# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 1vi3A 170 9.99e-02 b.17.1.2 100730 1fjjA 159 1.69e-01 1fjjA b.17.1.2 59852 2bkdN 134 6.82e-01 2gfaA 119 9.24e-01 b.34.9.1,b.34.9.1 135089,135090 3b9tA 484 1.08e+00 2qfeA 148 1.46e+00 1rc6A 261 1.47e+00 b.82.1.11 97287 2eifA 136 2.02e+00 1bkb b.34.5.2,b.40.4.5 24607,25339 2qqrA 118 2.41e+00 1d2sA 170 3.10e+00 1d2sA b.29.1.4 24221 1pbyB 337 3.38e+00 b.69.2.2 94422 2a46A 238 3.57e+00 1ew3A 159 3.92e+00 1mup b.60.1.1 27114 1fuxA 166 4.12e+00 1fjjA b.17.1.2 60034 2acoA 173 4.14e+00 1f5fA 205 4.19e+00 1d2sA b.29.1.4 24222 1ggxA 223 4.34e+00 1ggxA d.22.1.1 38367 1zgoA 223 4.58e+00 1nkoA 132 4.84e+00 b.1.1.1 85829 2j7mA 149 4.90e+00 2qf4A 172 4.94e+00 2j1aA 150 5.01e+00 1f8fA 371 5.26e+00 b.35.1.2,c.2.1.1 83246,83247 1ktjA 129 5.47e+00 b.1.18.7 72974 2bonA 332 5.53e+00 2qpwA 149 6.07e+00 2ejoA 223 6.12e+00 2c9jA 223 6.27e+00 1o7sA 127 6.54e+00 b.1.1.1 86644 1avbA 226 6.60e+00 1led b.29.1.1 24158 1kdkA 177 7.81e+00 b.29.1.4 72351 1z8gA 372 8.16e+00 b.47.1.2,d.170.1.2 124697,124698 2jmzA 186 8.61e+00 1af6A 421 8.68e+00 2mprA f.4.3.2 43772 2iqyA 190 8.90e+00 2p18A 311 9.02e+00 1cr5A 189 9.45e+00 1cr5A b.52.2.3,d.31.1.1 26931,38465 1ee6A 197 9.75e+00 1ee6A b.80.1.1 28024 2r6vA 191 9.84e+00 1bkb 136 1.01e+01 1bkb 1bkbA 136 1.01e+01 b.34.5.2,b.40.4.5 24609,25341 2uvfA 608 1.03e+01 2rerA 173 1.05e+01 1c28A 135 1.05e+01 1c28A b.22.1.1 23857 1yezA 68 1.07e+01 b.40.4.12 123026 1j1tA 233 1.08e+01 b.29.1.18 90771 1t61A 229 1.10e+01 d.169.1.6,d.169.1.6 106529,106530 1rl2A 137 1.10e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 1qwdA 177 1.12e+01 b.60.1.1 96471 2q86A 229 1.14e+01 2vadA 223 1.19e+01 1li1A 229 1.19e+01 d.169.1.6,d.169.1.6 73898,73899 2it1A 362 1.21e+01 1on0A 158 1.23e+01 d.108.1.1 87095 1ufhA 180 1.24e+01 d.108.1.1 88485 2f1wA 158 1.27e+01 3b5mA 205 1.27e+01 1jqpA 438 1.29e+01 b.61.5.1,d.3.1.1 77162,77163 1yewA 382 1.31e+01 1gmiA 136 1.34e+01 b.7.1.1 65309 1zc1A 208 1.35e+01 2bj7A 138 1.36e+01 a.43.1.3,d.58.18.4 128608,128609 1xwvA 129 1.40e+01 b.1.18.7 116134 1ybiA 288 1.46e+01 2hx0A 154 1.46e+01 d.290.1.3 136830 1o91A 178 1.47e+01 b.22.1.1 92656 1ylnA 252 1.48e+01 b.45.2.1,b.45.2.2 123657,123658 1aonO 97 1.55e+01 b.35.1.1 24642 1i8dA 213 1.57e+01 b.43.4.3,b.43.4.3 61953,61954 