# 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.soe.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 1l0qA 391 1.17e-09 b.1.3.1,b.69.2.3 77644,77645 2c4xA 260 1.93e-07 1b4rA 80 1.26e-03 1b4rA b.1.3.1 22072 1wgoA 123 2.03e-03 b.1.3.1 114618 2iouG 535 9.82e-02 1fsoA 139 3.79e-01 1rhoA b.1.18.8 60007 1rhoA 145 9.33e-01 1rhoA b.1.18.8 21899 3c12A 138 1.05e+00 2kpnA 103 1.23e+00 3cjjA 219 2.22e+00 2yrlA 102 2.34e+00 3ejjX 289 3.13e+00 3f7qA 234 3.19e+00 1cvsC 225 3.51e+00 1cvsC b.1.1.4,b.1.1.4 21726,21727 1kmtA 141 3.54e+00 b.1.18.8 77442 3f7rA 249 3.83e+00 3bgaA 1010 3.86e+00 3h6jA 438 4.07e+00 2ghsA 326 4.53e+00 b.68.6.1 135209 3f7pC 248 4.60e+00 2jllA 389 4.61e+00 2wjyA 800 4.84e+00 2w38A 438 5.37e+00 1hnf 182 5.52e+00 1qa9A 1hnfA 182 5.52e+00 b.1.1.1,b.1.1.3 19741,21680 1ev2E 220 5.83e+00 1cvsC b.1.1.4,b.1.1.4 21738,21739 1zq1A 438 6.50e+00 b.38.3.1,c.88.1.1 125489,125490 1d2pA 373 6.70e+00 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 2gm6A 208 6.81e+00 b.82.1.19 147130 3d48R 211 7.06e+00 b.1.2.1,b.1.2.1 157289,157290 3duiA 135 7.17e+00 1yrzA 528 7.18e+00 b.29.1.23,b.67.2.1 123948,123949 3ecrA 364 7.26e+00 1wit 93 7.60e+00 1wit 2huhA 147 7.98e+00 b.7.5.1 147405 1qg3A 195 8.53e+00 1qg3A b.1.2.1,b.1.2.1 21993,21994 1d2oA 187 9.55e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 2w18A 356 9.81e+00 1ctn 540 1.10e+01 1ctn 1io1A 398 1.12e+01 1io1A e.32.1.1 62611 1v8hA 107 1.13e+01 b.1.18.19 119870 1fnhA 271 1.13e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 1ds6B 180 1.15e+01 1rhoA b.1.18.8 21898 1dabA 539 1.15e+01 1dabA b.80.1.7 28049 1q55A 880 1.30e+01 i.20.1.1 95862 3mmyA 368 1.31e+01 1vjuA 309 1.34e+01 d.248.1.1 100835 1ofzA 312 1.34e+01 b.68.8.1 86978 1pguA 615 1.39e+01 b.69.4.1,b.69.4.1 88069,88070 1vqoB 338 1.41e+01 b.43.3.2 120363 2h1tA 188 1.42e+01 b.178.1.1 147215 3bp6B 202 1.45e+01 1zupA 315 1.49e+01 c.55.3.11 125681 1pmyA 123 1.50e+01 b.6.1.1 22888 3kstA 306 1.56e+01 3besR 250 1.60e+01 2x10A 545 1.61e+01 2ux7A 122 1.62e+01 3ii1A 535 1.66e+01 2gk6A 624 1.67e+01 2x41A 721 1.69e+01 2x42A 721 1.69e+01 1fjgK 129 1.69e+01 1fjfK c.55.4.1 33733 3hi7A 731 1.71e+01 1n6eA 1071 1.76e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 80149,80150,80151,80152 3l5iA 290 1.81e+01 3g12A 128 1.82e+01 1np1A 184 1.84e+01 1np1A b.60.1.1 27155 1k9tA 540 1.89e+01 b.1.18.2,c.1.8.5,d.26.3.1 77298,77299,77300 2hz7A 851 1.91e+01 2rghA 571 1.97e+01 1f00I 282 2.03e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 3bp5B 202 2.06e+01 3l5jA 288 2.08e+01 1itbB 315 2.10e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 3eifA 936 2.21e+01 2j43A 219 2.22e+01 b.3.1.3,b.3.1.3 147864,147865 1bqk 124 2.22e+01 1bqk 1bqkA 124 2.22e+01 b.6.1.1 22889 2bvyA 475 2.23e+01 b.1.18.2,c.1.8.3 129301,129302 3a5xA 494 2.26e+01 2va4A 192 2.31e+01 1f6fB 210 