# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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 1qgtA 149 3.61e-01 1qgtA a.62.1.1 18135 1z1bA 356 6.52e-01 d.10.1.4 124346 d.163.1.1 124347 1uby 367 7.13e-01 1uby 2oap1 511 9.62e-01 2ygsA 92 9.85e-01 1cy5A a.77.1.3 18431 1xnfA 275 1.04e+00 a.118.8.1 115580 3dynA 329 1.11e+00 a.211.1.2 157942 1cy5A 97 1.22e+00 1cy5A a.77.1.3 18430 3kkcA 177 1.23e+00 3kxsA 143 1.26e+00 2v6qA 173 1.47e+00 1iapA 211 1.49e+00 a.91.1.1 62119 2ovyA 362 1.56e+00 1qkrA 188 1.62e+00 1qkrA a.24.9.1 16628 2oxoA 103 1.77e+00 1xkpA 246 1.79e+00 a.243.1.3 122086 1rxqA 178 1.87e+00 a.213.1.1 105118 1tkkA 366 2.31e+00 c.1.11.2 107089 d.54.1.1 107090 2rdpA 150 2.53e+00 2q2rA 373 2.60e+00 1wu7A 434 2.62e+00 c.51.1.1 121275 d.104.1.1 121276 2hd1A 326 2.67e+00 a.211.1.2 136338 2j07A 420 2.76e+00 a.99.1.1 137891 c.28.1.1 137892 2v6kA 214 2.94e+00 3i3nA 279 3.13e+00 1w2yA 229 3.20e+00 a.204.1.1 109140 1cwwA 102 3.22e+00 1cy5A a.77.1.3 18434 3cecA 104 3.29e+00 1pu6A 218 3.33e+00 a.96.1.5 95123 2azqA 311 3.43e+00 1cll 148 3.55e+00 1cll 2h5nA 133 3.66e+00 a.287.1.2 147227 1yfsA 465 3.76e+00 a.203.1.1 123088 d.104.1.1 123089 2h7bA 105 3.77e+00 a.277.1.1 147237 1ppjB 439 3.87e+00 d.185.1.1 104254 d.185.1.1 104255 1yv5A 374 3.99e+00 2vdeA 460 4.00e+00 3lynA 136 4.02e+00 1lis a.19.1.1 16413 3bct 457 4.07e+00 3bct 3ctvA 110 4.22e+00 2ousA 331 4.37e+00 3edtB 283 4.40e+00 1lhpA 312 4.42e+00 c.72.1.5 77960 2iqcA 210 4.55e+00 3a1sA 258 4.72e+00 1xo5A 183 4.82e+00 a.39.1.5 115680 1dw0A 112 4.83e+00 1dw0A a.3.1.1 15911 1tzvA 142 5.02e+00 a.79.1.1 107526 2qeuA 141 5.11e+00 3bu8A 235 5.21e+00 a.146.1.1 155595 1jlvA 209 5.32e+00 a.45.1.1 71729 c.47.1.5 71730 1vrkA 148 5.36e+00 1cll k.21.1.1 46451 1t5oA 351 5.47e+00 c.124.1.5 106459 3htzA 464 5.62e+00 2weyA 343 5.65e+00 1idrA 136 5.70e+00 1dlyA a.1.1.1 62301 1f4tA 368 5.83e+00 1f4tA a.104.1.1 18973 3gp2A 147 5.92e+00 1r1tA 122 6.26e+00 a.4.5.5 104769 1y7qA 98 6.40e+00 a.28.3.2 122714 1ggzA 148 6.46e+00 a.39.1.5 70176 1q59A 172 6.77e+00 f.1.4.1 95881 1ng1 294 6.92e+00 1ng1 1np3A 338 6.99e+00 a.100.1.2 85946 c.2.1.6 85947 1sfxA 109 7.03e+00 a.4.5.50 105505 1ux8A 132 7.12e+00 a.1.1.1 113449 1jpnA 