1yoxA 250 1.62e+01 b.82.5.2 123789 2gw4B 162 1.71e+01 1n9lA 109 1.73e+01 d.110.3.6 85468 1ux6A 350 1.77e+01 b.29.1.16,g.75.1.1 100145,100146 2bpsA 81 1.82e+01 2f5kA 102 1.85e+01 b.34.13.3 132995 1zxiC 288 1.91e+01 d.87.2.1,d.145.1.3 125776,125777 2g5rA 127 1.95e+01 b.1.1.1 134674 1iznB 277 1.96e+01 e.43.1.2 83848 2q7nA 488 1.99e+01 2qecA 204 2.00e+01 1kzlA 208 2.00e+01 b.43.4.3,b.43.4.3 77635,77636 2e63A 170 2.01e+01 3cpnA 330 2.02e+01 1yge 839 2.04e+01 1yge 1ygeA 839 2.04e+01 a.119.1.1,b.12.1.1 19234,23634 2gb3A 409 2.05e+01 c.67.1.1 134903 2g50A 530 2.06e+01 b.58.1.1,c.1.12.1,c.49.1.1 134618,134619,134620 1epwA 1290 2.09e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1l1nA 183 2.12e+01 b.47.1.4 73476 1nbcA 155 2.15e+01 1nbcA b.2.2.2 22390 2hf0A 316 2.17e+01 2hbwA 235 2.18e+01 1fiqB 350 2.24e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 3cb0A 173 2.26e+01 1m2rA 327 2.38e+01 d.144.1.7 84760 2oseA 234 2.43e+01 1rovA 857 2.43e+01 a.119.1.1,b.12.1.1 97674,97675 1k3bA 119 2.45e+01 b.61.5.1 72016 2qz7A 194 2.46e+01 1upsA 420 2.47e+01 b.29.1.2,b.42.2.3 113394,113395 2c2hA 192 2.48e+01 c.37.1.8 129668 1lgpA 116 2.49e+01 b.26.1.2 73890 3b9jB 350 2.49e+01 1tovA 98 2.60e+01 b.34.10.1 107179 1gmeA 151 2.60e+01 b.15.1.1 65305 1o75A 415 2.61e+01 b.1.20.1,b.1.20.1,b.120.1.1 81117,81118,81119 1lplA 95 2.62e+01 b.34.10.1 74173 1c4qA 69 2.70e+01 2bosA b.40.2.1 25010 1hkfA 122 2.70e+01 b.1.1.1 83553 1abrB 267 2.70e+01 1abrB b.42.2.1,b.42.2.1 25563,25564 2pbeA 294 2.73e+01 1mh1 186 2.74e+01 1eesA 1mh1A 186 2.74e+01 c.37.1.8 32002 2qxlA 658 2.76e+01 1wgvA 124 2.77e+01 b.15.1.4 114624 1yvcA 70 2.81e+01 b.40.4.12 124094 2ovlA 371 2.85e+01 1bovA 69 2.90e+01 2bosA b.40.2.1 25070 1pieA 419 2.94e+01 d.14.1.5,d.58.26.7 94706,94707 1jjtA 228 2.98e+01 1a7tA d.157.1.1 63139 2icrA 237 2.99e+01 1vc3B 97 3.01e+01 3b3fA 341 3.02e+01 2bz8A 58 3.06e+01 1ao7D 204 3.11e+01 1tcrA b.1.1.1 20623 1mv3A 213 3.13e+01 b.34.2.1 91468 1smoA 119 3.14e+01 b.1.1.1 105764 2gu2A 312 3.15e+01 1g5vA 88 3.17e+01 1g5vA b.34.9.1 60292 1bcpB 199 3.21e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 2rdeA 251 3.23e+01 1w23A 360 3.24e+01 c.67.1.4 114088 1jjeA 222 3.31e+01 1a7tA d.157.1.1 63117 1p97A 114 3.36e+01 d.110.3.7 94382 1xuvA 178 3.36e+01 d.129.3.5 116069 1gzcA 