# List of top-scoring protein chains for t2k-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 1pw4A 451 1.33e-37 f.38.1.1 95198 2gfpA 375 1.82e-36 1pv6A 417 1.47e-26 f.38.1.2 95151 2cfqA 417 3.32e-24 1otsA 465 8.07e-04 f.20.1.1 87415 1kplA 473 8.48e-04 f.20.1.1 68782 2a65A 519 3.87e-02 1kpkA 473 5.09e-02 f.20.1.1 68776 1mznA 240 2.18e-01 a.123.1.1 79704 2fm9A 215 2.21e-01 1aijS 301 2.31e-01 6prcM f.26.1.1 43465 1aijM 307 2.33e-01 6prcM f.26.1.1 43462 1rzhM 307 2.34e-01 f.26.1.1 98165 1o7xB 377 4.27e-01 a.103.1.1 81172 2bs3C 256 4.60e-01 1u7gA 385 4.84e-01 f.44.1.1 107723 1qlaC 256 5.14e-01 1qlaC f.21.2.1 43722 1o0wA 252 5.21e-01 a.149.1.1 80751 d.50.1.1 80752 1o7xC 377 5.53e-01 a.103.1.1 81173 169lA 164 7.01e-01 1l92 d.2.1.3 36963 1o7xD 377 7.09e-01 a.103.1.1 81174 1jb0A 755 7.84e-01 1jb0A f.29.1.1 62820 1i3dA 146 9.22e-01 a.1.1.2 61587 1c3wA 222 9.29e-01 1c3wA f.13.1.1 43405 1u19A 349 9.60e-01 1ls1A 295 1.04e+00 a.24.13.1 78170 c.37.1.10 78171 1m0kA 262 1.05e+00 f.13.1.1 78344 2gifA 1057 1.06e+00 1is2A 661 1.06e+00 a.29.3.2 71382 a.29.3.2 71383 e.6.1.2 71384 1i4dA 224 1.15e+00 h.4.7.1 61682 1jpnA 296 1.17e+00 a.24.13.1 67039 c.37.1.10 67040 2ng1 293 1.19e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1rxqA 178 1.20e+00 a.213.1.1 105118 168lA 164 1.25e+00 1l92 d.2.1.3 36975 2h79A 269 1.25e+00 1t9xA 1049 1.30e+00 1ng1 294 1.30e+00 1ng1 a.24.13.1 16961 c.37.1.10 32272 1ffh 294 1.43e+00 1ng1 a.24.13.1 16960 c.37.1.10 32271 2at9 247 1.48e+00 1c3wA f.13.1.1 43427 1v96A 149 1.50e+00 1i4tB 224 1.50e+00 h.4.7.1 61730 1mvcA 240 1.61e+00 a.123.1.1 79499 1iwgA 1053 1.63e+00 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1pf4A 582 1.63e+00 c.37.1.12 88052 f.37.1.1 88053 1rfzA 168 1.76e+00 a.195.1.1 97411 1qkrA 188 1.83e+00 1qkrA a.24.9.1 16628 1wa5B 530 1.91e+00 1kgnA 329 1.94e+00 a.25.1.2 68584 1wpgA 994 2.05e+00 1oglA 283 2.20e+00 a.204.1.1 92922 1i4lA 224 2.21e+00 1i49A h.4.7.1 61718 2j0wA 449 2.59e+00 1g5yA 238 2.64e+00 1lbd a.123.1.1 60294 1hkbA 917 2.74e+00 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1kgbA 231 2.91e+00 f.13.1.1 68581 1w2yA 229 3.19e+00 a.204.1.1 109140 1glm 470 3.45e+00 1ayx a.102.1.1 18821 2azjA 289 3.50e+00 1hx1B 114 3.66e+00 1hx1B a.7.7.1 61350 1gai 472 3.77e+00 1ayx a.102.1.1 18819 2axtB 510 3.79e+00 1t5oA 351 3.80e+00 c.124.1.5 106459 1lbd 282 3.86e+00 1lbd a.123.1.1 19279 2d5xB 146 3.87e+00 1oyeA 1049 3.92e+00 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1hzxA 349 3.94e+00 1f88A f.13.1.2 61466 1l9hA 349 3.99e+00 f.13.1.2 73720 1f88A 348 