# List of top-scoring protein chains for T0334.t04-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 2aqjA 538 3.76e-63 1y56B 382 1.14e-45 1dxlA 470 1.72e-45 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30585,30586,40214 1zy8A 474 1.19e-44 1zmdA 474 1.31e-44 1ebdA 455 1.37e-44 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1lpfA 477 5.94e-43 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30569,30570,40206 1x31B 404 2.27e-41 3ladA 476 5.91e-41 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1pn0A 665 5.14e-40 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1fohA 664 1.54e-39 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 2a8xA 464 1.46e-38 1v59A 478 2.64e-38 1ryiA 382 3.26e-37 1ng4A 390 7.30e-37 c.3.1.2,d.16.1.3 85666,85667 1ojt 482 1.00e-36 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30581,30582,40212 1bhy 482 2.06e-36 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30583,30584,40213 1pj5A 830 2.40e-36 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1el5A 389 1.94e-33 1b3mA c.3.1.2,d.16.1.3 30369,37937 1l9cA 389 2.43e-33 c.3.1.2,d.16.1.3 77815,77816 1lvl 458 4.50e-32 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1zovA 386 2.34e-29 1ykjA 394 7.98e-28 1dob 394 1.08e-27 1pbe c.3.1.2,d.16.1.2 30362,37893 1pxb 394 1.32e-27 1pbe c.3.1.2,d.16.1.2 30367,37898 1iut 394 1.33e-27 1pbe c.3.1.2,d.16.1.2 30355,37886 1pxc 394 1.35e-27 1pbe c.3.1.2,d.16.1.2 30361,37892 1cj3A 392 1.44e-27 1pbe c.3.1.2,d.16.1.2 30347,37878 1cc4A 394 1.52e-27 1pbe c.3.1.2,d.16.1.2 30340,37871 1cj2A 391 1.63e-27 1pbe c.3.1.2,d.16.1.2 30351,37882 1bgj 394 1.76e-27 1pbe c.3.1.2,d.16.1.2 30352,37883 1bgn 394 1.77e-27 1pbe c.3.1.2,d.16.1.2 30339,37870 1pbe 394 1.82e-27 1pbe c.3.1.2,d.16.1.2 30338,37869 1pbd 394 1.85e-27 1pbe c.3.1.2,d.16.1.2 30342,37873 1bf3 394 2.07e-27 1pbe c.3.1.2,d.16.1.2 30346,37877 1k0iA 394 2.29e-27 c.3.1.2,d.16.1.2 67942,67943 1pbf 394 2.99e-27 1pbe c.3.1.2,d.16.1.2 30349,37880 1cj4A 392 3.80e-27 1pbe c.3.1.2,d.16.1.2 30345,37876 1bkwA 394 3.83e-27 1pbe c.3.1.2,d.16.1.2 30343,37874 1cc6A 394 4.41e-27 1pbe c.3.1.2,d.16.1.2 30344,37875 1pxa 394 7.55e-27 1pbe c.3.1.2,d.16.1.2 30366,37897 1zk7A 467 1.90e-25 1h6vA 499 1.90e-20 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 1zkqA 517 1.99e-20 1xdiA 499 3.64e-20 2cfyA 521 6.21e-20 1ndaA 491 1.21e-19 3grs c.3.1.5,c.3.1.5,d.87.1.1 30525,30526,40194 1gxfA 492 1.37e-19 c.3.1.5,c.3.1.5,d.87.1.1 90527,90528,90529 1bzlA 486 1.40e-19 3grs c.3.1.5,c.3.1.5,d.87.1.1 30521,30522,40192 1aogA 485 3.56e-19 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1tytA 487 1.68e-18 3grs c.3.1.5,c.3.1.5,d.87.1.1 30513,30514,40188 2tprA 490 2.26e-18 3grs c.3.1.5,c.3.1.5,d.87.1.1 30505,30506,40184 1fecA 490 2.49e-18 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1c0pA 363 2.81e-18 1an9A c.4.1.2,d.16.1.3 30647,37934 1typA 487 2.94e-18 3grs c.3.1.5,c.3.1.5,d.87.1.1 30509,30510,40186 1tytB 486 2.96e-18 3grs c.3.1.5,c.3.1.5,d.87.1.1 30515,30516,40189 1d4cA 572 3.02e-18 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19698,30435,42318 1d4dA 572 