# List of top-scoring protein chains for t04-100-30-bys 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 1r5qA 102 1.77e-04 unknown_sccs -965 1v2zA 111 1.18e-02 1gwiA 411 2.64e-01 a.104.1.1 76364 1kktA 511 2.86e-01 a.102.2.1 68687 3sdhA 146 3.27e-01 3sdhA a.1.1.2 14984 1ufaA 520 3.41e-01 unknown_sccs -421 unknown_sccs -6065 1tlqA 189 3.62e-01 1dvpA 220 4.32e-01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1b0b 142 4.33e-01 2fal a.1.1.2 15010 1sctB 151 4.80e-01 3sdhA a.1.1.2 15003 1dlyA 164 6.29e-01 1dlyA a.1.1.1 14983 1sr7A 259 6.90e-01 1s9pA 227 8.95e-01 1ay7B 89 1.05e+00 1ay7B c.9.1.1 30836 1dceA 567 1.15e+00 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1sxjE 354 1.18e+00 1mzgA 146 1.27e+00 d.224.1.1 79696 1omwA 689 1.33e+00 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1p49A 562 1.51e+00 c.76.1.2 -8432 1a28A 256 1.58e+00 1a28A a.123.1.1 19290 1b0nB 57 1.68e+00 1b0nB a.34.1.1 17002 1j8mF 297 1.82e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1hz4A 373 2.45e+00 a.118.8.2 65960 1j8yF 297 2.46e+00 1ng1 a.24.13.1 62747 c.37.1.10 62748 1o17A 345 2.47e+00 a.46.2.1 80765 c.27.1.1 80766 1mroA 548 2.53e+00 1mroA a.89.1.1 18525 d.58.31.2 39443 1hbnA 549 2.56e+00 1mroA a.89.1.1 60898 d.58.31.2 60899 1fo3A 460 2.59e+00 1dl2A a.102.2.1 18845 1spgA 144 2.89e+00 1abwA a.1.1.2 15409 1no4A 97 3.17e+00 h.1.24.1 85918 1iomA 377 3.22e+00 a.103.1.1 83698 1o0uA 429 3.35e+00 c.118.1.1 80743 1jdhA 529 3.57e+00 a.118.1.1 66549 1ofcX 304 3.58e+00 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 1e5rA 290 3.59e+00 1e5rA b.82.2.4 59276 1lfb 99 3.88e+00 1lfb a.4.1.1 15989 1a8h 500 4.00e+00 1a8h a.27.1.1 16922 c.26.1.1 31589 1j7lA 264 4.00e+00 d.144.1.6 62697 1e2uA 553 4.12e+00 1e1dA e.26.1.1 43362 1ks9A 291 4.14e+00 a.100.1.7 68857 c.2.1.6 68858 1qusA 322 4.21e+00 1ltm d.2.1.6 36991 1gntA 553 4.38e+00 e.26.1.1 70290 1ihp 438 4.54e+00 1ihp c.60.1.2 33993 1qpaA 345 4.54e+00 1arv a.93.1.1 18585 1kw4A 89 4.85e+00 a.60.1.2 73077 1rw2A 152 5.28e+00 unknown_sccs -1645 1aj8A 371 5.40e+00 1aj8A a.103.1.1 18900 1qi9A 556 5.45e+00 1qhbA a.111.1.2 19053 1np3A 338 5.85e+00 a.100.1.2 85946 c.2.1.6 85947 5csmA 256 5.89e+00 5csmA a.130.1.2 19494 1nogA 177 5.93e+00 a.25.2.2 85923 1aru 344 6.30e+00 1arv a.93.1.1 18589 1kpsB 171 6.42e+00 a.118.12.1 68787 1or7A 194 6.72e+00 a.4.13.2 87332 a.177.1.1 87333 1tbmA 326 7.02e+00 1i7wA 538 7.13e+00 3bct a.118.1.1 61909 1d9cA 121 7.33e+00 1d9cA a.26.1.3 16901 1qs1A 462 7.39e+00 1qs1A d.166.1.1 42260 d.166.1.1 42261 1i27A 73 7.40e+00 1i27A a.4.5.30 61555 1owcA 427 7.52e+00 1bjt 793 7.92e+00 1bjt e.11.1.1 43249 1vkeA 133 8.31e+00 1g2nA 264 8.64e+00 1lbd a.123.1.1 60227 1lycA 343 9.14e+00 a.93.1.1 74344 2sas 185 9.14e+00 2sas a.39.1.5 17258 1rh5C 53 9.17e+00 unknown_sccs -12204 1l7mA 211 9.26e+00 c.108.1.4 73664 1hr6A 475 9.34e+00 1hr6A d.185.1.1 61164 d.185.1.1 61165 1dzkA 157 9.55e+00 1obpA b.60.1.1 27096 1i37A 260 9.85e+00 1a28A a.123.1.1 61583 1uedA 406 1.04e+01 a.104.1.1 -1459 1mi1A 414 1.04e+01 a.169.1.1 79137 b.55.1.6 79138 2mhr 118 1.05e+01 2mhr a.24.4.1 16581 1llp 343 1.07e+01 1arv a.93.1.1 18578 1r71A 178 1.08e+01 1nvpB 57 1.09e+01 a.32.1.1 -779 2occE 109 1.18e+01 2occE a.118.11.1 19224 1qgrA 876 1.19e+01 1qgrA a.118.1.1 19119 1n0uA 842 1.19e+01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1j97A 211 1.26e+01 1f5sA c.108.1.4 62753 1o1yA 239 1.27e+01 