296 7.15e+00 a.24.13.1 67039 c.37.1.10 67040 2p0lA 288 7.15e+00 d.104.1.3 149135 1smtA 122 7.26e+00 1smtA a.4.5.5 16109 1xm5A 155 7.33e+00 d.92.1.15 115467 2o7tA 199 7.37e+00 a.4.1.9 148670 a.121.1.1 148671 3b7nA 320 7.48e+00 1ub0A 258 7.57e+00 c.72.1.2 88394 2od5A 116 7.79e+00 a.4.5.70 148736 1qs7A 145 7.82e+00 k.21.1.1 88373 3d3bA 141 7.85e+00 2e87A 357 8.02e+00 1qmqA 414 8.16e+00 1phd a.104.1.1 18907 3gp4A 142 8.26e+00 2ag6A 314 8.53e+00 3ejbB 404 8.55e+00 2tpt 440 8.66e+00 1brwA 2zopA 114 8.66e+00 2r40D 266 8.69e+00 a.123.1.1 151572 1mla 309 8.75e+00 1mla 1mlaA 309 8.75e+00 c.19.1.1 31031 d.58.23.1 39383 2anxA 146 8.75e+00 1jlwA 219 8.81e+00 a.45.1.1 71741 c.47.1.5 71742 1allA 160 8.92e+00 1qgwC a.1.1.3 15647 2qisA 374 9.07e+00 3edvA 323 9.09e+00 1ewqA 765 9.11e+00 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1ls1A 295 9.20e+00 a.24.13.1 78170 c.37.1.10 78171 1omrA 201 9.29e+00 a.39.1.5 93349 2aqlA 173 9.40e+00 1w53A 84 9.46e+00 a.186.1.2 109175 1xviA 275 9.51e+00 c.108.1.10 116088 1oz9A 150 9.65e+00 d.92.1.15 93808 2yxtA 312 9.93e+00 2fkiA 126 9.97e+00 d.198.3.1 133657 2z73A 448 9.98e+00 2b1wA 127 1.02e+01 1fioA 196 1.03e+01 1fioA a.47.2.1 17773 2f94F 350 1.04e+01 1exrA 148 1.04e+01 1cll a.39.1.5 17299 3d8lA 91 1.05e+01 1h6pA 203 1.06e+01 a.146.1.1 60690 3ddeA 239 1.06e+01 3f08A 146 1.08e+01 1w36B 1180 1.08e+01 c.37.1.19 114122 c.37.1.19 114123 c.52.1.24 114124 1h2sA 225 1.09e+01 f.13.1.1 76578 3fhyA 312 1.10e+01 3gpgA 168 1.11e+01 3hazA 1001 1.12e+01 1xw5A 217 1.12e+01 a.45.1.1 116099 c.47.1.5 116100 1qgwC 177 1.13e+01 1qgwC a.1.1.3 15673 1xg0C 177 1.13e+01 a.1.1.3 115275 1jk3A 158 1.14e+01 d.92.1.11 66790 1w9aA 147 1.15e+01 b.45.1.1 114408 2ppwA 216 1.18e+01 2x6hA 696 1.19e+01 2vebA 195 1.21e+01 1vkeA 133 1.23e+01 a.152.1.2 108650 2aq6A 147 1.24e+01 b.45.1.1 127156 3isaA 254 1.24e+01 2h7cA 542 1.25e+01 c.69.1.1 136207 1jgjA 217 1.25e+01 1c3wA f.13.1.1 62952 3dmaA 343 1.28e+01 1y93A 159 1.28e+01 d.92.1.11 122772 3f17A 158 1.30e+01 2g7gA 213 1.30e+01 a.4.1.9 134732 a.121.1.1 134733 1dqsA 393 1.31e+01 1dqsA e.22.1.1 43347 2vsfA 602 1.32e+01 1w2wA 211 1.35e+01 c.124.1.5 109130 2f7kA 327 1.36e+01 1ezvA 430 1.36e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1v66A 