# List of top-scoring protein chains for T0358.t2k-w0.5 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 1zorA 399 9.14e-02 2eql 129 2.41e-01 3lzt d.2.1.2 36585 1inuA 130 3.70e-01 3lzt d.2.1.2 36485 1ffyA 917 7.58e-01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2cwiA 129 1.21e+00 1qqyA 130 1.21e+00 3lzt d.2.1.2 36586 1el1A 130 1.21e+00 3lzt d.2.1.2 59451 1lomA 101 1.71e+00 b.89.1.1 74152 2f4qA 346 2.19e+00 1ivmA 130 2.65e+00 d.2.1.2 71442 3ezmA 101 2.68e+00 3ezmA b.89.1.1 28395 134l 130 2.74e+00 3lzt d.2.1.2 36505 1oui 130 3.31e+00 3lzt d.2.1.2 36510 1bb3A 130 3.39e+00 3lzt d.2.1.2 36544 1qswA 130 3.49e+00 d.2.1.2 63330 2lhm 130 3.65e+00 3lzt d.2.1.2 36517 1ge2A 130 3.88e+00 3lzt d.2.1.2 36547 2bqn 130 3.89e+00 3lzt d.2.1.2 36450 1ip3A 130 3.92e+00 d.2.1.2 66248 1gb5A 130 3.96e+00 3lzt d.2.1.2 36542 1b7s 130 4.02e+00 3lzt d.2.1.2 36571 1gfrA 130 4.02e+00 3lzt d.2.1.2 36511 1b7mA 130 4.02e+00 3lzt d.2.1.2 36569 1gfkA 130 4.05e+00 3lzt d.2.1.2 36484 1gfjA 130 4.17e+00 3lzt d.2.1.2 36483 1ouh 130 4.24e+00 3lzt d.2.1.2 36509 1b7pA 130 4.27e+00 3lzt d.2.1.2 36551 1gfhA 130 4.30e+00 3lzt d.2.1.2 36482 1i20A 130 4.38e+00 3lzt d.2.1.2 36548 1lz5 134 4.43e+00 3lzt d.2.1.2 36422 1lz6 138 4.49e+00 3lzt d.2.1.2 36442 1v9lA 421 4.55e+00 2bqm 130 4.62e+00 3lzt d.2.1.2 36488 1gb9A 130 4.74e+00 3lzt d.2.1.2 36494 1i22A 130 4.83e+00 3lzt d.2.1.2 36559 1gb8A 130 4.90e+00 3lzt d.2.1.2 36435 1gb7A 130 5.42e+00 3lzt d.2.1.2 36429 1lmt 136 5.84e+00 3lzt d.2.1.2 36416 1tzaA 134 5.85e+00 b.1.23.1 107468 1gfvA 130 6.01e+00 3lzt d.2.1.2 36512 1gf4A 130 6.12e+00 3lzt d.2.1.2 60476 2hea 130 6.28e+00 3lzt d.2.1.2 36433 1ge3A 130 6.28e+00 3lzt d.2.1.2 36541 1ge4A 130 6.47e+00 3lzt d.2.1.2 36521 1gfuA 130 6.62e+00 3lzt d.2.1.2 36532 1ui0A 205 6.65e+00 c.18.1.2 99411 1gf5A 130 6.70e+00 3lzt d.2.1.2 60477 1lhh 130 6.91e+00 3lzt d.2.1.2 36503 2hef 130 6.94e+00 3lzt d.2.1.2 36446 1rxqA 178 7.01e+00 a.213.1.1 105118 1gboA 130 7.41e+00 3lzt d.2.1.2 36473 2bqf 130 7.45e+00 3lzt d.2.1.2 36529 1kj1D 109 7.61e+00 b.78.1.1 68639 1hnl 130 7.67e+00 3lzt d.2.1.2 36418 1ix0A 130 7.73e+00 d.2.1.2 83762 1lyy 130 7.76e+00 3lzt d.2.1.2 36552 1gbyA 130 7.78e+00 3lzt d.2.1.2 36476 1yaq 130 8.10e+00 3lzt d.2.1.2 36497 2bqh 130 8.14e+00 3lzt d.2.1.2 36531 2bqb 130 8.17e+00 3lzt d.2.1.2 36526 1ckhA 130 8.17e+00 3lzt d.2.1.2 36564 1gb6A 130 8.22e+00 3lzt d.2.1.2 36445 2hed 130 8.34e+00 