4.06e+00 1f88A f.13.1.2 43429 2h8fB 146 4.15e+00 1czaN 917 4.18e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1uetA 437 4.20e+00 a.160.1.3 99272 d.218.1.7 99273 d.58.16.2 99274 1hkcA 917 4.36e+00 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1s35A 214 4.39e+00 a.7.1.1 98420 a.7.1.1 98421 1kxpD 458 4.69e+00 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1b33B 161 4.74e+00 1qgwC a.1.1.3 15650 164l 164 4.87e+00 1l92 d.2.1.3 36714 1dgkN 917 4.98e+00 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1xiuA 230 5.00e+00 2gnxA 365 5.00e+00 1nw3A 416 5.06e+00 c.66.1.31 86288 1qhaA 917 5.07e+00 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1unlD 208 5.17e+00 1foeA 377 5.53e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 1jr3D 343 5.64e+00 a.80.1.1 63251 c.37.1.20 63252 156l 164 5.88e+00 1l92 d.2.1.3 36709 1iwhB 146 6.13e+00 a.1.1.2 76883 1ug3A 339 6.23e+00 1eulA 994 6.31e+00 1eulA 1r89A 437 6.36e+00 a.160.1.3 97221 d.218.1.7 97222 d.58.16.2 97223 1vgmA 378 6.47e+00 158l 164 6.88e+00 1l92 d.2.1.3 36747 1spgB 147 7.03e+00 1cg5B a.1.1.2 15588 1g3jA 532 7.04e+00 3bct a.118.1.1 19114 1jdhA 529 7.44e+00 a.118.1.1 66549 2gd5A 179 7.45e+00 1i49A 224 7.65e+00 1i49A h.4.7.1 61679 109l 164 7.73e+00 1l92 d.2.1.3 36781 2iu1A 208 7.76e+00 1dkfA 233 7.86e+00 3erdA a.123.1.1 19280 1z8uA 102 7.93e+00 103l 167 7.98e+00 1l92 d.2.1.3 36870 1a59 378 8.03e+00 1aj8A a.103.1.1 18902 113l 164 8.09e+00 1l92 d.2.1.3 36678 1z2iA 358 8.31e+00 1y82A 157 8.51e+00 191l 164 8.51e+00 1l92 d.2.1.3 36826 1b5sA 242 8.57e+00 1eaf c.43.1.1 32626 1wekA 217 8.60e+00 1y9qA 192 8.99e+00 1v4aA 440 9.00e+00 a.24.16.4 108350 d.218.1.9 108351 1bgc 174 9.03e+00 1bgc a.26.1.1 16822 1s5lB 510 9.09e+00 1h4lD 147 9.23e+00 a.74.1.1 70873 1wkbA 810 9.51e+00 1agrE 205 9.69e+00 1agrE a.91.1.1 18538 159l 164 9.71e+00 1l92 d.2.1.3 36682 1phnA 162 1.01e+01 1cpcA a.1.1.3 15641 1v4xA 144 1.01e+01 a.1.1.2 108363 1yucA 255 1.02e+01 1fftB 315 1.03e+01 1cyx b.6.1.2 23025 f.17.2.1 43628 1iomA 377 1.03e+01 a.103.1.1 83698 2c5kT 95 1.04e+01 2fbwC 141 1.04e+01 2csgA 424 1.10e+01 1l58 164 1.10e+01 1l92 d.2.1.3 36635 114l 164 1.12e+01 1l92 d.2.1.3 36663 1eijA 80 1.12e+01 1eijA a.5.6.1 16298 2cwcA 303 1.13e+01 1r71A 178 1.14e+01 a.4.14.1 104823 1xqrA 296 1.14e+01 1qzzA 374 1.15e+01 a.4.5.29 96719 c.66.1.12 96720 2tct 207 1.16e+01 2tct a.4.1.9 16063 a.121.1.1 19240 1qq8A 214 1.16e+01 1qq8A 1eztA 166 1.18e+01 1agrE a.91.1.1 18541 1v74B 87 1.19e+01 a.24.20.1 100443 2gmyA 153 1.21e+01 126l 164 1.24e+01 1l92 d.2.1.3 36699 1yewB 247 