65 1.36e+01 a.140.2.1 113543 2c4jA 218 1.37e+01 a.45.1.1 129816 c.47.1.5 129817 2va8A 715 1.38e+01 2r7dA 469 1.40e+01 b.40.4.5 151629 b.40.4.16 151630 1bf5A 545 1.41e+01 1bg1A a.47.1.1 17766 b.2.5.5 22460 d.93.1.1 40526 1z7mA 344 1.42e+01 d.104.1.1 124632 2h88C 140 1.42e+01 3guiA 164 1.43e+01 2fbwC 141 1.43e+01 1r5qA 102 1.47e+01 a.186.1.1 97103 1a6sA 87 1.47e+01 a.61.1.4 18134 1phd 414 1.50e+01 1phd 2wqhA 125 1.50e+01 1z7lA 276 1.51e+01 1gwiA 411 1.51e+01 a.104.1.1 76364 1klxA 138 1.54e+01 a.118.18.1 77440 1a87 321 1.57e+01 1a87 3a2qA 493 1.57e+01 1kn1A 160 1.57e+01 a.1.1.3 77455 1abvA 134 1.57e+01 a.70.1.1 18317 3kuqA 228 1.58e+01 1g3jA 532 1.58e+01 3bct a.118.1.1 19114 2gkmA 136 1.62e+01 1ireA 204 1.63e+01 d.149.1.1 76769 2iagA 482 1.64e+01 2np5A 203 1.64e+01 a.4.1.9 138424 a.121.1.1 138425 1mmoB 384 1.65e+01 1mtyB a.25.1.2 16768 2whfA 413 1.65e+01 2h61A 92 1.67e+01 a.39.1.2 136169 2qv2A 342 1.69e+01 1xk4C 113 1.70e+01 a.39.1.2 122057 3cztX 92 1.75e+01 1kb9A 431 1.75e+01 d.185.1.1 77311 d.185.1.1 77312 1p8cA 145 1.76e+01 a.152.1.2 94354 1ugpA 203 1.76e+01 d.149.1.1 107831 2r2iA 198 1.76e+01 2qg8A 163 1.77e+01 2a6cA 83 1.77e+01 a.35.1.13 126236 2o5gA 148 1.78e+01 a.39.1.5 148598 3b6hA 498 1.78e+01 3g7jA 219 1.79e+01 3f6dA 219 1.83e+01 2ccjA 205 1.84e+01 1floA 422 1.84e+01 1floA a.60.9.1 18106 d.163.1.1 42166 3f6wA 83 1.85e+01 3ihyA 600 1.86e+01 2ictA 94 1.87e+01 a.35.1.3 147605 2qcxA 263 1.87e+01 2uuqA 414 1.87e+01 3ei4B 436 1.89e+01 3k7mX 431 1.91e+01 2f3yA 148 1.92e+01 a.39.1.5 146994 3a8pA 263 1.93e+01 1a3aA 148 1.93e+01 1a3aA d.112.1.1 40917 2gs4A 166 1.93e+01 a.25.1.4 135575 2f5jA 181 1.94e+01 1ls9A 91 1.94e+01 a.3.1.1 78177 3cx5A 431 1.95e+01 d.185.1.1 157076 d.185.1.1 157077 1ic8A 194 1.97e+01 a.4.1.1 76740 a.35.1.1 76741 1ykhB 132 1.97e+01 a.252.1.1 123519 2nz7A 98 2.01e+01 1lw9A 164 2.06e+01 d.2.1.3 84727 3gwzA 369 2.08e+01 1g7oA 215 2.09e+01 1g7oA a.45.1.1 60332 c.47.1.5 60333 2wk6A 482 2.12e+01 2zs0D 145 2.13e+01 1uouA 474 2.15e+01 a.46.2.1 99706 c.27.1.1 99707 d.41.3.1 99708 1i7wA 538 2.15e+01 3bct a.118.1.1 61909 2oi8A 216 2.15e+01 a.4.1.9 148778 a.121.1.1 148779 1ef8A 261 2.17e+01 1ef8A c.14.1.3 30921 