3lzt d.2.1.2 36475 1gftA 130 8.38e+00 3lzt d.2.1.2 36537 2meh 130 8.40e+00 3lzt d.2.1.2 36438 1i7pA 274 8.43e+00 b.43.4.2,c.25.1.1 66048,66049 1b5zA 130 8.43e+00 3lzt d.2.1.2 36567 1gbxA 130 8.48e+00 3lzt d.2.1.2 36426 2hee 130 8.53e+00 3lzt d.2.1.2 36493 1gf3A 130 8.60e+00 3lzt d.2.1.2 60475 2bqe 130 8.67e+00 3lzt d.2.1.2 36466 1ndh 272 8.72e+00 1ndh b.43.4.2,c.25.1.1 25662,31552 1ge1A 130 8.80e+00 3lzt d.2.1.2 36420 1ouc 130 8.85e+00 3lzt d.2.1.2 36463 1w08A 130 8.88e+00 d.2.1.2 108982 1yam 130 8.93e+00 3lzt d.2.1.2 36440 1b7rA 130 8.97e+00 3lzt d.2.1.2 36436 1i1zA 130 9.20e+00 3lzt d.2.1.2 36534 2bqc 130 9.29e+00 3lzt d.2.1.2 36527 2bqd 130 9.33e+00 3lzt d.2.1.2 36502 1ip4A 130 9.34e+00 d.2.1.2 66250 2bql 130 9.35e+00 3lzt d.2.1.2 36465 1lhm 130 9.35e+00 3lzt d.2.1.2 36441 1yap 130 9.44e+00 3lzt d.2.1.2 36496 1tcy 130 9.51e+00 3lzt d.2.1.2 36458 1ip2A 130 9.65e+00 d.2.1.2 66247 1b5wA 130 9.77e+00 3lzt d.2.1.2 36557 1di4A 128 9.84e+00 3lzt d.2.1.2 36555 1d1rA 116 1.00e+01 1d1rA d.64.1.1 39548 1gbwA 130 1.01e+01 3lzt d.2.1.2 36474 1ip1A 130 1.01e+01 d.2.1.2 66246 1lhl 130 1.01e+01 3lzt d.2.1.2 36427 1jkb 130 1.01e+01 3lzt d.2.1.2 36417 1b7qA 130 1.01e+01 3lzt d.2.1.2 36549 1tay 130 1.02e+01 3lzt d.2.1.2 36459 1ckcA 130 1.02e+01 3lzt d.2.1.2 36477 1b7oA 130 1.02e+01 3lzt d.2.1.2 36491 1eqeA 130 1.02e+01 3lzt d.2.1.2 36487 1cj6A 130 1.02e+01 3lzt d.2.1.2 36469 1cj9A 130 1.02e+01 3lzt d.2.1.2 36443 1b7nA 130 1.02e+01 3lzt d.2.1.2 36468 1eq4A 130 1.02e+01 3lzt d.2.1.2 36536 1jka 130 1.02e+01 3lzt d.2.1.2 36430 1b7lA 130 1.02e+01 3lzt d.2.1.2 36515 1yan 130 1.02e+01 3lzt d.2.1.2 36462 1yao 130 1.02e+01 3lzt d.2.1.2 36489 1oug 130 1.02e+01 3lzt d.2.1.2 36504 1b5uA 130 1.02e+01 3lzt d.2.1.2 36453 1c45A 130 1.03e+01 3lzt d.2.1.2 36522 2heb 130 1.03e+01 3lzt d.2.1.2 36423 1c43A 130 1.03e+01 3lzt d.2.1.2 36428 1gevA 130 1.03e+01 3lzt d.2.1.2 60469 1gb0A 130 1.03e+01 3lzt d.2.1.2 36539 1jsf 130 1.03e+01 3lzt d.2.1.2 36410 1gazA 130 1.03e+01 3lzt d.2.1.2 36472 1gfaA 130 1.03e+01 3lzt d.2.1.2 36448 1gb2A 130 1.03e+01 3lzt d.2.1.2 36490 1gfgA 130 1.03e+01 3lzt d.2.1.2 36506 1gayA 130 1.03e+01 3lzt d.2.1.2 36471 1gf8A 130 1.03e+01 3lzt d.2.1.2 36447 1wqo 130 1.03e+01 3lzt d.2.1.2 36449 1gfeA 130 1.03e+01 3lzt d.2.1.2 36481 1gf9A 130 1.03e+01 3lzt d.2.1.2 36479 1kj1A 109 1.03e+01 b.78.1.1 68638 1gb3A 130 1.03e+01 3lzt d.2.1.2 36528 2mef 130 1.03e+01 