3.52e-18 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19702,30439,42322 1onfA 500 7.68e-17 c.3.1.5,c.3.1.5,d.87.1.1 87141,87142,87143 1gesA 450 9.43e-17 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1gerA 450 1.52e-16 3grs c.3.1.5,c.3.1.5,d.87.1.1 30477,30478,40170 1lj1A 571 2.31e-15 a.138.1.3,c.3.1.4,d.168.1.1 78023,78024,78025 1m64A 571 2.48e-15 a.138.1.3,c.3.1.4,d.168.1.1 78683,78684,78685 1jrzA 571 4.02e-15 a.138.1.3,c.3.1.4,d.168.1.1 67205,67206,67207 1jrxA 571 4.06e-15 a.138.1.3,c.3.1.4,d.168.1.1 67193,67194,67195 1jryA 571 4.17e-15 a.138.1.3,c.3.1.4,d.168.1.1 67199,67200,67201 2b7sA 571 4.29e-15 1p2eA 571 4.34e-15 a.138.1.3,c.3.1.4,d.168.1.1 93926,93927,93928 1kssA 571 4.35e-15 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1y0pA 571 4.37e-15 1p2hA 571 4.70e-15 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1ksuA 571 4.80e-15 a.138.1.3,c.3.1.4,d.168.1.1 72931,72932,72933 1q9iA 571 7.58e-15 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 2b7rA 571 7.63e-15 1e39A 571 8.73e-15 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1knrA 540 1.27e-14 a.7.3.1,c.3.1.4,d.168.1.1 72788,72789,72790 1mo9A 523 1.30e-14 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1chuA 540 1.81e-14 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1f8rA 498 3.45e-14 1f8rA c.3.1.2,d.16.1.5 30410,37974 1k4qA 461 6.09e-14 c.3.1.5,c.3.1.5,d.87.1.1 68140,68141,68142 2bryA 497 7.34e-14 1xan 461 1.14e-13 3grs c.3.1.5,c.3.1.5,d.87.1.1 30449,30450,40156 3grs 478 1.20e-13 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 2aaqA 479 1.21e-13 2braA 484 1.51e-13 5grt 461 2.40e-13 3grs c.3.1.5,c.3.1.5,d.87.1.1 30465,30466,40164 1grt 478 2.55e-13 3grs c.3.1.5,c.3.1.5,d.87.1.1 30467,30468,40165 1reoA 486 3.27e-13 c.3.1.2,d.16.1.5 97325,97326 2c73A 520 3.97e-13 2bk5A 520 5.48e-13 1qo8A 566 5.55e-13 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19696,30433,42316 1s3eA 520 5.85e-13 c.3.1.2,d.16.1.5 98426,98427 2c76A 520 5.96e-13 2c75A 520 6.11e-13 2c72A 520 7.67e-13 1kdgA 546 8.46e-13 c.3.1.2,d.16.1.1 77337,77338 1naaA 541 1.02e-12 c.3.1.2,d.16.1.1 80365,80366 1jnrA 643 1.99e-12 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2fjbA 643 2.27e-12 1xhcA 367 9.92e-12 1w4xA 542 2.39e-11 c.3.1.5,c.3.1.5 109171,109172 1an9A 340 2.82e-11 1an9A c.4.1.2,d.16.1.3 30617,37904 1q1rA 431 3.06e-11 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1ve9A 347 3.55e-11 c.4.1.2,d.16.1.3 100571,100572 1b5qA 472 4.77e-11 1b37B c.3.1.2,d.16.1.5 30404,37968 2cvjA 180 6.06e-11 1nhs 447 2.91e-10 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1nhr 447 3.55e-10 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30553,30554,40198 1yy5A 513 4.22e-10 1rsgA 516 4.52e-10 1npx 447 5.06e-10 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30557,30558,40200 2b76A 602 5.29e-10 1kf6A 602 6.58e-10 a.7.3.1,c.3.1.4,d.168.1.1 72394,72395,72396 1rp0A 284 6.72e-10 1nhq 447 6.85e-10 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30551,30552,40197 1x31A 964 7.01e-10 2gqfA 401 7.76e-10 1f8wA 447 8.69e-10 