# List of top-scoring protein chains for t04-100-30-str2 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 5.64e-05 unknown_sccs -965 1v2zA 111 1.71e-03 1e2uA 553 5.08e-02 1e1dA e.26.1.1 43362 1gntA 553 5.08e-02 e.26.1.1 70290 1dvpA 220 1.28e-01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1sctB 151 1.45e-01 3sdhA a.1.1.2 15003 1hz4A 373 2.64e-01 a.118.8.2 65960 1cqxA 403 3.07e-01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1dlyA 164 3.25e-01 1dlyA a.1.1.1 14983 1kktA 511 3.34e-01 a.102.2.1 68687 1j8mF 297 3.34e-01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1j8yF 297 3.35e-01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1tlqA 189 3.86e-01 1on0A 158 4.19e-01 d.108.1.1 87095 1ay7B 89 4.30e-01 1ay7B c.9.1.1 30836 1sxjE 354 4.34e-01 1dceA 567 4.42e-01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1p49A 562 5.03e-01 c.76.1.2 -8432 1qusA 322 5.82e-01 1ltm d.2.1.6 36991 1iomA 377 5.88e-01 a.103.1.1 83698 1b0b 142 5.99e-01 2fal a.1.1.2 15010 1axn 323 6.05e-01 1avc a.65.1.1 18149 1sr7A 259 6.76e-01 1hbnA 549 7.66e-01 1mroA a.89.1.1 60898 d.58.31.2 60899 1fnnA 389 7.98e-01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1mroA 548 8.34e-01 1mroA a.89.1.1 18525 d.58.31.2 39443 1s9pA 227 8.35e-01 1a28A 256 9.38e-01 1a28A a.123.1.1 19290 3sdhA 146 9.64e-01 3sdhA a.1.1.2 14984 1lwdA 413 9.72e-01 c.77.1.1 78265 1iatA 557 9.74e-01 1dqrA c.80.1.2 62123 1gwiA 411 1.19e+00 a.104.1.1 76364 1aru 344 1.25e+00 1arv a.93.1.1 18589 1ufaA 520 1.32e+00 unknown_sccs -421 unknown_sccs -6065 1vkeA 133 1.46e+00 1aj8A 371 1.49e+00 1aj8A a.103.1.1 18900 1j7lA 264 1.60e+00 d.144.1.6 62697 1lycA 343 1.74e+00 a.93.1.1 74344 1tbmA 326 1.85e+00 1on2A 142 1.90e+00 a.4.5.24 87103 a.76.1.1 87104 1l7mA 211 2.00e+00 c.108.1.4 73664 1j97A 211 2.02e+00 1f5sA c.108.1.4 62753 2sas 185 2.38e+00 2sas a.39.1.5 17258 1ofcX 304 2.49e+00 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 1mzgA 146 2.57e+00 d.224.1.1 79696 1fo3A 460 2.61e+00 1dl2A a.102.2.1 18845 1o0uA 429 2.67e+00 c.118.1.1 80743 1b0nB 57 2.91e+00 1b0nB a.34.1.1 17002 1dkzA 219 3.02e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1rkeA 262 3.05e+00 a.24.9.1 -582 a.24.9.1 -583 1g73A 162 3.08e+00 1fewA a.7.4.1 16332 1keaA 221 3.16e+00 a.96.1.2 68491 1kx5A 135 3.23e+00 a.22.1.1 77593 1e5rA 290 3.30e+00 1e5rA b.82.2.4 59276 1g2nA 264 3.33e+00 1lbd a.123.1.1 60227 1kkhA 317 3.57e+00 d.14.1.5 72645 d.58.26.3 72646 1ks9A 291 3.63e+00 a.100.1.7 68857 c.2.1.6 68858 1jq5A 370 3.77e+00 e.22.1.2 67084 1qwoA 442 4.19e+00 1pw4A 451 4.32e+00 unknown_sccs -12259 1or7A 194 4.42e+00 a.4.13.2 87332 a.177.1.1 87333 1jvsA 400 4.66e+00 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1hu4A 288 4.80e+00 1hu4A 1n5dA 288 4.80e+00 c.2.1.2 80030 1hq3C 136 4.85e+00 1aoiA a.22.1.1 16454 1mi1A 414 4.91e+00 a.169.1.1 79137 b.55.1.6 79138 1ornA 226 5.09e+00 a.96.1.1 87342 2a0b 125 5.29e+00 2a0b a.24.10.1 16630 1pbwA 216 5.29e+00 1pbwA a.116.1.1 19103 