1.25e+01 1b6iA 164 1.26e+01 1l92 d.2.1.3 36945 1k87A 669 1.26e+01 a.176.1.1 77286 c.1.23.2 77287 130l 164 1.26e+01 1l92 d.2.1.3 36638 138l 164 1.28e+01 1l92 d.2.1.3 36679 1vkeA 133 1.29e+01 a.152.1.2 108650 1g2nA 264 1.29e+01 1lbd a.123.1.1 60227 172l 164 1.30e+01 1l92 d.2.1.3 36905 173l 164 1.30e+01 1l92 d.2.1.3 36728 1ktpA 162 1.30e+01 a.1.1.3 72990 177l 164 1.30e+01 1l92 d.2.1.3 36958 1y01A 102 1.30e+01 2dfaA 250 1.34e+01 1gakA 141 1.34e+01 1gakA a.19.1.1 16415 1vqrA 297 1.34e+01 2at2A 300 1.39e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 1xqsA 280 1.45e+01 1ibrB 462 1.47e+01 1qgrA a.118.1.1 19120 1dm5A 315 1.49e+01 1avc a.65.1.1 18186 1yarO 237 1.50e+01 151l 164 1.50e+01 1l92 d.2.1.3 36944 1ew6A 137 1.51e+01 1ewaA a.1.1.2 15637 1ewaA 137 1.51e+01 1ewaA a.1.1.2 15639 122l 164 1.51e+01 1l92 d.2.1.3 36667 1mx4A 168 1.54e+01 d.211.1.1 79640 1i7wA 538 1.56e+01 3bct a.118.1.1 61909 1i5pA 633 1.57e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1a00B 146 1.59e+01 1abwA a.1.1.2 15469 2fd5A 180 1.59e+01 108l 164 1.61e+01 1l92 d.2.1.3 36669 1s5lA 344 1.62e+01 1ihbA 162 1.64e+01 1bd8 d.211.1.1 19161 111l 164 1.67e+01 1l92 d.2.1.3 36661 3bct 457 1.67e+01 3bct a.118.1.1 19112 1bf5A 545 1.68e+01 1bg1A a.47.1.1 17766 b.2.5.5 22460 d.93.1.1 40526 1l7mA 211 1.69e+01 c.108.1.4 73664 129l 164 1.70e+01 1l92 d.2.1.3 36660 171l 164 1.70e+01 1l92 d.2.1.3 36962 1f76A 336 1.71e+01 c.1.4.1 76160 1zs3A 182 1.71e+01 161l 164 1.73e+01 1l92 d.2.1.3 36636 149l 164 1.74e+01 1l92 d.2.1.3 36959 1j97A 211 1.75e+01 1f5sA c.108.1.4 62753 1f5sA 211 1.75e+01 1f5sA c.108.1.4 59656 167lA 164 1.76e+01 1l92 d.2.1.3 36937 1jli 112 1.79e+01 1jli a.26.1.2 16884 141l 164 1.80e+01 1l92 d.2.1.3 36863 131l 164 1.80e+01 1l92 d.2.1.3 36685 1cmyB 146 1.81e+01 1abwA a.1.1.2 15544 1n45A 233 1.82e+01 a.132.1.1 79981 1mmoG 162 1.83e+01 1mtyG a.23.3.1 16512 110l 164 1.85e+01 1l92 d.2.1.3 36684 1v4xB 146 1.85e+01 a.1.1.2 108364 1jboA 162 1.86e+01 a.1.1.3 84150 199l 164 1.87e+01 1l92 d.2.1.3 36855 166l 164 1.88e+01 1l92 d.2.1.3 36681 143l 164 1.89e+01 1l92 d.2.1.3 36857 1l92 164 1.90e+01 1l92 d.2.1.3 36629 127l 164 1.91e+01 d.2.1.3 36745 1jk0A 419 1.92e+01 a.25.1.2 63142 192l 164 1.92e+01 1l92 d.2.1.3 36815 146l 164 1.93e+01 1l92 d.2.1.3 36763 128l 164 1.93e+01 1l92 d.2.1.3 36634 1hz4A 373 1.94e+01 a.118.8.2 65960 1eyvA 156 1.94e+01 1eyvA a.79.1.1 18446 2ghcX 261 1.97e+01 1adt 356 1.97e+01 1anv a.54.1.1 17887 g.51.1.1 45362 g.51.1.1 45368 2fb5A 205 1.97e+01 1my6A 199 1.98e+01 a.2.11.1 85232 d.44.1.1 85233 152l 164 1.98e+01 1l92 