# 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.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 1top 162 8.17e-04 1ncx a.39.1.5 17223 1ncx 162 1.09e-03 1ncx a.39.1.5 17222 1s29A 92 1.77e-02 unknown_sccs -315 1a26 361 1.06e-01 1a26 a.41.1.1 17412 d.166.1.2 42274 1efyA 350 1.69e-01 1a26 a.41.1.1 17413 d.166.1.2 42275 1mu5A 471 1.71e-01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1ggzA 148 2.37e-01 a.39.1.5 70176 1rvv1 154 3.92e-01 1rvv1 1rvvA 154 3.92e-01 1rvv1 c.16.1.1 30927 2sas 185 4.94e-01 2sas a.39.1.5 17258 1ctdA 36 5.32e-01 1ctdA a.39.1.5 17230 1f4qA 165 5.34e-01 1alvA a.39.1.8 17360 1e0cA 271 5.57e-01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1k94A 165 6.47e-01 a.39.1.8 68333 1ecxA 384 7.04e-01 1ecxA c.67.1.3 34431 1wdcB 156 7.59e-01 1wdcB a.39.1.5 17302 1eg5A 384 7.79e-01 1ecxA c.67.1.3 34429 1auiB 169 9.89e-01 1auiB a.39.1.5 17325 1f47B 144 1.18e+00 1f46A d.129.4.1 59645 1cll 148 1.22e+00 1cll a.39.1.5 17263 1f46A 140 1.29e+00 1f46A d.129.4.1 59643 1avsA 90 1.32e+00 1cll a.39.1.5 17226 1g4yR 148 1.51e+00 1cll a.39.1.5 60252 1jhfA 202 1.73e+00 a.4.5.2 63057 b.87.1.1 63058 1n25A 368 2.05e+00 c.37.1.20 85264 1zac 90 2.11e+00 1ncx a.39.1.5 17236 1bmqB 88 2.41e+00 1pauB 1f7wA 144 2.42e+00 1f46A d.129.4.1 59679 1ibcB 88 2.75e+00 1pauB 1wdcC 156 2.87e+00 1wdcC a.39.1.5 17317 1p9kA 79 2.90e+00 unknown_sccs -10238 1kk8B 139 3.11e+00 a.39.1.5 77430 1ponA 36 3.46e+00 1ponA a.39.1.5 17239 3cln 148 3.56e+00 1cll a.39.1.5 17286 1bfmA 69 3.57e+00 1a7w a.22.1.2 16479 1gnlA 544 3.64e+00 e.26.1.1 70287 1a7w 69 3.67e+00 1a7w a.22.1.2 16477 1ihbA 162 3.85e+00 1bd8 d.211.1.1 19161 1ls8A 142 3.94e+00 a.39.2.1 78176 1exrA 148 3.99e+00 1cll a.39.1.5 17299 1osa 148 4.00e+00 1cll a.39.1.5 17300 1hwwA 1015 4.10e+00 a.8.3.1 83067 b.30.5.6 83068 c.6.2.1 83069 1qwnA 1045 4.34e+00 a.8.3.1 -414 b.30.5.6 -3517 c.6.2.1 -6058 1kgdA 180 4.41e+00 c.37.1.1 68582 1scmB 145 4.44e+00 1wdcB a.39.1.5 17304 1fu1A 203 4.53e+00 1fu1B b.59.1.1 27076 h.1.11.1 45630 1ta3A 274 4.56e+00 1rwyA 109 4.83e+00 a.39.1.4 -825 1g33A 73 5.27e+00 a.39.1.4 65121 1htyA 1015 5.46e+00 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1hxkA 1015 5.46e+00 a.8.3.1 83070 b.30.5.6 83071 c.6.2.1 83072 1g8mA 593 5.68e+00 1g8mA c.24.1.3 60371 c.97.2.1 60372 1f6yA 262 5.75e+00 1f6yA c.1.21.2 29673 2mysB 166 5.77e+00 1wdcB a.39.1.5 17308 3icb 75 5.87e+00 4icb a.39.1.1 17147 1cc1S 283 5.97e+00 2frvA e.19.1.1 43313 1dqeA 137 6.00e+00 