# 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 2h3jA 75 7.38e-09 2gcxA 75 2.08e-08 1fx7A 230 3.55e-03 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 2dtr 226 3.68e-02 1bi0 1bi0 226 8.78e-02 1bi0 2qq9A 226 1.77e-01 1bymA 97 5.36e-01 1bi0 b.34.1.2 24458 2hvqA 335 1.14e+00 1e0cA 271 1.18e+00 1e0cA c.46.1.2,c.46.1.2 32717,32718 1s68A 249 1.28e+00 d.142.2.4 98591 1bbzA 58 1.41e+00 1bbzA b.34.2.1 24477 1aboA 62 1.42e+00 1bbzA b.34.2.1 24474 2o88A 58 2.02e+00 1p9bA 442 2.10e+00 c.37.1.10 94385 1qw1A 121 2.51e+00 2fa1A 160 2.85e+00 d.190.1.2 133182 3bn1A 373 2.92e+00 1zx6A 58 3.15e+00 2jbhA 225 3.44e+00 2v0hA 456 3.66e+00 2pkhA 148 4.35e+00 2i7rA 118 4.35e+00 d.32.1.2 137102 1ywkA 289 4.72e+00 b.82.1.13 124155 1ysjA 404 4.77e+00 c.56.5.4,d.58.19.1 123975,123976 2pqcA 445 4.84e+00 2gg6A 455 4.86e+00 3c0cA 73 4.98e+00 2p19A 149 4.99e+00 1sphA 88 5.34e+00 1ptf d.94.1.1 40544 1ootA 60 5.40e+00 b.34.2.1 93386 2fomB 185 5.97e+00 b.47.1.3 133884 3bhdA 234 6.21e+00 1dxeA 256 6.30e+00 1dxeA c.1.12.5 29310 1gcqA 61 6.36e+00 1ckaA b.34.2.1 60434 2mcm 112 6.48e+00 2mcm 2mcmA 112 6.48e+00 b.1.7.1 22207 1cbfA 285 6.53e+00 c.90.1.1 35587 1opd 85 6.85e+00 1ptf 1opdA 85 6.85e+00 d.94.1.1 40560 1b9hA 388 7.80e+00 1b9hA c.67.1.4 34488 1wmxA 205 8.27e+00 b.18.1.24 109418 2nygA 273 8.56e+00 1y8xB 98 8.60e+00 1dbrA 231 8.80e+00 1qk3A c.61.1.1 34041 2g6fX 59 9.17e+00 2qmmA 197 9.22e+00 2a28A 54 9.53e+00 2a1iA 146 9.69e+00 c.52.1.20 125999 1x1mA 107 1.04e+01 d.15.1.1 121592 1pjqA 457 1.10e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1j6oA 268 1.16e+01 c.1.9.12 77088 2bz8A 58 1.17e+01 1ygyA 529 1.18e+01 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2c81A 418 1.20e+01 1mdoA 393 1.26e+01 c.67.1.4 79013 1ylnA 252 1.32e+01 b.45.2.1,b.45.2.2 123657,123658 2eg4A 230 1.36e+01 1ji8A 111 1.38e+01 d.203.1.1 66733 2o95A 187 1.40e+01 1xruA 282 1.41e+01 b.82.1.13 122262 1k1eA 180 1.41e+01 c.108.1.5 67995 2elcA 329 1.42e+01 1w70A 60 1.43e+01 1y51A 88 1.48e+01 1f7wA 144 1.54e+01 1f46A d.129.4.1 59679 1a97A 148 1.58e+01 1nulA c.61.1.1 34023 1jdqA 98 1.60e+01 d.68.3.3 66559 1rhs 296 1.60e+01 1rhs 1rhsA 296 1.60e+01 c.46.1.2,c.46.1.2 32703,32704 1aorA 605 1.63e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 2iacA 142 1.69e+01 3bedA 142 1.69e+01 1tcrA 202 1.72e+01 1tcrA b.1.1.1,b.1.1.2 20605,21549 2rdeA 251 1.74e+01 1zoiA 276 1.76e+01 2a08A 60 1.78e+01 2vgeA 229 1.79e+01 1yloA 348 1.79e+01 b.49.3.1,c.56.5.4 123659,123660 2ak5A 64 1.81e+01 1z7gA 217 1.94e+01 c.61.1.1 124624 1aw8B 91 1.95e+01 1aw8B 2qtxA 71 1.96e+01 2ogeA 399 1.97e+01 1lq9A 112 1.97e+01 d.58.4.3 78129 1vqoE 178 1.97e+01 d.141.1.1,d.141.1.1 120366,120367 2drmA 58 1.98e+01 2k3aA 155 1.99e+01 1jj2E 177 2.02e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1jjhA 86 2.12e+01 2bopA d.58.8.1 63119 2g5cA 281 2.17e+01 a.100.1.12,c.2.1.6 134646,134647 2z10A 194 2.24e+01 1fjgJ 105 