1np3A 338 5.49e+00 a.100.1.2 85946 c.2.1.6 85947 1fds 327 5.73e+00 1fds c.2.1.2 29838 1no4A 97 5.82e+00 h.1.24.1 85918 1qjbA 245 5.95e+00 1qjaA a.118.7.1 19202 1q59A 172 6.19e+00 f.1.4.1 -12062 1n3kA 130 6.45e+00 a.77.1.4 79965 1jtvA 327 6.72e+00 c.2.1.2 84230 1a8h 500 6.79e+00 1a8h a.27.1.1 16922 c.26.1.1 31589 1hy0A 466 6.94e+00 1auwA a.127.1.1 61392 2mhr 118 7.01e+00 2mhr a.24.4.1 16581 1epwA 1290 7.06e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1qpaA 345 7.07e+00 1arv a.93.1.1 18585 1j2jB 45 7.09e+00 a.7.8.1 84017 1dqsA 393 7.29e+00 1dqsA e.22.1.1 43347 1r71A 178 7.49e+00 1nksA 194 8.17e+00 1nksA c.37.1.1 31886 5eau 548 8.22e+00 5eat a.102.4.1 18851 a.128.1.3 19443 1ihp 438 8.25e+00 1ihp c.60.1.2 33993 1rfzA 168 8.25e+00 unknown_sccs -1206 1d9cA 121 8.31e+00 1d9cA a.26.1.3 16901 1ho8A 480 9.03e+00 1ho8A a.118.1.9 61107 1dl2A 511 9.23e+00 1dl2A a.102.2.1 18844 1ps1A 337 9.43e+00 1ps1A a.128.1.4 19450 1ursA 402 9.49e+00 c.94.1.1 -8651 1rh5C 53 9.57e+00 unknown_sccs -12204 1uddA 226 9.62e+00 1fs7A 485 9.76e+00 1qdbA a.138.1.3 19691 1i27A 73 9.84e+00 1i27A a.4.5.30 61555 1o17A 345 1.05e+01 a.46.2.1 80765 c.27.1.1 80766 1eu8A 409 1.07e+01 1eu8A c.94.1.1 59502 1a8o 70 1.07e+01 1a8o a.28.3.1 16953 1qv1A 195 1.07e+01 a.39.1.5 -830 1rh5A 436 1.12e+01 unknown_sccs -12298 1kyqA 274 1.14e+01 c.2.1.11 73281 e.37.1.1 73282 1a9xA 1058 1.15e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1ng6A 148 1.15e+01 a.182.1.1 85670 1go3F 107 1.18e+01 a.60.8.2 65407 1qsdA 106 1.20e+01 1qsdA a.7.5.1 16335 1dvkA 173 1.20e+01 1dvkA a.72.1.1 18319 1jdhA 529 1.20e+01 a.118.1.1 66549 1e4iA 447 1.24e+01 1e70M c.1.8.4 59225 1dxrM 323 1.25e+01 6prcM f.26.1.1 43432 1ei1A 391 1.26e+01 1aj6 d.14.1.3 37570 d.122.1.2 41104 1l9hA 349 1.26e+01 f.13.1.2 73720 1odoA 408 1.27e+01 a.104.1.1 -1463 1hzxA 349 1.27e+01 1f88A f.13.1.2 61466 3tmkA 216 1.32e+01 3tmkA c.37.1.1 31920 1qs1A 462 1.37e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1o0xA 262 1.39e+01 d.127.1.1 80755 1sedA 117 1.40e+01 1mlwA 301 1.43e+01 d.178.1.1 79289 1llp 343 1.49e+01 1arv a.93.1.1 18578 1s3jA 155 1.50e+01 a.4.5.28 -227 2occE 109 1.52e+01 2occE a.118.11.1 19224 1jf2A 195 1.56e+01 1ej3A a.39.1.5 62930 1s35A 214 1.56e+01 a.7.1.1 -391 a.7.1.1 -392 1kbjA 412 1.58e+01 c.1.4.1 72280 1el4A 195 1.61e+01 1ej3A a.39.1.5 59453 1k3pA 426 1.62e+01 a.103.1.1 77237 1nogA 177 1.64e+01 a.25.2.2 85923 2tmnE 316 1.68e+01 1hyt d.92.1.2 59055 8tlnE 316 1.69e+01 1hyt d.92.1.2 59075 1j3vA 289 1.70e+01 a.100.1.1 -1303 c.2.1.6 -5947 1colA 204 1.71e+01 1a87 f.1.1.1 43378 1utg 70 1.72e+01 1utg a.101.1.1 18813 2utgA 70 1.78e+01 1utg a.101.1.1 18814 1kn1A 160 1.80e+01 a.1.1.3 77455 1spgA 144 1.80e+01 1abwA a.1.1.2 15409 1fkx 349 1.82e+01 1a4mA c.1.9.1 29018 1na3A 91 1.82e+01 k.38.1.1 85481 1qx2A 76 1.83e+01 1oe8A 211 1.84e+01 a.45.1.1 86905 c.47.1.5 86906 1ejxA 100 1.92e+01 d.8.1.1 83182 1a4mA 349 1.95e+01 1a4mA c.1.9.1 29014 1r9dA 787 1.96e+01 1kl1A 419 1.97e+01 