1dqeA a.39.2.1 17388 3ullA 132 6.11e+00 3ullA b.40.4.3 25282 1aerA 205 6.19e+00 1aerA d.166.1.1 42249 1fu1B 203 6.65e+00 1fu1B b.59.1.1 27077 h.1.11.1 45631 1a75A 108 6.70e+00 1a75A a.39.1.4 17216 1tplA 426 6.82e+00 1ax4A c.67.1.2 34387 1nf2A 268 6.87e+00 c.108.1.10 -6842 1exzA 141 7.25e+00 1exzA a.26.1.2 16877 1ctaA 36 7.40e+00 1ctdA a.39.1.5 17232 1m9nA 613 7.63e+00 c.24.1.3 78870 c.97.2.1 78871 1a99A 344 7.80e+00 1pot c.94.1.1 35812 1hfuA 503 7.94e+00 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1dmaA 214 8.27e+00 1aerA d.166.1.1 42251 1bj4A 470 8.36e+00 1bj4A c.67.1.4 34479 1k9uA 78 8.46e+00 a.39.1.10 84348 1om0A 274 8.58e+00 c.1.8.5 87058 1a65A 504 8.63e+00 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1cv8 174 9.47e+00 1cv8 d.3.1.1 37089 1a4iA 301 9.50e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1nxiA 132 9.99e+00 d.58.47.1 86381 1esxA 96 1.03e+01 1esxA j.11.1.1 59501 1i2aA 219 1.05e+01 e.24.1.1 -12012 1rv3A 483 1.11e+01 1rypL 212 1.16e+01 d.153.1.4 41880 3psg 370 1.25e+01 1smrA b.50.1.2 26841 1b6sA 355 1.25e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1dfmA 223 1.26e+01 1d2iA c.52.1.5 33295 1d2iA 223 1.26e+01 1d2iA c.52.1.5 33297 1iynA 295 1.28e+01 a.93.1.1 -1244 1a4iB 301 1.29e+01 1a4iA c.2.1.7 30279 c.58.1.2 33927 1ik9A 213 1.30e+01 b.59.1.1 66176 h.1.11.1 66177 1b6rA 355 1.32e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 3cla 213 1.33e+01 3cla c.43.1.1 32610 1klaA 112 1.34e+01 2tgi g.17.1.2 44779 1q0uA 219 1.36e+01 c.37.1.19 -7205 1knwA 425 1.40e+01 b.49.2.3 -4274 c.1.6.1 -5229 1f9zA 135 1.50e+01 1qipA d.32.1.1 38484 1k4iA 233 1.56e+01 d.115.1.2 72056 1gd0A 122 1.62e+01 1dptA d.80.1.3 39834 1hqvA 191 1.63e+01 1hqvA a.39.1.8 61160 1s6cA 183 1.67e+01 a.39.1.5 -858 1m46A 148 1.69e+01 a.39.1.5 78599 1h6fA 193 1.74e+01 b.2.5.4 70901 1g65K 211 1.74e+01 d.153.1.4 41907 1m7xA 617 1.77e+01 b.1.18.2 78749 b.71.1.1 78750 c.1.8.1 78751 1diaA 306 1.81e+01 1a4iA c.2.1.7 30280 c.58.1.2 33928 1nbuA 119 1.85e+01 d.96.1.3 -10699 1nmeB 92 1.89e+01 1hzfA 367 1.90e+01 a.102.4.4 76731 1fa8A 135 1.93e+01 1qipA d.32.1.1 38486 1lfwA 470 1.97e+01 c.56.5.4 77942 d.58.19.1 77943 1mfiA 114 1.98e+01 1dptA d.80.1.3 39856 1s96A 219 1.99e+01 c.37.1.1 -6972 2matA 264 2.02e+01 1c24A d.127.1.1 41146 1c24A 263 2.03e+01 1c24A d.127.1.1 41148 1i8dA 213 2.05e+01 b.43.4.3 61953 b.43.4.3 61954 1fqgA 263 2.05e+01 1btl e.3.1.1 42699 1e2fA 215 2.06e+01 3tmkA c.37.1.1 59164 1ht9A 76 2.07e+01 4icb