d.2.1.3 36904 2h88C 140 1.99e+01 196l 164 1.99e+01 1l92 d.2.1.3 36927 1xl7A 612 2.01e+01 120l 164 2.01e+01 1l92 d.2.1.3 36720 1ithA 141 2.01e+01 1ithA a.1.1.2 15623 1j7yB 146 2.02e+01 a.1.1.2 66427 155l 164 2.04e+01 1l92 d.2.1.3 36762 1go4E 100 2.04e+01 h.1.22.1 70296 2c2nA 339 2.04e+01 2i0mA 216 2.05e+01 112l 164 2.05e+01 1l92 d.2.1.3 36677 118l 164 2.06e+01 1l92 d.2.1.3 36642 1aeiA 315 2.08e+01 1avc a.65.1.1 18180 1irdB 146 2.08e+01 a.1.1.2 66287 157l 164 2.10e+01 1l92 d.2.1.3 36717 1spgA 144 2.10e+01 1abwA a.1.1.2 15409 198l 164 2.11e+01 1l92 d.2.1.3 36785 3vtk 343 2.12e+01 1qhiA c.37.1.1 31884 147l 164 2.13e+01 1l92 d.2.1.3 36864 1dxtB 147 2.14e+01 1abwA a.1.1.2 15450 140l 164 2.15e+01 1l92 d.2.1.3 36891 1mla 309 2.15e+01 1mla c.19.1.1 31031 d.58.23.1 39383 123l 164 2.16e+01 1l92 d.2.1.3 36697 1mtyG 162 2.17e+01 1mtyG a.23.3.1 16498 125l 164 2.18e+01 1l92 d.2.1.3 36672 1bccE 196 2.18e+01 1rie b.33.1.1 24431 f.23.12.1 43699 1babB 146 2.19e+01 1abwA a.1.1.2 15414 137lA 164 2.20e+01 1l92 d.2.1.3 36791 1k47A 337 2.20e+01 d.14.1.5 72040 d.58.26.4 72041 115l 164 2.21e+01 1l92 d.2.1.3 36700 142l 164 2.21e+01 1l92 d.2.1.3 36874 163l 164 2.22e+01 1l92 d.2.1.3 36658 162l 164 2.22e+01 1l92 d.2.1.3 36749 1h67A 108 2.24e+01 a.40.1.1 65643 1myo 118 2.25e+01 2myo d.211.1.1 19174 1nbmG 272 2.25e+01 1e1qG c.49.2.1 33161 1aa7A 158 2.25e+01 1aa7A a.95.1.1 18741 1dvpA 220 2.28e+01 1dvpA a.118.9.2 19216 g.50.1.1 45358 119l 164 2.29e+01 1l92 d.2.1.3 36622 107l 164 2.31e+01 1l92 d.2.1.3 36690 17gsA 210 2.31e+01 1pgtA a.45.1.1 17524 c.47.1.5 32818 1jb0L 154 2.32e+01 1jb0L f.31.1.1 62829 1p36A 164 2.32e+01 d.2.1.3 93978 1oafA 261 2.33e+01 a.93.1.1 86734 2avpA 70 2.34e+01 2avkA 136 2.35e+01 3mag 307 2.36e+01 3mag c.66.1.25 34205 2azeA 155 2.37e+01 1a6i 217 2.38e+01 2tct a.4.1.9 16066 a.121.1.1 19243 175lA 164 2.38e+01 1l92 d.2.1.3 36924 165l 164 2.38e+01 1l92 d.2.1.3 36680 1ew6B 137 2.39e+01 1ewaA a.1.1.2 15638 2cwyA 94 2.40e+01 1y74B 50 2.40e+01 1uohA 226 2.41e+01 d.211.1.1 99690 1keyA 235 2.41e+01 a.118.16.1 72389 1qbkB 890 2.43e+01 1qbkB a.118.1.1 19127 1xjzA 233 2.44e+01 1agrH 205 2.44e+01 1agrE a.91.1.1 18539 139l 164 2.46e+01 1l92 d.2.1.3 36643 1bmfG 272 2.48e+01 1e1qG c.49.2.1 33160 1v7bA 185 2.49e+01 1a01B 146 2.50e+01 1abwA a.1.1.2 15448 144l 164 2.50e+01 1l92 d.2.1.3 36893 1wdyA 285 2.51e+01 1swxA 209 2.53e+01 a.224.1.1 106075 1xgsA 295 2.55e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 195l 164 2.56e+01 1l92 d.2.1.3 36841 1dlyA 164 2.56e+01 1dlyA a.1.1.1 14983 1e1qG 272 2.62e+01 1e1qG