# List of top-scoring protein chains for t04-100-30-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 3.19e-03 1ncx a.39.1.5 17223 1e0cA 271 6.13e-02 1e0cA c.46.1.2 32717 c.46.1.2 32718 1s29A 92 7.64e-02 unknown_sccs -315 1f6yA 262 8.62e-02 1f6yA c.1.21.2 29673 1ggzA 148 2.69e-01 a.39.1.5 70176 2sas 185 3.11e-01 2sas a.39.1.5 17258 1efyA 350 3.14e-01 1a26 a.41.1.1 17413 d.166.1.2 42275 1p9kA 79 5.88e-01 unknown_sccs -10238 1bmqB 88 1.24e+00 1pauB 2polA 366 1.33e+00 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1aerA 205 1.38e+00 1aerA d.166.1.1 42249 1mmiA 366 1.49e+00 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1g2iA 166 1.56e+00 1g2iA c.23.16.2 31438 1ok7A 366 1.60e+00 1qniA 581 1.70e+00 1qniA b.6.1.4 23042 b.69.3.1 27642 1k4iA 233 1.79e+00 d.115.1.2 72056 1gnlA 544 2.00e+00 e.26.1.1 70287 1kgdA 180 2.09e+00 c.37.1.1 68582 3psg 370 2.29e+00 1smrA b.50.1.2 26841 1kjwA 295 2.38e+00 b.34.2.1 68643 c.37.1.1 68644 1n25A 368 2.40e+00 c.37.1.20 85264 1auiB 169 2.42e+00 1auiB a.39.1.5 17325 1i1kA 309 2.48e+00 1daaA e.17.1.1 61533 1eg5A 384 2.49e+00 1ecxA c.67.1.3 34429 1hfuA 503 2.65e+00 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1npyA 271 2.65e+00 c.2.1.7 85995 c.58.1.5 85996 1wdcB 156 2.68e+00 1wdcB a.39.1.5 17302 1i2aA 219 2.71e+00 e.24.1.1 -12012 1lfpA 249 2.87e+00 e.39.1.1 73885 1f4qA 165 2.87e+00 1alvA a.39.1.8 17360 1cbf 285 3.13e+00 1cbf c.90.1.1 35587 1g4yR 148 3.35e+00 1cll a.39.1.5 60252 1exrA 148 3.38e+00 1cll a.39.1.5 17299 1hv9A 456 3.44e+00 1fwyA b.81.1.4 28060 c.68.1.5 34518 1fxjA 331 3.53e+00 1fwyA b.81.1.4 28062 c.68.1.5 34520 1avsA 90 3.59e+00 1cll a.39.1.5 17226 1k94A 165 3.84e+00 a.39.1.8 68333 1a65A 504 4.00e+00 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1mu5A 471 4.12e+00 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1q0uA 219 4.20e+00 c.37.1.19 -7205 1vi2A 300 4.20e+00 c.2.1.7 -5960 c.58.1.5 -6366 1n0wA 243 4.51e+00 c.37.1.11 79772 1nxiA 132 4.75e+00 d.58.47.1 86381 1iyeA 309 4.98e+00 e.17.1.1 83786 1h6lA 353 5.23e+00 b.68.3.1 60687 1nhkL 144 5.27e+00 1npk d.58.6.1 39142 1s4qA 228 5.43e+00 c.37.1.1 -6975 1b6rA 355 5.59e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1kk8B 139 5.72e+00 a.39.1.5 77430 1gvnA 90 5.76e+00 a.8.2.1 76353 1k9uA 78 5.84e+00 a.39.1.10 84348 1g57A 217 6.31e+00 1g57A d.115.1.2 60253 1se0A 116 6.33e+00 g.52.1.1 -12841 1nt4A 391 6.64e+00 c.60.1.2 -7942 1rwyA 109 6.87e+00 a.39.1.4 -825 1qtwA 285 6.90e+00 1qumA c.1.15.1 29392 1oi7A 288 6.97e+00 c.2.1.8 87049 c.23.4.1 87050 1fezA 256 6.98e+00 1fezA c.108.1.3 43343 2fokA 579 7.24e+00 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1cot 129 7.72e+00 1ycc a.3.1.1 15899 1rqlA 267 7.79e+00 c.108.1.3 -6814 2pooA 355 7.92e+00 1qlgA b.68.3.1 27626 1s96A 219 8.20e+00 c.37.1.1 -6972 1a99A 344 8.35e+00 1pot c.94.1.1 35812 1a4iA 301 8.58e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1ikpA 613 8.73e+00 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1knwA 425 9.09e+00 b.49.2.3 -4274 c.1.6.1 -5229 1qwoA 442 9.14e+00 1kwmA 402 9.17e+00 c.56.5.1 73079 d.58.3.1 73080 1gmxA 108 9.48e+00 c.46.1.3 65355 1bj4A 470 9.78e+00 1bj4A c.67.1.4 34479 1e2fA 215 1.07e+01 3tmkA c.37.1.1 59164 1nf2A 268 1.08e+01 c.108.1.10 -6842 1k4mA 213 1.09e+01 c.26.1.3 77258 1dqeA 137 1.13e+01 1dqeA a.39.2.1 17388 1np6A 174 1.16e+01 c.37.1.10 85954 1e2gA 215 1.17e+01 3tmkA c.37.1.1 59165 1nn5A 215 1.19e+01 c.37.1.1 85892 1i4mA 108 1.21e+01 