2.35e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1gt7A 274 2.39e+01 c.74.1.1 70398 2uxtA 451 2.44e+01 2uvfA 608 2.45e+01 3c75H 426 2.49e+01 1xf1A 926 2.50e+01 1edqA 540 2.51e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 2z5wA 136 2.52e+01 1wckA 220 2.62e+01 1td4A 115 2.65e+01 b.85.2.1 112389 2wk2A 540 2.71e+01 1w6nA 134 2.73e+01 b.29.1.3 114275 1dceA 567 2.75e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 2et1A 201 2.77e+01 b.82.1.2 132351 2bwrA 401 2.78e+01 1yifA 533 2.80e+01 b.29.1.23,b.67.2.1 123283,123284 1jj2B 337 2.81e+01 1ffkB b.43.3.2 63086 2wlzA 548 2.84e+01 2v9lA 274 2.91e+01 1ojrA 274 2.94e+01 c.74.1.1 93147 2vqeK 129 2.99e+01 c.55.4.1 153435 1gzwA 134 3.11e+01 b.29.1.3 90535 2uubK 129 3.19e+01 c.55.4.1 139942 1ymiA 334 3.19e+01 2wn6A 463 3.23e+01 1fi2A 201 3.25e+01 1fi2A b.82.1.2 59845 1jwhA 337 3.28e+01 d.144.1.7 71913 2dd7A 216 3.28e+01 3hhrB 203 3.31e+01 1axiB b.1.2.1,b.1.2.1 22005,22006 2v5mA 388 3.33e+01 2bk8A 97 3.35e+01 3gqsA 106 3.35e+01 1sqsA 242 3.38e+01 c.23.5.5 98968 3greA 437 3.40e+01 3hxjA 330 3.41e+01 1ejeA 192 3.45e+01 1ejeA b.45.1.2 25757 1loxA 662 3.49e+01 a.119.1.2,b.12.1.1 19238,23638 1lox 662 3.49e+01 1lox 2a6zA 222 3.56e+01 b.29.1.13 126319 1zvfA 176 3.65e+01 b.82.1.20 146029 3hr5B 226 3.69e+01 1ecsA 126 3.73e+01 1ecsA d.32.1.2 59407 3m4wA 295 3.78e+01 2v5sA 394 3.82e+01 3f04A 143 3.84e+01 2iepA 192 3.84e+01 1v04A 355 3.89e+01 b.68.6.2 100240 3fw6A 534 3.90e+01 1n9pA 207 3.93e+01 b.1.18.16 80343 2q9oA 559 4.00e+01 b.6.1.3,b.6.1.3,b.6.1.3 150149,150150,150151 3ejvA 179 4.01e+01 d.17.4.28 158181 2qwc 388 4.01e+01 2qwc 1arb 268 4.07e+01 1arb 1arbA 268 4.07e+01 b.47.1.1 25766 2jixB 225 4.11e+01 b.1.2.1,b.1.2.1 148107,148108 1h6lA 353 4.14e+01 b.68.3.1 60687 3grwA 241 4.26e+01 2vxsH 225 4.30e+01 2zr1B 267 4.31e+01 1rovA 857 4.33e+01 a.119.1.1,b.12.1.1 97674,97675 1kdj 102 4.33e+01 1plc 1kdjA 102 4.33e+01 b.6.1.1 22864 1bev1 281 4.34e+01 1aym1 1ospO 257 4.34e+01 1ospO b.76.1.1 27971 2qvkA 192 4.38e+01 3l5hA 589 4.39e+01 2pooA 355 4.50e+01 1qlgA b.68.3.1 27626 3f2zA 159 4.50e+01 3khfA 99 4.54e+01 1qlgA 355 4.55e+01 1qlgA b.68.3.1 27627 2d1eA 248 4.55e+01 3i94A 248 4.55e+01 1ej6A 1289 4.55e+01 i.7.1.1 45967 1bp3B 211 4.59e+01 1axiB b.1.2.1,b.1.2.1 22031,22032 1qqhA 144 4.63e+01 1dtoA b.91.1.1 28404 3gb3A 235 4.69e+01 2v8qA 157 4.78e+01 d.129.6.2 152781 1cs6A 382 4.87e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1sq9A 397 4.98e+01 b.69.4.1 105889 2wj5A 101 4.99e+01 2bcmA 165 5.04e+01 2vc8A 84 5.06e+01 3b9eA 584 5.09e+01 1rwiA 270 5.11e+01 b.68.9.1 97987 2k7qA 191 5.13e+01 1u58A 253 5.18e+01 b.1.1.2,d.19.1.1 144387,144388 3holA 509 5.20e+01 1jaeA 471 5.24e+01 b.71.1.1,c.1.8.1 27773,28760 1wwcA 118 5.24e+01 1wwcA b.1.1.4 21778 1pz5B 220 5.25e+01 b.1.1.1,b.1.1.2 95403,95404 1guiA 155 5.27e+01 b.18.1.14 76351 2v90A 96 5.28e+01 3k94A 223 