# List of top-scoring protein chains for t04-100-30-alpha 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 5.57e-05 unknown_sccs -965 1v2zA 111 8.04e-04 1tlqA 189 1.02e-01 1gwiA 411 1.59e-01 a.104.1.1 76364 1dvpA 220 2.43e-01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1dlyA 164 2.55e-01 1dlyA a.1.1.1 14983 1aj8A 371 2.79e-01 1aj8A a.103.1.1 18900 1b0b 142 3.85e-01 2fal a.1.1.2 15010 1hbnA 549 4.04e-01 1mroA a.89.1.1 60898 d.58.31.2 60899 1mroA 548 4.08e-01 1mroA a.89.1.1 18525 d.58.31.2 39443 1rfzA 168 6.49e-01 unknown_sccs -1206 1qusA 322 9.71e-01 1ltm d.2.1.6 36991 1j8yF 297 1.01e+00 1ng1 a.24.13.1 62747 c.37.1.10 62748 1fo3A 460 1.04e+00 1dl2A a.102.2.1 18845 1kktA 511 1.04e+00 a.102.2.1 68687 1j8mF 297 1.11e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1ufaA 520 1.12e+00 unknown_sccs -421 unknown_sccs -6065 1fnnA 389 1.15e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1jdhA 529 1.24e+00 a.118.1.1 66549 1no4A 97 1.34e+00 h.1.24.1 85918 1p49A 562 1.55e+00 c.76.1.2 -8432 1uedA 406 1.62e+00 a.104.1.1 -1459 1sctB 151 1.65e+00 3sdhA a.1.1.2 15003 1pbwA 216 1.66e+00 1pbwA a.116.1.1 19103 1b0nB 57 1.72e+00 1b0nB a.34.1.1 17002 1iomA 377 1.81e+00 a.103.1.1 83698 1i7wA 538 1.89e+00 3bct a.118.1.1 61909 1vkeA 133 1.93e+00 1or7A 194 2.09e+00 a.4.13.2 87332 a.177.1.1 87333 1on2A 142 2.35e+00 a.4.5.24 87103 a.76.1.1 87104 1a28A 256 2.38e+00 1a28A a.123.1.1 19290 1ihp 438 2.41e+00 1ihp c.60.1.2 33993 1cqxA 403 2.50e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1kaeA 434 2.50e+00 c.82.1.2 72247 1sxjE 354 2.55e+00 1s9pA 227 2.57e+00 1gntA 553 2.85e+00 e.26.1.1 70290 1a4mA 349 2.86e+00 1a4mA c.1.9.1 29014 1on0A 158 2.87e+00 d.108.1.1 87095 1o0uA 429 2.94e+00 c.118.1.1 80743 1ofcX 304 3.06e+00 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 1qc7A 101 3.09e+00 1qc7A a.118.14.1 18456 3sdhA 146 3.11e+00 3sdhA a.1.1.2 14984 1tbmA 326 3.12e+00 1fkx 349 3.22e+00 1a4mA c.1.9.1 29018 1e2uA 553 3.25e+00 1e1dA e.26.1.1 43362 1aru 344 3.29e+00 1arv a.93.1.1 18589 1mzgA 146 3.66e+00 d.224.1.1 79696 1j7lA 264 3.76e+00 d.144.1.6 62697 1n2aA 201 3.94e+00 a.45.1.1 -938 c.47.1.5 -7463 1omwA 689 3.98e+00 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1neyA 247 4.03e+00 c.1.1.1 80449 1sr7A 259 4.21e+00 1nogA 177 4.26e+00 a.25.2.2 85923 1mi1A 414 4.38e+00 a.169.1.1 79137 b.55.1.6 79138 1s35A 214 4.63e+00 a.7.1.1 -391 a.7.1.1 -392 2mhr 118 4.65e+00 2mhr a.24.4.1 16581 1hz4A 373 4.82e+00 a.118.8.2 65960 1hr6A 475 4.83e+00 1hr6A d.185.1.1 61164 d.185.1.1 61165 1epwA 1290 4.93e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1i45A 248 4.98e+00 1amk c.1.1.1 61665 1lycA 343 5.15e+00 a.93.1.1 74344 1d9cA 121 5.23e+00 1d9cA a.26.1.3 16901 1rh5C 53 5.26e+00 unknown_sccs -12204 1a0fA 201 5.29e+00 