239 3.45e+01 b.29.1.1 70803 1behA 187 3.52e+01 1a44 b.17.1.1 23700 1k42A 168 3.64e+01 b.18.1.14 72032 2g3rA 123 3.64e+01 b.34.9.1,b.34.9.1 134570,134571 1eovA 487 3.67e+01 1b8aA b.40.4.1,d.104.1.1 25239,40760 2euiA 153 3.67e+01 d.108.1.1 132387 1e0tA 470 3.67e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 2q4zA 312 3.67e+01 1gwyA 175 3.68e+01 b.97.1.1 83356 1wluA 136 3.70e+01 d.38.1.5 121015 1wkoA 180 3.74e+01 1icpA 376 3.74e+01 1oyc c.1.4.1 62270 1wyxA 69 3.79e+01 2hljA 157 3.81e+01 d.38.1.1 136570 2aehA 369 3.87e+01 a.11.2.1,b.55.1.5,d.15.1.4 126625,126626,126627 1epaA 164 3.93e+01 1epaA b.60.1.1 27128 2imlA 199 3.97e+01 2pzhA 135 3.98e+01 1vqoB 338 3.99e+01 b.43.3.2 120363 1vmfA 145 3.99e+01 d.273.1.1 113673 1pamA 686 3.99e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1zunB 434 4.00e+01 b.43.3.1,b.44.1.1,c.37.1.8 125677,125678,125679 1j1yA 136 4.04e+01 d.38.1.5 90776 2p8rA 273 4.06e+01 3cddA 361 4.09e+01 1mkaA 171 4.10e+01 1mkaA d.38.1.2 38543 2eabA 899 4.10e+01 1jhfA 202 4.10e+01 a.4.5.2,b.87.1.1 63057,63058 1kn3A 183 4.12e+01 b.17.1.1 72764 2e4tA 519 4.19e+01 2p0wA 324 4.23e+01 1r6vA 671 4.27e+01 c.41.1.1 111710 1olrA 224 4.28e+01 b.29.1.11 93330 2cy9A 140 4.29e+01 d.38.1.5 131019 2hsiA 282 4.33e+01 2q3zA 687 4.37e+01 1ve4A 206 4.41e+01 c.94.1.1 120012 1kfuL 699 4.43e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1nkgA 508 4.45e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1om1A 332 4.51e+01 d.144.1.7 93347 1b7aA 186 4.52e+01 1a44 b.17.1.1 23705 1n62C 288 4.53e+01 d.87.2.1,d.145.1.3 80094,80095 1b9vA 390 4.60e+01 2qwc b.68.1.1 27603 2obdA 476 4.60e+01 2yvtA 260 4.63e+01 1c3hA 137 4.68e+01 b.22.1.1 90405 1fvrA 327 4.72e+01 d.144.1.7 60047 1p16A 395 4.75e+01 b.40.4.6,d.142.2.3 87661,87662 2dstA 131 4.76e+01 1dzrA 183 4.77e+01 1dzrA b.82.1.1 28076 1gmlA 178 4.79e+01 c.8.5.2 70273 1frpA 335 4.89e+01 1frpA e.7.1.1 42875 1o63A 219 5.02e+01 c.94.1.1 92540 1m6kA 251 5.13e+01 e.3.1.1 78695 1t0pB 86 5.14e+01 2ealA 148 5.16e+01 2jwyA 168 5.18e+01 1l1jA 239 5.24e+01 b.47.1.1 84516 1yqfA 203 5.41e+01 d.25.1.1 123880 1jyhA 157 5.42e+01 d.60.1.3 71956 2j59M 168 5.51e+01 2qtpA 194 5.53e+01 3c8cA 240 5.55e+01 2i2lA 142 5.60e+01 2al6A 375 5.60e+01 a.11.2.1,b.55.1.5,d.15.1.4 126966,126967,126968 2ak5A 64 5.66e+01 