3lzt d.2.1.2 36456 1c46A 131 1.03e+01 3lzt d.2.1.2 36578 1wqn 130 1.03e+01 3lzt d.2.1.2 36480 2mee 130 1.03e+01 3lzt d.2.1.2 36455 1b5yA 130 1.03e+01 3lzt d.2.1.2 36570 1gf0A 130 1.03e+01 3lzt d.2.1.2 60474 1cj8A 130 1.03e+01 3lzt d.2.1.2 36437 1gdxA 130 1.03e+01 3lzt d.2.1.2 36518 1gezA 130 1.03e+01 3lzt d.2.1.2 60473 1laa 130 1.03e+01 3lzt d.2.1.2 36514 1c7pA 134 1.04e+01 3lzt d.2.1.2 36582 1ckfA 130 1.04e+01 3lzt d.2.1.2 36533 1ckdA 130 1.04e+01 3lzt d.2.1.2 36467 1wqq 130 1.05e+01 3lzt d.2.1.2 36492 1gdwA 130 1.05e+01 3lzt d.2.1.2 36535 1gbzA 130 1.05e+01 3lzt d.2.1.2 36499 2meb 130 1.06e+01 3lzt d.2.1.2 36452 1lktA 104 1.07e+01 1lktA b.90.1.1 28398 1ge0A 130 1.07e+01 3lzt d.2.1.2 36500 1wqp 130 1.07e+01 3lzt d.2.1.2 36513 1b5vA 130 1.07e+01 3lzt d.2.1.2 36563 2mecA 130 1.08e+01 3lzt d.2.1.2 36576 1tdy 130 1.09e+01 3lzt d.2.1.2 36457 1ihrA 76 1.09e+01 1ihrA d.212.1.2 62392 133l 130 1.09e+01 3lzt d.2.1.2 36524 1cj7A 130 1.09e+01 3lzt d.2.1.2 36470 1qx4A 274 1.09e+01 b.43.4.2,c.25.1.1 104624,104625 2bqi 130 1.10e+01 3lzt d.2.1.2 36498 1tby 130 1.10e+01 3lzt d.2.1.2 36520 2meaA 130 1.10e+01 3lzt d.2.1.2 36572 2c3vA 102 1.11e+01 2bqk 130 1.11e+01 3lzt d.2.1.2 36540 1tfkB 91 1.11e+01 2meg 130 1.12e+01 3lzt d.2.1.2 36432 1di3A 130 1.12e+01 3lzt d.2.1.2 36546 1i86A 389 1.12e+01 c.95.1.2,c.95.1.2 66068,66069 1ip6A 130 1.13e+01 d.2.1.2 66252 1ckgA 130 1.15e+01 3lzt d.2.1.2 36574 1lhi 130 1.16e+01 3lzt d.2.1.2 36434 1miuB 70 1.16e+01 1eq5A 130 1.18e+01 3lzt d.2.1.2 36523 1oua 130 1.20e+01 3lzt d.2.1.2 36425 2hec 130 1.20e+01 3lzt d.2.1.2 36424 1iocA 134 1.21e+01 d.2.1.2 76754 1fclA 56 1.21e+01 d.15.7.1 59768 1ouf 130 1.22e+01 3lzt d.2.1.2 36508 1oud 130 1.22e+01 3lzt d.2.1.2 36464 1u07A 90 1.23e+01 2bqj 130 1.25e+01 3lzt d.2.1.2 36495 1s6xA 34 1.28e+01 1b5xA 130 1.35e+01 3lzt d.2.1.2 36550 1jwxA 389 1.37e+01 c.95.1.2,c.95.1.2 71920,71921 1oue 130 1.37e+01 3lzt d.2.1.2 36507 1lhk 130 1.37e+01 3lzt d.2.1.2 36460 1cmlA 389 1.38e+01 1bi5A c.95.1.2,c.95.1.2 35989,35990 1d6hA 387 1.38e+01 1bi5A c.95.1.2,c.95.1.2 36005,36006 1bq6A 388 1.39e+01 1bi5A c.95.1.2,c.95.1.2 35987,35988 1bi5A 389 1.39e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1chwA 389 1.40e+01 1bi5A c.95.1.2,c.95.1.2 35997,35998 1ip7A 130 1.43e+01 d.2.1.2 66253 1culA 217 1.44e+01 1azsA d.58.29.1 39417 1wqm 130 1.44e+01 3lzt d.2.1.2 36478 1zblA 139 1.45e+01 2g8iA 142 1.45e+01 1zbfA 