c.67.1.4 72663 1mijA 152 1.98e+01 a.4.1.1 79150 1j09A 468 2.05e+01 a.97.1.1 77025 c.26.1.1 77026 1nvpB 57 2.06e+01 a.32.1.1 -779 1nm8A 616 2.06e+01 c.43.1.3 85872 c.43.1.3 85873 1v54E 109 2.10e+01 a.118.11.1 -1652 1qcwA 410 2.14e+01 1gox c.1.4.1 28622 1i7wA 538 2.14e+01 3bct a.118.1.1 61909 1oeqA 418 2.15e+01 1g6uA 48 2.18e+01 1g6uA k.9.1.1 46425 1allA 160 2.20e+01 1qgwC a.1.1.3 15647 1j33A 335 2.25e+01 c.39.1.1 77069 1khdA 345 2.27e+01 a.46.2.1 77400 c.27.1.1 77401 1vjuA 309 2.30e+01 unknown_sccs -9594 1ek4A 418 2.38e+01 1dd8A c.95.1.1 59436 c.95.1.1 59437 1dar 691 2.39e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1m7vA 363 2.40e+01 d.174.1.1 78748 1rw2A 152 2.40e+01 unknown_sccs -1645 1ee4A 423 2.49e+01 1ee4A a.118.1.1 19128 1a7w 69 2.49e+01 1a7w a.22.1.2 16477 1sig 339 2.49e+01 1sig a.177.1.1 19068 1fn9A 365 2.53e+01 1fn9A d.196.1.1 59894 1mun 225 2.61e+01 1mun a.96.1.2 18744 1k1vA 41 2.64e+01 a.37.1.1 71999 1b67A 68 2.68e+01 1a7w a.22.1.2 16474 1dmhA 311 2.72e+01 1dmhA b.3.6.1 22633 1gv3A 248 2.80e+01 a.2.11.1 70585 d.44.1.1 70586 1t1dA 100 2.82e+01 1t1dA d.42.1.2 38637 1srqA 341 2.85e+01 1ni4A 365 2.87e+01 c.36.1.7 85728 1exrA 148 2.93e+01 1cll a.39.1.5 17299 1o1yA 239 2.95e+01 c.23.16.1 86554 1qc7A 101 2.97e+01 1qc7A a.118.14.1 18456 1ewqA 765 3.00e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1m6kA 251 3.00e+01 e.3.1.1 78695 1rfmA 344 3.01e+01 c.122.1.1 -8032 1bjt 793 3.03e+01 1bjt e.11.1.1 43249 1pv9A 348 3.07e+01 c.55.2.1 -7610 d.127.1.1 -11000 1mba 147 3.10e+01 2fal a.1.1.2 15149 1g55A 343 3.12e+01 1g55A c.66.1.26 34247 1n1jA 93 3.12e+01 a.22.1.3 79813 6gsvA 217 3.13e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 1qwgA 251 3.14e+01 unknown_sccs -5678 1v7oA 165 3.14e+01 unknown_sccs -10249 1cnt1 187 3.21e+01 1cnt3 1mv8A 436 3.23e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1k7wA 468 3.25e+01 a.127.1.1 72130 1jwgA 147 3.25e+01 a.118.9.2 71911 1ujkA 147 3.26e+01 a.118.9.2 -1623 1aep 161 3.29e+01 1aep a.63.1.1 18139 1oq9A 363 3.30e+01 a.25.1.2 87257 1ax4A 467 3.34e+01 1ax4A c.67.1.2 34391 1owcA 427 3.35e+01 1m12A 84 3.45e+01 a.64.1.1 84745 1nxhA 126 3.48e+01 unknown_sccs -1239 1o4uA 285 3.49e+01 c.1.17.1 86624 d.41.2.1 86625 1paqA 189 3.52e+01 unknown_sccs -1557 1ic8A 194 3.56e+01 a.4.1.1 76740 a.35.1.1 76741 1vkmA 297 3.57e+01 1ugpA 203 3.58e+01 1ireA 204 3.58e+01 d.149.1.1 76769 1us6A 102 3.60e+01 1ockA 412 3.63e+01 c.117.1.1 86802 1qq7A 253 3.67e+01 1qq5A c.108.1.1 43329 1rypJ 204 3.70e+01 d.153.1.4 41878 1dseA 292 3.79e+01 1ryc a.93.1.1 59130 1a76 326 3.81e+01 1a76 a.60.7.1 18091 c.120.1.2 33361 1jdrA 294 3.81e+01 1ryc a.93.1.1 62908 1amuA 563 3.86e+01 1amuA e.23.1.1 43351 1m7sA 484 3.87e+01 e.5.1.1 74574 1nznA 126 3.90e+01 a.118.8.1 -1616 1qmgA 524 3.90e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1kmiZ 214 3.90e+01 h.4.11.1 72752 1csh 435 3.91e+01 1csh a.103.1.1 18880 2ezh 75 3.94e+01 2ezh a.4.1.2 16029 1oahA 519 3.97e+01 a.138.1.3 86736