2.26e+01 1fjfJ d.58.15.1 39330 1u9kA 114 2.26e+01 b.1.1.1 113244 2p2uA 171 2.28e+01 1yemA 179 2.30e+01 d.63.1.2 116646 2i7hA 189 2.39e+01 1fsgA 233 2.41e+01 1qk3A c.61.1.1 34029 2jaeA 489 2.41e+01 1pqhA 143 2.43e+01 b.52.2.1 95017 1x8mA 288 2.56e+01 b.82.1.13 109516 2je3A 186 2.59e+01 1dbdA 100 2.60e+01 2bopA d.58.8.1 39218 1va0A 239 2.63e+01 c.90.1.1 119899 1jhfA 202 2.67e+01 a.4.5.2,b.87.1.1 63057,63058 1ku0A 388 2.70e+01 c.69.1.18 72994 1zc1A 208 2.71e+01 2akkA 74 2.72e+01 b.34.11.2 126916 1pt1A 143 2.77e+01 b.52.2.1 95084 2hrzA 342 2.86e+01 1i8dA 213 2.92e+01 b.43.4.3,b.43.4.3 61953,61954 1pn2A 280 2.94e+01 d.38.1.4,d.38.1.4 94930,94931 1cjbA 231 2.95e+01 1qk3A c.61.1.1 34079 1i4vA 115 2.95e+01 1umuA b.87.1.1 61734 1vdmA 153 2.99e+01 c.61.1.1 119994 2v7bA 529 3.02e+01 1vg5A 73 3.04e+01 a.5.2.1 113640 2ywvA 244 3.06e+01 1eikA 77 3.07e+01 1eikA d.78.1.1 39751 1ihp 438 3.15e+01 1ihp 1kafA 108 3.17e+01 d.199.1.1 68372 1r1gA 31 3.21e+01 g.3.7.2 96816 2iimA 62 3.21e+01 b.34.2.1 137434 2bzyA 67 3.28e+01 1cmcA 104 3.32e+01 1cmbA a.43.1.5 17462 2glwA 92 3.33e+01 1j7jA 178 3.33e+01 c.61.1.1 84131 1qo7A 394 3.40e+01 1qo7A c.69.1.11 34697 1f42A 306 3.60e+01 1f42A b.1.1.4,b.1.2.1,b.1.2.1 59636,59637,59638 2ggrA 76 3.66e+01 2z5gA 387 3.72e+01 2nxvA 249 3.73e+01 3bk2A 562 3.77e+01 1vqwA 457 3.79e+01 c.3.1.5,c.3.1.5 114028,114029 2cw5A 255 3.80e+01 2gv8A 447 3.83e+01 c.3.1.5,c.3.1.5 135759,135760 1pbyA 489 3.84e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1f1xA 322 3.84e+01 d.32.1.3,d.32.1.3 83208,83209 1wr1B 58 3.91e+01 a.5.2.1 121185 2e4sA 189 3.93e+01 1qwoA 442 3.95e+01 c.60.1.2 104620 1cz4A 185 4.06e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 2nqoB 188 4.07e+01 1lrzA 426 4.23e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 2uwiA 142 4.24e+01 1qfrA 89 4.27e+01 1ptf d.94.1.1 40552 2e27L 119 4.34e+01 1ptf 88 4.35e+01 1ptf 1ptfA 88 4.35e+01 d.94.1.1 40549 2d1hA 109 4.40e+01 a.4.5.50 131125 1bpv 112 4.41e+01 1bpv 1wp5A 323 4.42e+01 b.68.10.1 114780 1ty9A 222 4.42e+01 b.45.1.1 112827 1oebA 62 4.49e+01 b.34.2.1 86909 1im4A 221 4.54e+01 e.8.1.7 62581 1fbaA 361 4.59e+01 1fbaA c.1.10.1 29120 2nwvA 114 4.59e+01 d.326.1.1 138720 1pdgA 109 4.61e+01 1pdgA g.17.1.1 44748 2uubJ 105 4.64e+01 d.58.15.1 139941 2jrnA 163 4.64e+01 1qk3A 233 4.65e+01 1qk3A c.61.1.1 34031 1pch 88 4.65e+01 1ptf 1pchA 88 4.65e+01 d.94.1.1 40564 1rg9A 383 4.66e+01 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1sv6A 269 4.68e+01 d.177.1.1 106043 2i8aA 252 4.70e+01 2nujA 163 4.70e+01 d.38.1.1 138608 2yzkA 178 4.73e+01 2eenA 183 4.78e+01 1dklA 410 4.86e+01 1dklA c.60.1.2 33996 1zq1A 438 5.12e+01 b.38.3.1,c.88.1.1 125489,125490 2h0aA 276 5.12e+01 2otuA 115 5.21e+01 2hpsA 186 5.27e+01 2o9sA 67 5.31e+01 1rxyA 253 5.31e+01 c.56.2.1 98065 2b71A 196 5.33e+01 b.62.1.1 128004 2bw4A 340 5.35e+01 b.6.1.3,b.6.1.3 129320,129321 2bopA 85 5.37e+01 2bopA d.58.8.1 