2j0fA 482 2.22e+01 1sq5A 308 2.24e+01 c.37.1.6 105882 1m4yA 171 2.24e+01 d.153.1.4 84802 2gz4A 207 2.25e+01 a.211.1.1 147196 1hr6A 475 2.25e+01 1hr6A d.185.1.1 61164 d.185.1.1 61165 2oo6A 409 2.26e+01 3go2A 409 2.26e+01 1p36A 164 2.29e+01 d.2.1.3 93978 167lA 164 2.32e+01 1l92 d.2.1.3 36937 3b98A 475 2.33e+01 1ax8 146 2.38e+01 1ax8 1ax8A 146 2.38e+01 a.26.1.1 16844 2czvC 120 2.38e+01 d.58.59.1 145059 2o70A 174 2.39e+01 a.288.1.1 148645 1ek9A 428 2.39e+01 1ek9A f.5.1.1 43809 3i3kA 461 2.41e+01 1nsgB 94 2.43e+01 1nsgB a.24.7.1 16613 3fapB 94 2.43e+01 1nsgB a.24.7.1 16612 2kptA 148 2.46e+01 1dekA 241 2.47e+01 1dekA c.37.1.1 31842 2rdxA 379 2.50e+01 1g73A 162 2.53e+01 1fewA a.7.4.1 16332 3h2zA 382 2.53e+01 3ledA 392 2.55e+01 1r0dA 206 2.56e+01 a.216.1.1 104715 3ge3B 327 2.56e+01 2aamA 309 2.58e+01 c.1.8.15 126489 2jg6A 186 2.61e+01 2fkzA 155 2.64e+01 a.25.1.1 133688 2ao9A 155 2.64e+01 a.4.1.17 127069 3lxjA 136 2.64e+01 1ni3A 392 2.64e+01 c.37.1.8 80531 d.15.10.2 80532 2zwuA 415 2.65e+01 1yrcA 414 2.65e+01 a.104.1.1 123917 1jmsA 381 2.65e+01 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 1dz4A 414 2.66e+01 1phd a.104.1.1 18903 2okjA 504 2.66e+01 2r8qA 359 2.68e+01 1f44A 324 2.68e+01 a.60.9.1 64982 d.163.1.1 64983 1k3pA 426 2.75e+01 a.103.1.1 77237 1wzdA 215 2.76e+01 a.132.1.1 121493 2qgyA 391 2.76e+01 3lx5A 272 2.77e+01 2bkmA 128 2.77e+01 2imfA 203 2.79e+01 1r71A 178 2.79e+01 a.4.14.1 104823 1vp7A 100 2.83e+01 a.7.13.1 113941 2dxcC 243 2.85e+01 1jbaA 204 2.85e+01 1rec a.39.1.5 17330 1sg6A 393 2.85e+01 e.22.1.1 105522 2zzdC 243 2.85e+01 3cr5X 92 2.87e+01 a.39.1.2 156942 1v2zA 111 2.88e+01 a.186.1.1 108300 1ugpB 226 2.89e+01 b.34.4.4 107832 1ireB 228 2.89e+01 b.34.4.4 76770 3kikA 96 2.90e+01 2v1fA 153 2.90e+01 a.1.1.2 140055 2nsaA 170 2.90e+01 137lA 164 2.91e+01 1l92 d.2.1.3 36791 2bidA 197 2.92e+01 2bidA f.1.4.1 43398 2av5A 120 2.93e+01 d.58.59.1 146070 1na3A 91 2.94e+01 k.38.1.1 85481 3h2dA 155 2.96e+01 3hbcA 320 2.99e+01 3bq3A 270 3.01e+01 1tl9A 339 3.02e+01 d.3.1.3 112505 1jr3D 343 3.03e+01 a.80.1.1 63251 c.37.1.20 63252 1dpsA 167 3.04e+01 1dpsA a.25.1.1 16716 2p1jA 186 3.05e+01 3fvvA 232 3.07e+01 1ngkA 128 3.09e+01 a.1.1.1 85673 1h97A 147 