5.28e+01 3hx6A 570 5.29e+01 2p0mA 662 5.33e+01 a.119.1.2,b.12.1.1 149136,149137 2egeA 75 5.34e+01 2bz6H 254 5.39e+01 b.47.1.2 129552 1s4uX 407 5.48e+01 b.69.4.1 112027 3fppA 341 5.48e+01 1eut 605 5.52e+01 1eut 1f8eA 388 5.53e+01 2qwc b.68.1.1 59694 1zgsA 447 5.65e+01 1ffkB 338 5.70e+01 1ffkB b.43.3.2 25719 1r0uA 148 5.71e+01 b.60.1.5 96741 1cfb 205 5.71e+01 1cfb 1cfbA 205 5.71e+01 b.1.2.1,b.1.2.1 21991,21992 2qggA 182 5.74e+01 3h51A 156 5.81e+01 1iznB 277 5.84e+01 e.43.1.2 83848 1wxxA 382 5.85e+01 b.122.1.9,c.66.1.51 121418,121419 2dbjA 124 5.92e+01 2hxsA 178 5.94e+01 3e0gA 483 5.95e+01 3prn 289 5.98e+01 3prn 3prnA 289 5.98e+01 f.4.3.1 43761 3d9aH 210 5.98e+01 1yfuA 174 5.99e+01 b.82.1.20 123094 3ef4A 124 6.00e+01 3lk2B 243 6.00e+01 3lk42 277 6.02e+01 2aq5A 402 6.02e+01 1ot1A 686 6.04e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87392,87393,87394,87395 1k5jA 124 6.07e+01 b.121.3.1 68201 2bgzA 299 6.15e+01 1tfpA 130 6.18e+01 1etb1 b.3.4.1 22623 2cayA 145 6.25e+01 b.55.1.12 130167 3ednA 299 6.27e+01 1a22B 238 6.30e+01 1axiB b.1.2.1,b.1.2.1 22003,22004 3ci0J 163 6.45e+01 d.24.1.5 156658 3fdrA 94 6.46e+01 1po0A 751 6.50e+01 f.4.3.3 94960 3bjqA 316 6.52e+01 2dwcA 433 6.61e+01 3mb7A 331 6.63e+01 1cxlA 686 6.69e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21829,22498,27736,28723 1sh8A 154 6.72e+01 d.38.1.5 105549 1cf1A 404 6.73e+01 1cf1A b.1.18.11,b.1.18.11 21907,21908 1bpoA 494 6.75e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 2volA 207 6.76e+01 1axiB 236 6.83e+01 1axiB b.1.2.1,b.1.2.1 21997,21998 2zuyA 620 6.84e+01 1mr3F 181 6.85e+01 c.37.1.8 79422 1evuA 731 6.95e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 3bqcA 335 7.02e+01 d.144.1.7 155497 1lqtA 456 7.02e+01 c.3.1.1,c.4.1.1 74198,74199 2ih8A 559 7.07e+01 b.6.1.3,b.6.1.3,b.6.1.3 137407,137408,137409 1wcuA 153 7.08e+01 2ns9A 157 7.08e+01 d.129.3.10 148382 2wabA 341 7.08e+01 2retB 175 7.08e+01 d.24.1.5 151984 2pvrA 334 7.11e+01 d.144.1.7 149893 3dkhA 559 7.15e+01 3c2uA 538 7.17e+01 3eqnA 758 7.18e+01 3es6B 118 7.19e+01 b.1.18.23 158195 3fv3A 339 7.19e+01 1d3cA 686 7.26e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 2h4vA 320 7.31e+01 1qhuA 460 7.33e+01 1qhuA b.66.1.1,b.66.1.1 27530,27531 3k2mC 101 7.34e+01 1eerB 227 7.46e+01 1eerB b.1.2.1,b.1.2.1 22011,22012 3iytA 1263 7.46e+01 1tueB 218 7.51e+01 b.91.1.1 107324 1c76A 136 7.53e+01 2sak d.15.5.1 37718 3kldA 384 7.56e+01 1am2 199 7.65e+01 1am2 1am2A 199 7.65e+01 b.86.1.2 28381 1x99A 145 7.69e+01 b.97.1.2 114978 2q2iA 116 7.70e+01 1cjcA 460 7.73e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1sfdA 105 7.77e+01 b.6.1.1 105480 2hu5A 582 7.84e+01 b.69.7.2,c.69.1.33 136763,136764 1pamA 686 7.85e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 2vqaA 361 7.88e+01 3bmzA 199 7.95e+01 2qr5A 582 8.00e+01 b.69.7.2,c.69.1.33 151278,151279