142 1.49e+01 2g8fA 142 1.50e+01 1lhj 130 1.50e+01 3lzt d.2.1.2 36461 2b86A 67 1.50e+01 1n02A 102 1.58e+01 b.89.1.1 79717 1lwdA 413 1.62e+01 c.77.1.1 78265 1azsA 220 1.62e+01 1azsA d.58.29.1 39416 1cs4A 225 1.62e+01 1azsA d.58.29.1 39418 1i70A 96 1.63e+01 d.1.1.2 61862 1gmpA 96 1.65e+01 1rgeA d.1.1.2 36036 1tp6A 128 1.66e+01 d.17.4.12 107184 1ynvX 96 1.67e+01 1d6iA 388 1.67e+01 1bi5A c.95.1.2,c.95.1.2 36001,36002 1t2iA 96 1.70e+01 1e2yA 188 1.71e+01 1qq2A c.47.1.10 59173 1uciA 96 1.78e+01 d.1.1.2 99175 1lniA 96 1.78e+01 d.1.1.2 74046 1t2hA 96 1.80e+01 1i8vA 96 1.82e+01 d.1.1.2 61985 1boxA 96 1.85e+01 1rgeA d.1.1.2 36038 1xx3A 144 1.89e+01 1i89A 389 1.89e+01 c.95.1.2,c.95.1.2 66074,66075 1i88A 389 1.90e+01 c.95.1.2,c.95.1.2 66070,66071 1bwuP 106 1.94e+01 1b2pA b.78.1.1 27995 1i8bA 389 2.05e+01 c.95.1.2,c.95.1.2 66078,66079 1b8iB 63 2.05e+01 1akhA a.4.1.1 16011 2mei 130 2.07e+01 3lzt d.2.1.2 36439 1vziA 126 2.18e+01 b.1.13.1,g.41.5.2 108967,108968 1d4oA 184 2.21e+01 1d4oA c.31.1.4 31748 1e8yA 966 2.23e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1e7uA 961 2.24e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1he8A 965 2.27e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19154,23189,37637,41717 1uhuA 105 2.30e+01 a.61.1.6 107854 1ebdA 455 2.37e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1v0jA 399 2.38e+01 1umkA 275 2.40e+01 1p97A 114 2.41e+01 d.110.3.7 94382 1d6qA 130 2.48e+01 3lzt d.2.1.2 36556 1u0vA 393 2.49e+01 1f0cB 36 2.51e+01 1hleB 1m93C 41 2.54e+01 2bk0A 154 2.61e+01 1lrwB 83 2.61e+01 a.137.2.1 91112 1bj8 109 2.71e+01 1bquA b.1.2.1 22070 1a8h 500 2.73e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1woyA 500 2.73e+01 1i2uA 44 2.86e+01 g.3.7.4 65987 1wd2A 60 2.91e+01 g.44.1.1 109232 1bwuA 106 2.91e+01 1b2pA b.78.1.1 27993 1pufB 73 2.92e+01 a.4.1.1 95132 1hb6A 86 2.96e+01 a.11.1.1 70959 1vhnA 318 3.08e+01 c.1.4.1 100693 1emuA 132 3.10e+01 1agrE a.91.1.1 18549 4blcA 506 3.10e+01 1cf9A e.5.1.1 42775 1pzmA 211 3.13e+01 c.61.1.1 104395 1dghA 498 3.18e+01 1cf9A e.5.1.1 42790 1dgfA 497 3.18e+01 1cf9A e.5.1.1 42782 1dghB 498 3.19e+01 1cf9A e.5.1.1 42791 2med 130 3.27e+01 3lzt d.2.1.2 36454 1f4jA 527 3.33e+01 1cf9A e.5.1.1 42798 1djlA 207 3.33e+01 1d4oA c.31.1.4 31746 1wueA 386 3.37e+01 2grxC 229 3.42e+01 2dbnA 461 3.42e+01 1dk8A 147 3.50e+01 1agrE a.91.1.1 18548 1ttzA 87 3.51e+01 c.47.1.1 107309 2cfuA 658 3.54e+01 