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30561,30562,40202 1nhp 447 8.87e-10 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1o5wA 534 1.02e-09 c.3.1.2,d.16.1.5 92520,92521 2bxrA 527 1.04e-09 1qlaA 656 1.32e-09 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1e7pG 655 1.92e-09 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 59359,59360,59361 2bs3A 656 2.05e-09 1nekA 588 2.37e-09 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1cf3A 583 2.38e-09 1gpeA c.3.1.2,d.16.1.1 30385,37949 2b9wA 424 4.66e-09 2a87A 335 1.34e-08 1d7yA 408 1.45e-08 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1gpeA 587 1.52e-08 1gpeA c.3.1.2,d.16.1.1 30387,37951 1yqzA 438 6.67e-08 1fcdA 401 7.87e-08 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1fl2A 310 9.05e-08 1hyuA c.3.1.5,c.3.1.5 59869,59870 1m6iA 493 1.06e-07 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 2culA 232 1.89e-07 1trb 320 5.56e-07 1trb c.3.1.5,c.3.1.5 30529,30530 1tdf 316 5.91e-07 1trb c.3.1.5,c.3.1.5 30533,30534 1f6mA 320 6.45e-07 1trb c.3.1.5,c.3.1.5 30537,30538 1cl0A 320 7.01e-07 1trb c.3.1.5,c.3.1.5 30535,30536 1tde 316 7.39e-07 1trb c.3.1.5,c.3.1.5 30531,30532 3cox 507 8.33e-07 1b8sA c.3.1.2,d.16.1.1 30332,37863 1ps9A 671 9.94e-07 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1y56A 493 1.01e-06 1ju2A 536 1.10e-06 c.3.1.2,d.16.1.1 77169,77170 1cjcA 460 6.22e-06 1cjcA c.3.1.1,c.4.1.1 30319,30604 1zoyA 622 8.84e-06 1sezA 504 9.32e-06 c.3.1.2,d.16.1.5 98822,98823 1gv4A 528 1.22e-05 c.3.1.5,c.3.1.5,d.87.1.1 70589,70590,70591 1tt0A 623 1.40e-05 1vdc 333 1.46e-05 1trb c.3.1.5,c.3.1.5 30545,30546 1v0jA 399 1.50e-05 1tzlA 622 1.65e-05 1i8tA 367 1.97e-05 c.4.1.3,d.16.1.7 66094,66095 1hyuA 521 2.55e-05 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2fbwA 621 3.23e-05 1vqwA 457 4.09e-05 2bcgG 453 4.49e-05 1yvvA 336 7.88e-05 1wamA 384 1.40e-04 2bi7A 384 1.46e-04 1gnd 447 3.23e-04 1gnd c.3.1.3,d.16.1.6 30423,37987 1lv0A 449 3.61e-04 c.3.1.3,d.16.1.6 91130,91131 1d5tA 433 5.31e-04 1gnd c.3.1.3,d.16.1.6 30422,37986 1vg0A 650 1.48e-03 c.3.1.3,d.16.1.6 108596,108597 1lssA 140 1.58e-03 c.2.1.9 74246 1ltxR 650 2.27e-03 c.3.1.3,d.16.1.6 84715,84716 2g1uA 155 2.45e-03 1qrrA 394 4.37e-03 1qrrA c.2.1.2 29824 1i24A 404 7.41e-03 c.2.1.2 83663 1i2cA 404 8.03e-03 c.2.1.2 83666 1ldbA 317 1.07e-02 1ldnA 316 1.07e-02 1hyhA c.2.1.5,d.162.1.1 30166,42133 2ew2A 316 1.58e-02 1y6jA 318 1.65e-02 1ijhA 504 2.70e-02 c.3.1.2,d.16.1.1 66161,66162 1n4wA 504 3.33e-02 c.3.1.2,d.16.1.1 91676,91677 1b8sA 504 3.37e-02 1b8sA c.3.1.2,d.16.1.1 30335,37866 1djqA 729 3.43e-02 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1cboA 504 3.57e-02 1b8sA c.3.1.2,d.16.1.1 30336,37867 1cc2A 504 3.73e-02 1b8sA c.3.1.2,d.16.1.1 30337,37868 1o94A 729 4.50e-02 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1m75A 302 4.72e-02 a.100.1.3,c.2.1.6 91212,91213 3hdhA 302 5.42e-02 2hdhA a.100.1.3,c.2.1.6 18805,30209 1ihuA 589 5.70e-02 c.37.1.10,c.37.1.10 62394,62395 1uxgA 309 5.81e-02 c.2.1.5,d.162.1.1 108100,108101 1il0A 302 5.98e-02 a.100.1.3,c.2.1.6 66189,66190 1lsjA 302 6.03e-02 a.100.1.3,c.2.1.6 91116,91117 