3.14e+01 1h97A a.1.1.2 60812 1e5uI 187 3.14e+01 1f00I b.1.14.1 22372 d.169.1.3 42441 2hkuA 215 3.23e+01 a.4.1.9 147302 a.121.1.1 147303 1qsaA 618 3.23e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 2jdiA 510 3.26e+01 a.69.1.1 145683 b.49.1.1 145684 c.37.1.11 145685 1xo0A 324 3.26e+01 a.60.9.1 115674 d.163.1.1 115675 1ir3A 306 3.27e+01 1fmk d.144.1.7 41702 3dhiB 327 3.29e+01 1m98A 317 3.31e+01 a.175.1.1 78866 d.17.4.6 78867 1qtxA 148 3.31e+01 k.21.1.1 88375 3crxA 343 3.31e+01 4crxA a.60.9.1 18101 d.163.1.1 42161 2br9A 234 3.32e+01 119l 164 3.33e+01 1l92 3jthA 98 3.34e+01 2bi0A 337 3.34e+01 d.38.1.4 128565 d.38.1.4 128566 2f76X 100 3.41e+01 a.61.1.3 133085 3hdiA 421 3.42e+01 1okcA 297 3.44e+01 f.42.1.1 93248 4crxA 322 3.44e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1gk9A 260 3.45e+01 d.153.1.2 65246 2bgxA 261 3.46e+01 a.20.1.1 128504 d.118.1.1 128505 1crxA 322 3.49e+01 4crxA a.60.9.1 18097 d.163.1.1 42157 2pth 193 3.50e+01 2pth 2pthA 193 3.50e+01 c.56.3.1 33793 2oucA 142 3.50e+01 3bxjA 507 3.51e+01 3a7kA 291 3.52e+01 3hc5A 232 3.53e+01 1aueA 100 3.53e+01 1nsgB a.24.7.1 16615 1v4pA 157 3.60e+01 d.67.1.2 113533 3c2bA 221 3.61e+01 2rkhA 180 3.61e+01 2avpA 70 3.62e+01 k.38.1.1 127382 2eh3A 179 3.62e+01 2jgpA 520 3.63e+01 1t01B 24 3.66e+01 2kjfA 60 3.67e+01 2kuaA 170 3.68e+01 2qe0A 475 3.69e+01 1sqgA 429 3.71e+01 a.79.1.3 105912 c.66.1.38 105913 3c1vA 113 3.72e+01 a.39.1.2 155867 3bu3A 306 3.74e+01 d.144.1.7 155590 1itkA 731 3.75e+01 a.93.1.3 71417 a.93.1.3 71418 2jgyA 279 3.75e+01 1kbuA 349 3.75e+01 a.60.9.1 72284 d.163.1.1 72285 1a4pA 96 3.76e+01 1b4cA a.39.1.2 17176 2i7aA 174 3.78e+01 1wxiA 275 3.80e+01 c.26.2.1 121400 2is9A 204 3.81e+01 1knwA 425 3.83e+01 b.49.2.3 90969 c.1.6.1 90970 3fkmX 166 3.85e+01 1sxjE 354 3.85e+01 a.80.1.1 106089 c.37.1.20 106090 3cnwA 148 3.86e+01 d.129.3.8 156848 3jyvD 158 3.86e+01 3ekgA 404 3.90e+01 1gm7A 209 3.90e+01 d.153.1.2 65302 1zklA 353 3.90e+01 1x42A 232 3.95e+01 c.108.1.1 121677 1aw9A 216 3.96e+01 a.45.1.1 17736 c.47.1.5 33030 1fkmA 396 3.96e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 2i0mA 216 3.97e+01 1v33A 366 3.98e+01 d.264.1.1 100278 2d7lA 81 3.98e+01 2optA 234 3.98e+01 1zbtA 371 3.99e+01