1a0fA a.45.1.1 17737 c.47.1.5 33031 1qsdA 106 5.30e+00 1qsdA a.7.5.1 16335 1qpaA 345 5.84e+00 1arv a.93.1.1 18585 2sas 185 5.98e+00 2sas a.39.1.5 17258 1o17A 345 5.99e+00 a.46.2.1 80765 c.27.1.1 80766 1kyqA 274 6.10e+00 c.2.1.11 73281 e.37.1.1 73282 1keaA 221 6.24e+00 a.96.1.2 68491 1e5rA 290 6.84e+00 1e5rA b.82.2.4 59276 1ca1 370 6.88e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1dzkA 157 6.95e+00 1obpA b.60.1.1 27096 1g73A 162 7.13e+00 1fewA a.7.4.1 16332 1lfkA 398 7.71e+00 a.104.1.1 77926 1nd4A 264 7.76e+00 d.144.1.6 -11381 1dceA 567 7.85e+00 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 2ccyA 128 7.90e+00 2ccyA a.24.3.2 16544 1llp 343 8.38e+00 1arv a.93.1.1 18578 1csh 435 8.40e+00 1csh a.103.1.1 18880 1m1zA 513 8.65e+00 c.26.2.1 78457 d.153.1.1 78458 1iatA 557 9.06e+00 1dqrA c.80.1.2 62123 1r71A 178 9.15e+00 1n40A 396 9.38e+00 a.104.1.1 79977 1ks9A 291 9.51e+00 a.100.1.7 68857 c.2.1.6 68858 1n5dA 288 1.03e+01 c.2.1.2 80030 1hu4A 288 1.03e+01 1hu4A 1np3A 338 1.07e+01 a.100.1.2 85946 c.2.1.6 85947 1nvpB 57 1.08e+01 a.32.1.1 -779 2a0b 125 1.12e+01 2a0b a.24.10.1 16630 1ay7B 89 1.12e+01 1ay7B c.9.1.1 30836 1m6kA 251 1.16e+01 e.3.1.1 78695 1lfb 99 1.16e+01 1lfb a.4.1.1 15989 1dynA 125 1.17e+01 1dynA b.55.1.1 26955 1go3F 107 1.17e+01 a.60.8.2 65407 1colA 204 1.17e+01 1a87 f.1.1.1 43378 1em9A 154 1.20e+01 1d1dA a.73.1.1 18333 1s3jA 155 1.21e+01 a.4.5.28 -227 1us6A 102 1.23e+01 1pf5A 131 1.26e+01 d.79.1.1 -10368 1ornA 226 1.27e+01 a.96.1.1 87342 1idrA 136 1.28e+01 1dlyA a.1.1.1 62301 1m12A 84 1.33e+01 a.64.1.1 84745 1q4mA 221 1.34e+01 unknown_sccs -1910 1k3pA 426 1.42e+01 a.103.1.1 77237 5csmA 256 1.46e+01 5csmA a.130.1.2 19494 1uzxA 169 1.47e+01 d.20.1.2 -9409 1fds 327 1.47e+01 1fds c.2.1.2 29838 1ei1A 391 1.56e+01 1aj6 d.14.1.3 37570 d.122.1.2 41104 3tmkA 216 1.57e+01 3tmkA c.37.1.1 31920 1o4uA 285 1.62e+01 c.1.17.1 86624 d.41.2.1 86625 1h97A 147 1.62e+01 1h97A a.1.1.2 60812 1kx5A 135 1.64e+01 a.22.1.1 77593 1b67A 68 1.66e+01 1a7w a.22.1.2 16474 1q4rA 112 1.68e+01 d.58.4.4 -9943 1mhqA 148 1.69e+01 a.118.9.2 84973 1nnvA 110 1.80e+01 unknown_sccs -9309 1jdrA 294 1.82e+01 1ryc a.93.1.1 62908 1gakA 141 1.83e+01 1gakA a.19.1.1 16415 1or0A 160 1.84e+01 d.153.1.2 -11415 1g2nA 264 1.85e+01 1lbd a.123.1.1 60227 2occI 73 1.86e+01 2occI f.23.3.1 43523 1no5A 114 1.87e+01 unknown_sccs -9785 1oeqA 418 1.88e+01 1rqjA 299 1.89e+01 a.128.1.1 -1774 1tx4A 198 1.90e+01 1tx4A a.116.1.1 19098 1na3A 91 1.94e+01 k.38.1.1 85481 1l7mA 211 1.94e+01 c.108.1.4 73664 1kpsB 171 1.94e+01 a.118.12.1 68787 1fm2A 169 1.96e+01 1fm2A d.153.1.2 59877 1kkhA 317 1.98e+01 d.14.1.5 72645 d.58.26.3 72646 1i27A 73 1.99e+01 1i27A a.4.5.30 61555 1gkzA 388 2.00e+01 a.29.5.1 65268 d.122.1.4 65269 1m7vA 363 2.02e+01 d.174.1.1 78748 1qmgA 