1f0yA 302 6.04e-02 2hdhA a.100.1.3,c.2.1.6 18793,30197 1m76A 302 6.07e-02 a.100.1.3,c.2.1.6 91216,91217 1lsoA 302 6.17e-02 a.100.1.3,c.2.1.6 91120,91121 1ur5A 309 6.22e-02 c.2.1.5,d.162.1.1 99807,99808 1uxjA 309 6.49e-02 c.2.1.5,d.162.1.1 108112,108113 1uxkA 309 6.51e-02 c.2.1.5,d.162.1.1 108116,108117 1cs0A 1073 8.54e-02 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 2hdhA 293 8.57e-02 2hdhA a.100.1.3,c.2.1.6 18795,30199 1c7gA 456 1.08e-01 c.67.1.2 90415 1f17A 310 1.10e-01 2hdhA a.100.1.3,c.2.1.6 18797,30201 1np3A 338 1.14e-01 a.100.1.2,c.2.1.6 85946,85947 3hadA 308 1.30e-01 2hdhA a.100.1.3,c.2.1.6 18799,30203 1zjyA 251 1.46e-01 1qoxA 449 1.48e-01 c.1.8.4 28965 1a9xA 1073 1.61e-01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1kv9A 668 1.86e-01 a.3.1.6,b.70.1.1 73056,73057 1ua4A 455 1.88e-01 c.72.1.3 99128 1z45A 699 2.06e-01 1h7xA 1025 2.75e-01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1gteA 1025 2.77e-01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1zud1 251 3.37e-01 1zfnA 253 3.71e-01 1heiA 451 3.78e-01 1heiA c.37.1.14,c.37.1.14 32463,32464 1a1vA 476 4.26e-01 1heiA c.37.1.14,c.37.1.14 32467,32468 1dljA 402 4.75e-01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 4.86e-01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1pgjA 478 4.95e-01 2pgd a.100.1.1,c.2.1.6 18783,30195 1r4mB 431 5.19e-01 c.111.1.2 97000 1tt5B 434 7.04e-01 c.111.1.2 107292 1jw9B 249 7.05e-01 c.111.1.1 67377 1yovB 444 7.87e-01 2bgkA 278 9.36e-01 1ldg 316 9.48e-01 1ceqA c.2.1.5,d.162.1.1 30165,42132 1ceqA 316 9.67e-01 1ceqA c.2.1.5,d.162.1.1 30163,42130 1u6eA 335 1.08e+00 1m1mA 355 1.14e+00 c.95.1.2,c.95.1.2 74409,74410 1t2eA 322 1.21e+00 c.2.1.5,d.162.1.1 99086,99087 1hzpA 335 1.22e+00 1hn9A c.95.1.2,c.95.1.2 61455,61456 1t2dA 322 1.31e+00 c.2.1.5,d.162.1.1 99084,99085 1in7A 334 1.50e+00 1hqcA a.4.5.11,c.37.1.20 62603,62604 1lqtA 456 1.59e+00 c.3.1.1,c.4.1.1 74198,74199 1zemA 262 1.68e+00 1in6A 334 1.68e+00 1hqcA a.4.5.11,c.37.1.20 62601,62602 1wqaA 455 1.69e+00 1v6sA 390 1.90e+00 c.86.1.1 100424 1wmwA 330 1.93e+00 1u9cA 224 1.95e+00 2agqA 341 1.96e+00 1vl2A 421 1.97e+00 c.26.2.1,d.210.1.1 108708,108709 1m6vA 1073 1.98e+00 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 74536,74537,74538,74539,74540,74541 1tplA 456 2.10e+00 1ax4A c.67.1.2 34387 1in4A 334 2.12e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 1vhqA 232 2.23e+00 c.23.16.2 100696 2a94A 321 2.37e+00 1gaxA 862 2.44e+00 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1kvt 338 2.49e+00 1xel c.2.1.2 29798 1kvr 338 2.57e+00 1xel c.2.1.2 29793 1zk4A 251 2.59e+00 8ohm 435 2.64e+00 1heiA c.37.1.14,c.37.1.14 32469,32470 1oy1A 228 2.65e+00 c.23.16.2 87548 1kvq 338 2.87e+00 1xel c.2.1.2 29797 1kvs 338 3.16e+00 1xel c.2.1.2 29799 1udc 338 3.16e+00 1xel c.2.1.2 29785 1xivA 323 3.23e+00 1oidA 532 3.26e+00 d.114.1.1,d.159.1.2 103952,103953 1a9y 338 3.29e+00 1xel c.2.1.2 29789 1udb 338 3.49e+00 1xel c.2.1.2 29787 1yt8A 539 3.64e+00 1z82A 335 3.65e+00 2ahbA 356 3.67e+00 1zxxA 319 3.69e+00 1a9z 338 3.80e+00 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