3bxoA 239 5.72e+01 1rvkA 382 5.75e+01 c.1.11.2,d.54.1.1 97928,97929 1wthD 391 5.81e+01 b.106.1.1,b.106.1.1 121268,121269 2dp9A 124 5.83e+01 b.122.1.5 131609 1ka9H 200 5.83e+01 c.23.16.1 77308 2hu5A 582 5.83e+01 b.69.7.2,c.69.1.33 136763,136764 3fivA 116 5.86e+01 1fmb b.50.1.1 26768 1n08A 163 5.97e+01 b.43.5.1 79730 1hq0A 295 5.98e+01 1hzgA d.194.1.1 61122 4fiv 113 6.00e+01 1fmb 4fivA 113 6.00e+01 b.50.1.1 26762 1dr9A 201 6.09e+01 1dr9A b.1.1.1,b.1.1.3 19762,21684 1h6kX 97 6.13e+01 d.58.7.1 60684 2daxA 152 6.13e+01 1bd2D 204 6.17e+01 1tcrA b.1.1.1,b.1.1.2 20622,21557 2geeA 203 6.20e+01 2dwcA 433 6.25e+01 2f4eA 180 6.28e+01 1wpgA 994 6.30e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 2cw9A 194 6.31e+01 d.17.4.13 130920 2hboA 158 6.32e+01 d.38.1.5 136319 1rdzA 337 6.38e+01 1frpA e.7.1.1 42882 2hnfA 133 6.40e+01 1uxy 340 6.43e+01 2mbr 1uxyA 340 6.43e+01 d.145.1.2,d.146.1.1 41748,41761 2cbpA 96 6.44e+01 b.6.1.1 22895 2yzjA 169 6.47e+01 1yr0A 175 6.47e+01 d.108.1.1 123905 2arhA 203 6.47e+01 d.108.1.9 127197 1yoaA 159 6.53e+01 b.45.1.2 123775 1wk2A 121 6.64e+01 b.122.1.5 114720 2hdaA 64 6.66e+01 1zlmA 58 6.71e+01 1mhnA 59 6.75e+01 b.34.9.1 84964 3c9aA 223 6.84e+01 1c8uA 285 6.86e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 2z3zA 706 6.94e+01 1smxA 96 6.97e+01 b.40.4.5 105772 1jrhI 108 7.11e+01 1jrhI b.1.2.1 22059 2oz4A 265 7.21e+01 2hqxA 246 7.26e+01 b.34.9.1 136675 1f60A 458 7.30e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 3b96A 587 7.32e+01 2uxwA 607 7.32e+01 2ojhA 297 7.35e+01 1k2fA 190 7.41e+01 b.8.1.2 68054 1v2bA 177 7.47e+01 d.107.1.2 108279 1a0lA 244 7.48e+01 5ptp b.47.1.2 26286 1m2tB 263 7.49e+01 b.42.2.1,b.42.2.1 84762,84763 2qikA 285 7.52e+01 2d9rA 104 7.53e+01 b.129.2.1 131350 1wlgA 299 7.56e+01 b.152.1.1 114726 2ptfA 233 7.56e+01 2im9A 333 7.66e+01 d.3.1.13 137508 1ws8A 109 7.66e+01 b.6.1.1 114843 1hzgA 295 7.68e+01 1hzgA d.194.1.1 61436 2rkpA 335 7.75e+01 3c4zA 543 7.77e+01 2bjqA 345 7.77e+01 b.169.1.1,b.169.1.1 128626,128627 2fhdA 153 7.80e+01 2gw3A 225 7.84e+01 2h6oA 470 7.85e+01 2ixkA 184 7.86e+01 2mbr 340 7.88e+01 2mbr 2mbrA 340 7.88e+01 d.145.1.2,d.146.1.1 41749,41762 1knmA 130 7.89e+01 b.42.2.1 72781 1u2hA 99 7.93e+01 1b88A 114 7.95e+01 1tcrA b.1.1.1 20608 3cjyA 259 7.97e+01 2ii1A 301 7.99e+01