a.39.1.1 61252 1pauB 102 2.09e+01 1pauB 1e2gA 215 2.09e+01 3tmkA c.37.1.1 59165 1evhA 112 2.09e+01 1evhA b.55.1.4 26997 1ig5A 75 2.09e+01 4icb a.39.1.1 62363 1fsz 372 2.14e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1j2gA 319 2.17e+01 1e9cA 215 2.17e+01 c.37.1.1 64808 1e9eA 215 2.19e+01 c.37.1.1 64810 1uiqA 351 2.28e+01 1v7cA 351 2.28e+01 c.79.1.1 -8512 1nn5A 215 2.30e+01 c.37.1.1 85892 1ggwA 140 2.30e+01 1ggwA a.39.1.5 60490 1nrvA 105 2.31e+01 d.93.1.1 86126 1sedA 117 2.31e+01 1lvfA 110 2.32e+01 a.47.2.1 74280 1kxqE 120 2.34e+01 b.1.1.1 73171 1cjsA 219 2.39e+01 1cjsA e.24.1.1 43354 1ermA 263 2.40e+01 1btl e.3.1.1 42690 1p9qC 256 2.47e+01 4icb 76 2.49e+01 4icb a.39.1.1 17145 1ea0A 1479 2.55e+01 b.80.4.1 64854 c.1.4.1 64855 d.153.1.1 64856 1mrj 247 2.56e+01 1mrj d.165.1.1 42177 1k0sA 151 2.57e+01 b.40.7.1 67969 1k4mA 213 2.60e+01 c.26.1.3 77258 1hztA 190 2.62e+01 1i9aA d.113.1.2 61459 1eq9A 222 2.65e+01 5ptp b.47.1.2 26068 1hfoA 113 2.69e+01 d.80.1.3 61006 1lfpA 249 2.74e+01 e.39.1.1 73885 1j3wA 163 2.74e+01 unknown_sccs -10870 1p9rA 418 2.78e+01 c.37.1.11 -7142 1sr9A 644 2.79e+01 1c7gA 456 2.83e+01 c.67.1.2 -8153 1vjpA 394 2.90e+01 c.2.1.3 -5897 d.81.1.3 -10480 4matA 278 2.93e+01 1c24A d.127.1.1 41150 1m40A 263 2.99e+01 e.3.1.1 74437 1ugiA 84 3.06e+01 1ugiA d.17.5.1 38125 1mb3A 124 3.07e+01 c.23.1.1 78907 1rro 108 3.09e+01 1a75A a.39.1.4 17195 2liv 344 3.19e+01 2liv c.93.1.1 35708 1m4uA 206 3.22e+01 g.17.1.7 78625 1mat 264 3.24e+01 1c24A d.127.1.1 41152 1gutA 68 3.25e+01 b.40.6.1 65576 1gc1H 229 3.35e+01 1gc1H b.1.1.1 20265 b.1.1.2 21265 1bvqA 141 3.37e+01 1bvqA d.38.1.1 38542 1ey2A 471 3.41e+01 1ey2A b.82.1.4 28116 1ixmB 192 3.48e+01 1ixmA d.123.1.1 41115 1lo7A 141 3.49e+01 d.38.1.1 74144 1cbf 285 3.50e+01 1cbf c.90.1.1 35587 1h97A 147 3.53e+01 1h97A a.1.1.2 60812 1cdp 109 3.53e+01 1a75A a.39.1.4 17197 1hkyA 86 3.55e+01 g.10.1.3 76714 1owqA 361 3.55e+01 1jbgA 109 3.59e+01 a.6.1.3 66480 4pep 326 3.59e+01 1smrA b.50.1.2 26843 1g57A 217 3.59e+01 1g57A d.115.1.2 60253 1btl 263 3.59e+01 1btl e.3.1.1 42691 1iyeA 309 3.60e+01 e.17.1.1 83786 1kbuA 349 3.67e+01 a.60.9.1 72284 d.163.1.1 72285 1q41A 424 3.74e+01 d.144.1.7 -11308 1lam 484 3.76e+01 1lam c.56.5.3 33829 c.50.1.1 33166 1pdo 135 3.86e+01 1pdo c.54.1.1 33376 1lap 488 3.93e+01 1lam c.56.5.3 33834 c.50.1.1 33171 1fybA 111 3.94e+01 4sgbI unknown_sccs 44726 unknown_sccs 44727 2fokA 579 3.96e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323