c.49.2.1 33162 2btdA 210 2.63e+01 1v8gA 329 2.68e+01 a.46.2.1 100505 c.27.1.1 100506 1yewC 289 2.69e+01 1iufA 144 2.71e+01 a.4.1.7 71439 a.4.1.7 71440 1k3lA 221 2.73e+01 a.45.1.1 77229 c.47.1.5 77230 1k3yA 221 2.73e+01 a.45.1.1 77245 c.47.1.5 77246 1a8i 842 2.74e+01 1a8i c.87.1.4 35490 1y9iA 178 2.76e+01 170l 164 2.79e+01 1l92 d.2.1.3 36968 1th0A 226 2.79e+01 d.3.1.7 106903 1kpsB 171 2.80e+01 a.118.12.1 68787 1t3qC 288 2.82e+01 d.87.2.1 106371 d.145.1.3 106372 1lw9A 164 2.85e+01 d.2.1.3 84727 1tmxA 293 2.87e+01 1gxyA 226 2.88e+01 d.166.1.3 76380 1kn1B 161 2.88e+01 a.1.1.3 77456 2ax3A 502 2.92e+01 1ucpA 91 2.93e+01 a.77.1.5 99186 1i3cA 149 2.94e+01 c.23.1.1 71112 1gw5A 621 2.94e+01 a.118.1.10 70629 1anv 356 2.97e+01 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 1x42A 232 3.02e+01 1sgmA 191 3.10e+01 a.4.1.9 105537 a.121.1.1 105538 1paqA 189 3.18e+01 a.118.1.14 94413 1y1nA 291 3.18e+01 1y1uA 585 3.21e+01 1av6A 289 3.23e+01 3mag c.66.1.25 34218 1w07A 659 3.23e+01 174lA 164 3.24e+01 1l92 d.2.1.3 36956 190l 164 3.24e+01 1l92 d.2.1.3 36892 1ann 318 3.31e+01 1avc a.65.1.1 18151 1aqwA 209 3.38e+01 1pgtA a.45.1.1 17517 c.47.1.5 32811 1r2fA 319 3.42e+01 1r2fA a.25.1.2 16800 145l 164 3.42e+01 1l92 d.2.1.3 36860 1sesA 421 3.43e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1esxA 96 3.43e+01 1esxA j.11.1.1 59501 1bjz 207 3.46e+01 2tct a.4.1.9 16065 a.121.1.1 19242 1i1rB 181 3.52e+01 1i1rB a.26.1.1 61548 2a6tA 271 3.52e+01 1eca 136 3.52e+01 1flp a.1.1.2 15209 1ecd 136 3.52e+01 1flp a.1.1.2 15211 1bgeB 175 3.54e+01 1bgc a.26.1.1 16824 2ac2A 309 3.54e+01 2a1jB 91 3.58e+01 1colA 204 3.61e+01 1a87 f.1.1.1 43378 1dozA 309 3.66e+01 1ak1 c.92.1.1 35592 2ac4A 309 3.66e+01 1wgzA 510 3.66e+01 1bgeA 175 3.66e+01 1bgc a.26.1.1 16823 1b5l 172 3.67e+01 1b5l a.26.1.3 16900 2gpyA 233 3.67e+01 180lA 164 3.69e+01 1l92 d.2.1.3 36867 1rfmA 344 3.69e+01 c.122.1.1 97385 1shuX 182 3.71e+01 c.62.1.1 98882 1rc9A 221 3.71e+01 2glfA 450 3.73e+01 1txdA 385 3.73e+01 a.87.1.1 107422 b.55.1.1 107423 1aq6A 253 3.75e+01 1qq5A c.108.1.1 43331 2dgzA 113 3.75e+01 2b5dX 528 3.77e+01 1o51A 114 3.77e+01 d.58.5.4 92480 1owcA 427 3.80e+01 a.103.1.1 104039 1yeyA 444 3.80e+01 1d8vA 263 3.80e+01 1mrj d.165.1.1 42193 1gcvB 136 3.81e+01 1cg5B a.1.1.2 15589 1a8rA 221 3.83e+01 1a8rA d.96.1.1 40587 2myo 118 3.84e+01 2myo d.211.1.1 19175 18gsA 210 3.90e+01 1pgtA a.45.1.1 17528 c.47.1.5 32822 2cchB 260 3.94e+01 1a9cA 221 3.98e+01 1a8rA d.96.1.1 40602 1hwyA 501 3.99e+01 1hwyA c.2.1.7 30262 c.58.1.1 33910 1ak1 310 4.00e+01 1ak1 c.92.1.1 35594