1bwuQ 109 3.66e+01 1b2pA b.78.1.1 27996 1yksA 440 3.72e+01 1lfuP 82 3.81e+01 a.4.1.1 77939 1xpvA 78 3.92e+01 1xexB 172 3.97e+01 1xewY 172 4.00e+01 1yaxA 153 4.11e+01 1bwuD 109 4.15e+01 1b2pA b.78.1.1 27994 2gskB 81 4.27e+01 1uclA 96 4.32e+01 d.1.1.2 99181 1dvoA 152 4.34e+01 1dvoA a.136.1.1 19623 1yifA 533 4.44e+01 1y56B 382 4.51e+01 1v74B 87 4.64e+01 a.24.20.1 100443 1qq2A 199 4.68e+01 1qq2A c.47.1.10 33064 1nkvA 256 4.79e+01 c.66.1.21 80577 1ny1A 240 4.88e+01 c.6.2.3 86395 1b72B 87 4.89e+01 1akhA a.4.1.1 16001 1t0lA 414 4.91e+01 c.77.1.1 106216 1l9gA 192 4.91e+01 c.18.1.2 84568 1w1b1 257 4.99e+01 1o6bA 169 5.06e+01 c.26.1.3 92564 1w17A 263 5.07e+01 1y9jA 159 5.31e+01 1bquA 215 5.33e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 1vphA 149 5.34e+01 1vk2A 204 5.38e+01 c.18.1.2 100845 1cqtI 44 5.39e+01 1omrA 201 5.59e+01 a.39.1.5 93349 1iku 202 5.60e+01 1rec a.39.1.5 17327 1jogA 146 5.61e+01 a.24.16.2 77142 1kcqA 104 5.63e+01 d.109.1.1 68449 1z0cA 207 5.69e+01 2copA 109 5.75e+01 1e5uI 187 5.88e+01 1f00I b.1.14.1,d.169.1.3 22372,42441 1tiyA 164 5.91e+01 c.97.1.2 107012 1z0eA 205 5.98e+01 1fdhG 147 6.00e+01 1abwA a.1.1.2 15550 1z0wA 207 6.06e+01 1z0bA 207 6.13e+01 1fvrA 327 6.22e+01 d.144.1.7 60047 2go56 123 6.48e+01 1i07A 60 6.53e+01 1aojA b.34.2.1 61477 2cu3A 64 6.53e+01 1qjpA 171 6.54e+01 1bxwA f.4.1.1 43742 1omvA 201 6.54e+01 a.39.1.5 93353 1la3A 202 6.55e+01 a.39.1.5 73781 1yx1A 264 6.59e+01 1bxwA 172 6.63e+01 1bxwA f.4.1.1 43743 1n82A 331 6.64e+01 c.1.8.3 91703 1pvhA 201 6.65e+01 b.1.2.1,b.1.2.1 95165,95166 1zkdA 387 6.65e+01 1wkqA 164 6.66e+01 c.97.1.2 109393 1utyA 187 6.69e+01 b.147.1.1 108036 1mxiA 160 6.88e+01 c.116.1.1 79646 1o7xA 377 6.99e+01 a.103.1.1 81171 1u37A 89 7.09e+01 1pk6B 132 7.26e+01 b.22.1.1 94802 1y3hA 307 7.39e+01 1u0tA 307 7.39e+01 e.52.1.1 107567 1i3dA 146 7.54e+01 a.1.1.2 61587 2f0aA 98 7.54e+01 1i2vA 44 7.58e+01 g.3.7.4 65988 1xf8A 335 7.86e+01 1ne9A 335 7.88e+01 d.108.1.4,d.108.1.4 91839,91840 1qhoA 686 7.91e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1xe4A 335 7.92e+01 1vnh 609 8.05e+01 1vns a.111.1.3 19062 1b9wA 89 8.28e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1vr8A 142 8.44e+01 1zcxA 178 8.48e+01 1dy2A 180 8.68e+01 1koe d.169.1.5 42451 1ktbA 405 8.89e+01 b.71.1.1,c.1.8.1 72960,72961 1zswA 338 8.90e+01 1p71A 94 8.91e+01 a.55.1.1 87840 2ct5A 73 8.97e+01 2bqo 130 8.99e+01 3lzt d.2.1.2 36538