 b.34.4.4 107832 1ireB 228 7.43e+01 b.34.4.4 76770 1jboA 162 7.45e+01 a.1.1.3 84150 1ufhA 180 7.46e+01 d.108.1.1 88485 2b4vA 468 7.58e+01 1yyqA 374 7.69e+01 1x9zA 188 7.84e+01 1cwwA 102 7.85e+01 1cy5A a.77.1.3 18434 1xq8A 140 7.94e+01 2thiA 379 8.05e+01 2thiA c.94.1.1 35794 1om2A 95 8.06e+01 1om2A a.23.4.1 16520 1kfnA 56 8.18e+01 h.1.16.1 72422 1avpA 204 8.39e+01 1avpA d.3.1.7 37132 1jgcA 161 8.40e+01 a.25.1.1 66673 3pfk 319 8.55e+01 3pfk c.89.1.1 35581 163l 164 8.55e+01 1l92 d.2.1.3 36658 1pmzA 86 8.64e+01 a.39.1.10 104195 1kiyA 374 8.74e+01 a.128.1.5 72555 1rrmA 386 8.77e+01 e.22.1.2 105081 1x6vA 630 8.81e+01 1rxwA 336 8.84e+01 a.60.7.1,c.120.1.2 98059,98060 1p5zB 263 8.84e+01 c.37.1.1 87815 1fsfA 266 8.89e+01 c.124.1.1 65047 1fjgB 256 8.92e+01 1fjfB c.23.15.1 31400 1deaA 266 9.00e+01 1deaA c.124.1.1 31760