c.23.16.1 86554 1a4mA 349 1.30e+01 1a4mA c.1.9.1 29014 1pbwA 216 1.39e+01 1pbwA a.116.1.1 19103 1iatA 557 1.39e+01 1dqrA c.80.1.2 62123 1gakA 141 1.40e+01 1gakA a.19.1.1 16415 1fkx 349 1.42e+01 1a4mA c.1.9.1 29018 2a0b 125 1.49e+01 2a0b a.24.10.1 16630 1ca1 370 1.49e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1m7vA 363 1.56e+01 d.174.1.1 78748 1nnwA 252 1.62e+01 d.159.1.5 80674 1fm2A 169 1.63e+01 1fm2A d.153.1.2 59877 3tmkA 216 1.68e+01 3tmkA c.37.1.1 31920 1or0A 160 1.69e+01 d.153.1.2 -11415 1k3pA 426 1.70e+01 a.103.1.1 77237 1huw 166 1.71e+01 1huw a.26.1.1 16831 1ntyA 311 1.80e+01 1a6q 382 1.83e+01 1a6q a.159.1.1 75801 d.219.1.1 75802 1fnnA 389 1.85e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1rqjA 299 1.90e+01 a.128.1.1 -1774 1epwA 1290 1.92e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1nw1A 429 1.93e+01 d.144.1.8 86286 1j2jB 45 1.96e+01 a.7.8.1 84017 1kx5A 135 2.02e+01 a.22.1.1 77593 1on0A 158 2.05e+01 d.108.1.1 87095 1on2A 142 2.06e+01 a.4.5.24 87103 a.76.1.1 87104 1ov2A 99 2.07e+01 a.13.1.1 -457 1go3F 107 2.15e+01 a.60.8.2 65407 1lehA 364 2.16e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1v4xA 144 2.18e+01 1sedA 117 2.20e+01 1s35A 214 2.21e+01 a.7.1.1 -391 a.7.1.1 -392 1jtvA 327 2.25e+01 c.2.1.2 84230 1ei1A 391 2.27e+01 1aj6 d.14.1.3 37570 d.122.1.2 41104 1pq1A 196 2.28e+01 f.1.4.1 -12055 1kaeA 434 2.28e+01 c.82.1.2 72247 1mhqA 148 2.36e+01 a.118.9.2 84973 1fkqA 124 2.39e+01 3lzt d.2.1.2 36601 1ockA 412 2.41e+01 c.117.1.1 86802 1cqxA 403 2.41e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1kyqA 274 2.48e+01 c.2.1.11 73281 e.37.1.1 73282 1s3jA 155 2.49e+01 a.4.5.28 -227 1or4A 178 2.53e+01 a.1.1.2 -91 1jvsA 400 2.54e+01 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1em9A 154 2.55e+01 1d1dA a.73.1.1 18333 1rfmA 344 2.60e+01 c.122.1.1 -8032 1k04A 162 2.62e+01 a.24.14.1 67904 1kv9A 668 2.66e+01 a.3.1.6 73056 b.70.1.1 73057 1kkhA 317 2.70e+01 d.14.1.5 72645 d.58.26.3 72646 1e4iA 447 2.79e+01 1e70M c.1.8.4 59225 1ni4A 365 2.79e+01 c.36.1.7 85728 1uw4B 248 2.81e+01 unknown_sccs -1560 1rypJ 204 2.88e+01 d.153.1.4 41878 1mlwA 301 2.88e+01 d.178.1.1 79289 1rkeA 262 2.89e+01 a.24.9.1 -582 a.24.9.1 -583 1dmuA 299 2.90e+01 1dmuA c.52.1.4 33294 1o4uA 285 3.03e+01 c.1.17.1 86624 d.41.2.1 86625 1dxsA 80 3.07e+01 1cokA a.60.1.2 17944 1hq3D 103 3.10e+01 1aoiB a.22.1.1 16464 1neyA 247 3.15e+01 c.1.1.1 80449 1g73A 162 3.16e+01 1fewA a.7.4.1 16332 1i3dA 146 3.17e+01 a.1.1.2 61587 1ursA 402 3.18e+01 c.94.1.1 -8651 1czaN 917 3.22e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1hlb 158 3.24e+01 1hlb a.1.1.2 15625 1ecmA 109 3.27e+01 1ecmA a.130.1.1 19492 1nu5A 370 3.27e+01 c.1.11.2 -5565 d.54.1.1 -9823 1ku3A 73 3.30e+01 a.4.13.2 73000 1rfzA 168 3.34e+01 unknown_sccs -1206 1v7oA 165 3.35e+01 unknown_sccs -10249 1jq5A 370 3.36e+01 e.22.1.2 67084 1qc7A 101 3.41e+01 1qc7A a.118.14.1 18456 1dkgA 197 3.43e+01 1dkgA b.73.1.1 27812 h.1.9.1 45626 1r9dA 787 3.44e+01 1q4mA 221 3.46e+01 unknown_sccs -1910 1pmi 440 3.52e+01 1pmi b.82.1.3 28114 1kdgA 546 3.55e+01 c.3.1.2 77337 d.16.1.1 77338 1qwoA 442 3.56e+01 1r1dA 247 3.70e+01 unknown_sccs -8335 1fds 327 3.78e+01 1fds c.2.1.2 29838 1ezvA 430 3.93e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1v54E 109 3.93e+01 a.118.11.1 -1652 1m3wA 32 3.97e+01 k.8.1.1 78575 1qmgA 524 3.98e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182