d.6.1.1 66025 1h65A 270 1.25e+01 c.37.1.8 65640 1dt9A 437 1.34e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1hqkA 154 1.37e+01 c.16.1.1 65902 1bt0A 76 1.37e+01 1ubi d.15.1.1 37607 1jhfA 202 1.38e+01 a.4.5.2 63057 b.87.1.1 63058 1g8mA 593 1.47e+01 1g8mA c.24.1.3 60371 c.97.2.1 60372 1qtrA 317 1.49e+01 1qtrA c.69.1.7 34660 1szwA 379 1.55e+01 unknown_sccs -10164 2liv 344 1.58e+01 2liv c.93.1.1 35708 1oqcA 125 1.58e+01 a.24.15.1 87264 1ihbA 162 1.64e+01 1bd8 d.211.1.1 19161 1sdsA 117 1.65e+01 1f02T 66 1.72e+01 1f02T j.67.1.1 46360 1qdeA 224 1.76e+01 1qvaA c.37.1.19 32410 1iyxA 432 1.77e+01 c.1.11.1 83815 d.54.1.1 83816 1b0uA 262 1.77e+01 1b0uA c.37.1.12 32370 1kbvA 327 1.78e+01 b.6.1.3 68395 b.6.1.3 68396 1jakA 512 1.84e+01 c.1.8.6 66472 d.92.2.1 66473 1s6cA 183 1.88e+01 a.39.1.5 -858 1owqA 361 1.99e+01 1wdcC 156 1.99e+01 1wdcC a.39.1.5 17317 1mdc 133 1.99e+01 1hmt b.60.1.2 27198 1hztA 190 2.03e+01 1i9aA d.113.1.2 61459 1gky 187 2.03e+01 1gky c.37.1.1 31839 1ex7A 186 2.04e+01 1gky c.37.1.1 59537 1j3wA 163 2.08e+01 unknown_sccs -10870 1sedA 117 2.11e+01 1nmeB 92 2.12e+01 3cla 213 2.15e+01 3cla c.43.1.1 32610 4pep 326 2.17e+01 1smrA b.50.1.2 26843 1j4aA 333 2.18e+01 c.2.1.4 71502 c.23.12.1 71503 1fsz 372 2.19e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1wdnA 226 2.27e+01 1lst c.94.1.1 35816 1a7w 69 2.28e+01 1a7w a.22.1.2 16477 1wm1A 317 2.29e+01 1nd7A 374 2.32e+01 d.148.1.1 -11394 1apyB 141 2.32e+01 1apyB 1sw6A 327 2.32e+01 1sw6A d.211.1.1 19176 1f46A 140 2.33e+01 1f46A d.129.4.1 59643 1m6yA 301 2.37e+01 a.60.13.1 78716 c.66.1.23 78717 1fu1A 203 2.38e+01 1fu1B b.59.1.1 27076 h.1.11.1 45630 1ema 236 2.38e+01 1ema d.22.1.1 38339 1k7hA 476 2.50e+01 c.76.1.1 72101 1rv3A 483 2.54e+01 1cm9A 74 2.54e+01 1b3aA d.9.1.1 37405 1s5dA 240 2.55e+01 d.166.1.1 -11563 1ae7 119 2.60e+01 1poa a.133.1.2 19553 1hk9A 74 2.63e+01 b.38.1.2 83541 1on2A 142 2.63e+01 a.4.5.24 87103 a.76.1.1 87104 1t5eA 360 2.74e+01 1j2gA 319 2.77e+01 1bgp 309 2.81e+01 1bgp a.93.1.1 18690 1o8bA 219 2.83e+01 unknown_sccs 81180 d.58.40.1 81181 1f66C 128 2.84e+01 1aoiC a.22.1.1 16442 1iy8A 267 2.85e+01 c.2.1.2 83774 1i8dA 213 2.85e+01 b.43.4.3 61953 b.43.4.3 61954 1k0sA 151 2.92e+01 b.40.7.1 67969 1dqzA 280 3.11e+01 1dqyA c.69.1.3 34638 1memA 215 3.12e+01 1cs8A d.3.1.1 37069 1hd2A 161 3.16e+01 c.47.1.10 60962 1m1nB 522 3.18e+01 c.92.2.3 78418 1p42A 270 3.20e+01 d.14.1.7 87754 d.14.1.7 87755 1bxyA 60 3.27e+01 1bxyA d.59.1.1 39525 1jlnA 297 3.32e+01 1pty c.45.1.2 63172 1r0vA 305 3.33e+01 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1e5mA 416 3.38e+01 1dd8A c.95.1.1 58973 c.95.1.1 58974 1ik9A 213 3.38e+01 b.59.1.1 66176 h.1.11.1 66177 1oi2A 366 3.41e+01 c.32.1.2 87039 d.79.2.2 87040 1bif 469 3.46e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1gd0A 122 3.55e+01 1dptA d.80.1.3 39834 1jyoA 130 3.57e+01 d.198.1.1 67483 1a4yA 460 3.57e+01 1a4yA c.10.1.1 30852 2hipA 72 3.58e+01 g.35.1.1 44991 1oxdA 227 3.62e+01 d.22.1.1 -9438 1el4A 195 3.69e+01 1ej3A a.39.1.5 59453 1vjpA 394 3.69e+01 c.2.1.3 -5897 d.81.1.3 -10480 1o0uA 429 3.72e+01 c.118.1.1 80743 1ub3A 220 3.74e+01 c.1.10.1 88395 1pwbA 177 3.75e+01 d.169.1.1 -11641 h.1.1.1 -12890 1b9hA 388 3.78e+01 1b9hA c.67.1.4 34488 1g5hA 454 3.88e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1dv1A 449 3.88e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1m6dA 214 3.92e+01 d.3.1.1 84849 1g3qA 237 3.98e+01 1hyqA c.37.1.10 60237