524 2.02e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1rw2A 152 2.03e+01 unknown_sccs -1645 1kiyA 374 2.05e+01 a.128.1.5 72555 1hq3D 103 2.06e+01 1aoiB a.22.1.1 16464 5eau 548 2.08e+01 5eat a.102.4.1 18851 a.128.1.3 19443 1jtvA 327 2.15e+01 c.2.1.2 84230 1kw4A 89 2.16e+01 a.60.1.2 73077 1huw 166 2.17e+01 1huw a.26.1.1 16831 1dl2A 511 2.20e+01 1dl2A a.102.2.1 18844 1allA 160 2.21e+01 1qgwC a.1.1.3 15647 1j2jB 45 2.22e+01 a.7.8.1 84017 1rp4A 389 2.23e+01 1foeA 377 2.29e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1odoA 408 2.33e+01 a.104.1.1 -1463 1rypJ 204 2.37e+01 d.153.1.4 41878 1h2rL 534 2.40e+01 1h2rL e.18.1.1 43298 1jpzA 473 2.40e+01 a.104.1.1 67069 1or4A 178 2.46e+01 a.1.1.2 -91 1jvsA 400 2.46e+01 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1lrv 244 2.48e+01 1lrv a.118.1.5 19146 1j97A 211 2.49e+01 1f5sA c.108.1.4 62753 1h6pA 203 2.53e+01 a.146.1.1 60690 1o0xA 262 2.53e+01 d.127.1.1 80755 1ka2A 499 2.54e+01 d.92.1.5 77305 1kx5B 102 2.57e+01 a.22.1.1 77594 1knvA 293 2.65e+01 c.52.1.7 68707 1ad2 228 2.65e+01 1ad2 e.24.1.1 43353 1lnwA 147 2.68e+01 a.4.5.28 78104 1fs1B 141 2.68e+01 1vcbB a.157.1.1 19252 d.42.1.1 38664 1k04A 162 2.68e+01 a.24.14.1 67904 1ni4A 365 2.69e+01 c.36.1.7 85728 1ockA 412 2.89e+01 c.117.1.1 86802 1dseA 292 2.90e+01 1ryc a.93.1.1 59130 1sig 339 2.93e+01 1sig a.177.1.1 19068 1qwoA 442 2.93e+01 1pxvA 183 3.00e+01 d.3.1.1 -8881 1it2A 146 3.02e+01 a.1.1.2 66365 1eca 136 3.04e+01 1flp a.1.1.2 15209 1ecmA 109 3.04e+01 1ecmA a.130.1.1 19492 1ubkL 534 3.04e+01 e.18.1.1 88422 1f24A 402 3.05e+01 1rom a.104.1.1 18953 1rh5A 436 3.06e+01 unknown_sccs -12298 1eu8A 409 3.15e+01 1eu8A c.94.1.1 59502 1mhyG 169 3.19e+01 1mtyG a.23.3.1 16518 1hq3C 136 3.19e+01 1aoiA a.22.1.1 16454 1k1vA 41 3.23e+01 a.37.1.1 71999 1rfmA 344 3.27e+01 c.122.1.1 -8032 1gcuA 295 3.27e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1v7oA 165 3.32e+01 unknown_sccs -10249 1us7B 265 3.33e+01 unknown_sccs -1518 1ikpA 613 3.33e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 2vhbA 146 3.37e+01 2vhbA a.1.1.2 15629 1ek4A 418 3.38e+01 1dd8A c.95.1.1 59436 c.95.1.1 59437 1i37A 260 3.40e+01 1a28A a.123.1.1 61583 1qs1A 462 3.50e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1pv9A 348 3.50e+01 c.55.2.1 -7610 d.127.1.1 -11000 1q1hA 110 3.51e+01 unknown_sccs -262 1rypH 205 3.51e+01 d.153.1.4 41876 1nw1A 429 3.57e+01 d.144.1.8 86286 1utg 70 3.62e+01 1utg a.101.1.1 18813 1fs7A 485 3.67e+01 1qdbA a.138.1.3 19691 1l9hA 349 3.74e+01 f.13.1.2 73720 1r1dA 247 3.75e+01 unknown_sccs -8335 1gotG 73 3.79e+01 1tbgE a.137.3.1 19629 1ov2A 99 3.88e+01 a.13.1.1 -457 1k7wA 468 3.88e+01 a.127.1.1 72130 1qwlA 505 3.89e+01 e.5.1.1 -11823 1spgA 144 3.92e+01 1abwA a.1.1.2 15409 1v54E 109 3.98e+01 a.118.11.1 -1652