39217 1zuyA 58 5.40e+01 1xi1A 575 5.49e+01 c.55.3.5,e.8.1.1 115309,115310 1q2kA 31 5.54e+01 g.3.7.2 95630 1utiA 58 5.58e+01 b.34.2.1 99962 1nrvA 105 5.59e+01 d.93.1.1 86126 1z2mA 155 5.60e+01 d.15.1.1,d.15.1.1 124387,124388 2hrdA 253 5.62e+01 1pgyA 47 5.64e+01 a.5.2.1 94696 2egoA 96 5.73e+01 2cp8A 54 5.76e+01 a.5.2.1 130695 2z1mA 345 5.78e+01 2a7lA 136 5.87e+01 d.20.1.1 126350 2p0pA 126 5.87e+01 1gatA 60 5.88e+01 1gatA g.39.1.1 45106 1ounA 127 5.90e+01 1ounA d.17.4.2 38090 1so9A 164 5.91e+01 b.146.1.1 105842 2o31A 67 5.91e+01 3bxtA 257 5.97e+01 2oseA 234 5.98e+01 1noaA 113 6.06e+01 b.1.7.1 22208 2ikkA 173 6.09e+01 2gatA 66 6.11e+01 1gatA g.39.1.1 45102 1ng2A 193 6.12e+01 b.34.2.1,b.34.2.1 85660,85661 2cr5A 109 6.12e+01 d.15.1.2 130733 2qmcB 188 6.17e+01 1askA 127 6.19e+01 1ounA d.17.4.2 38094 2if1A 126 6.29e+01 d.64.1.1 39547 1f1uA 323 6.33e+01 d.32.1.3,d.32.1.3 83200,83201 1w1wA 430 6.33e+01 c.37.1.12 114080 2e5fA 325 6.35e+01 1fp4A 492 6.35e+01 c.92.2.3 76187 1xs1A 193 6.36e+01 b.85.4.1 115892 1t3tA 1303 6.38e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 2df8A 325 6.38e+01 1uarA 285 6.40e+01 c.46.1.2,c.46.1.2 107762,107763 1tuc 63 6.41e+01 1tuc 1e69B 322 6.53e+01 1e69B c.37.1.12 32377 1ltoA 245 6.61e+01 b.47.1.2 84707 2bwbA 46 6.63e+01 a.5.2.1 129329 1r4pA 297 6.66e+01 d.165.1.2 97025 1t1iA 364 6.66e+01 c.41.1.2 106248 1azeA 56 6.67e+01 b.34.2.1 24536 1dv0A 47 6.78e+01 1dv0A a.5.2.1 16289 1z9bA 135 6.79e+01 1qh8A 478 6.80e+01 1qguA c.92.2.3 35633 1jegA 83 6.82e+01 b.34.2.1 66610 1yr0A 175 6.82e+01 d.108.1.1 123905 2cwlA 302 6.86e+01 a.25.1.3 130927 1hd3A 62 6.86e+01 b.34.2.1 65802 2j4hA 193 6.87e+01 1wr7A 41 6.92e+01 2jg2A 422 6.92e+01 2eo2A 71 6.93e+01 1u06A 62 6.94e+01 b.34.2.1 119404 1ar0A 127 6.94e+01 1ounA d.17.4.2 38092 2iz3A 97 7.01e+01 1m1nA 491 7.07e+01 c.92.2.3 78417 2h1tA 188 7.14e+01 1ewjA 126 7.17e+01 1ecsA d.32.1.2 59526 1lckA 175 7.24e+01 1lckA b.34.2.1,d.93.1.1 24552,40421 1ywyA 74 7.27e+01 b.55.2.1 124166 2p9jA 162 7.28e+01 1uc2A 481 7.33e+01 d.261.1.1 99161 1gutA 68 7.33e+01 b.40.6.1 65576 1rtm1 149 7.33e+01 1rtm1 3cbtA 237 7.35e+01 1qguA 478 7.39e+01 1qguA c.92.2.3 35625 3bq5A 766 7.43e+01 1jb2A 127 7.44e+01 d.17.4.2 71624 1ok7A 366 7.44e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1g5cA 170 7.45e+01 1g5cA c.53.2.1 60264 1mml 265 7.48e+01 1mml 1h1lA 481 7.56e+01 c.92.2.3 70851 1n7eA 97 7.58e+01 b.36.1.1 91691 1rpnA 335 7.59e+01 c.2.1.2 97708 1vl6A 388 7.62e+01 c.2.1.7,c.58.1.3 108724,108725 1nulA 152 7.63e+01 1nulA c.61.1.1 34011 2e2wA 113 7.68e+01 3b9cA 144 7.72e+01 1t7lA 766 7.72e+01 1v39 322 7.84e+01 3mag 2g09A 297 7.85e+01 2jqoA 108 7.86e+01 2afbA 351 7.87e+01 c.72.1.1 126674 1ti6A 875 7.91e+01 b.52.2.2,c.81.1.1 106974,106975 1cskA 71 7.92e+01 1ckaA b.34.2.1 24513 1nif 340 7.97e+01 1nif 1t6sA 162 7.98e+01 a.4.5.60,a.4.5.60 112271,112272 2cvzA 289 8.00e+01 a.100.1.1,c.2.1.6 130890,130891