# List of top-scoring protein chains for t04-100-30-dssp-ebghstl 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 1bkjA 240 1.92e-25 1bkjA d.90.1.1 40243 1f5vA 240 3.44e-25 1bkjA d.90.1.1 40255 1nox 205 1.29e-15 1nox d.90.1.1 40242 1icrA 217 4.07e-10 1vfrA d.90.1.1 62274 1vfrA 218 1.94e-06 1vfrA d.90.1.1 40247 1vk3A 615 6.82e-03 1gqeA 365 2.10e-02 e.38.1.1 70351 1n81A 186 4.20e-02 a.185.1.1 85388 1fts 295 5.70e-02 1ng1 a.24.13.1 16968 c.37.1.10 32279 1qo7A 394 6.12e-02 1qo7A c.69.1.11 34697 1uanA 227 7.75e-02 1ig8A 486 8.92e-02 2yhx c.55.1.3 64746 c.55.1.3 64747 1qs0A 407 1.41e-01 1qs0A c.36.1.11 31829 1qyaA 307 2.04e-01 1vheA 373 6.01e-01 1oaoA 674 7.10e-01 e.26.1.2 86744 1v8gA 329 8.19e-01 1dozA 309 9.18e-01 1ak1 c.92.1.1 35592 1j0aA 325 9.93e-01 c.79.1.1 83871 1eudA 311 9.95e-01 2scuA c.2.1.8 30312 c.23.4.1 31140 1ea7A 310 1.02e+00 c.41.1.1 70086 1jeyB 565 1.09e+00 1jeqB e.31.1.2 62925 1nijA 318 1.15e+00 c.37.1.10 85741 d.237.1.1 85742 1brwA 433 1.29e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1sdjA 310 1.38e+00 1oi7A 288 1.51e+00 c.2.1.8 87049 c.23.4.1 87050 1psdA 409 1.53e+00 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1f3mC 297 1.55e+00 1hcl d.144.1.7 41677 1fgs 428 1.69e+00 1fgs c.59.1.2 33959 c.72.2.2 34962 1l2uA 245 1.70e+00 c.1.2.3 73516 1gp6A 356 1.76e+00 b.82.2.1 65441 1jnyA 435 1.76e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1vizA 240 1.80e+00 1dqaA 467 1.92e+00 1dqaA d.58.20.1 39364 d.179.1.1 42585 1f75A 249 1.95e+00 1f75A c.101.1.1 59662 1b8fA 509 2.05e+00 1b8fA a.127.1.2 19434 1a9xA 1058 2.10e+00 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 1bw0A 416 2.17e+00 1bw0A c.67.1.1 34385 1ksiA 642 2.18e+00 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1gkmA 509 2.24e+00 a.127.1.2 70228 1q45A 391 2.76e+00 1aq0A 306 2.76e+00 1aq0A c.1.8.3 28842 1uumA 372 3.01e+00 2masA 314 3.18e+00 2masA c.70.1.1 34810 1scuA 288 3.44e+00 2scuA c.2.1.8 30307 c.23.4.1 31135 1bykA 255 3.59e+00 1bykA c.93.1.1 35706 1fsz 372 3.65e+00 1fsz c.32.1.1 31750 d.79.2.1 39802 1o0uA 429 3.91e+00 c.118.1.1 80743 1edg 380 4.29e+00 1edg c.1.8.3 28807 1n0uA 842 4.77e+00 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 1d3gA 367 4.80e+00 1d3gA c.1.4.1 28600 1iz5A 249 4.83e+00 d.131.1.2 83834 d.131.1.2 83835 1r6dA 337 5.10e+00 1kwgA 645 5.22e+00 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1ru8A 232 5.52e+00 1dosA 358 5.78e+00 1dosA c.1.10.2 29175 1m5wA 243 5.84e+00 c.1.24.1 84836 1vjzA 341 5.90e+00 1fobA 334 5.95e+00 c.1.8.3 83255 1dd9A 338 5.99e+00 1dd9A e.13.1.1 43254 1rg9A 383 6.11e+00 1nsj 205 6.23e+00 1nsj c.1.2.4 28560 1n1tA 641 6.48e+00 b.29.1.15 79821 b.68.1.1 79822 1o8bA 219 6.70e+00 c.35.1.2 81180 d.58.40.1 81181 1l1qA 186 6.93e+00 c.61.1.1 77653 1pii 452 6.98e+00 1pii c.1.2.4 28559 c.1.2.4 28563 1a49A 530 7.05e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1i19A 561 7.31e+00 1i19A d.58.32.3 61522 d.145.1.1 61523 1e4iA 447 7.34e+00 1e70M c.1.8.4 59225 1bgc 174 7.95e+00 1bgc a.26.1.1 16822 1hcl 298 8.07e+00 1hcl d.144.1.7 41593 1hdoA 206 8.12e+00 1he2A c.2.1.2 60965 1mumA 295 8.14e+00 c.1.12.7 85108 1m1nB 522 8.15e+00 c.92.2.3 78418 1utcA 363 8.17e+00 1g5cA 170 8.21e+00 1g5cA c.53.2.1 60264 1kqzA 273 8.34e+00 c.1.8.5 68844 1hl9A 449 8.47e+00 1f5aA 513 8.61e+00 1fa0B a.160.1.1 75835 d.218.1.3 75836 d.58.16.1 39337 1hc7A 477 9.05e+00 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 2hvm 273 9.25e+00 1cnv c.1.8.5 28985 1jmxA 494 9.26e+00 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1q74A 303 9.36e+00 2bvwA 362 9.62e+00 1bvwA c.6.1.1 30666 2tpsA 227 9.70e+00 2tpsA c.1.3.1 28591 1f0kA 364 9.94e+00 1f0kA c.87.1.2 35465 1ufoA 238 9.94e+00 1lucA 355 9.98e+00 1lucA c.1.16.1 29547 1v0wA 506 1.03e+01 1ks8A 433 1.05e+01 a.102.1.2 77519 1eceA 358 1.06e+01 1eceA c.1.8.3 28813 1lzlA 323 1.06e+01 c.69.1.2 78306 1edt 271 1.07e+01 2ebn c.1.8.5 28993 1ex1A 605 1.07e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1nlnA 204 1.09e+01 1ed8A 449 1.11e+01 1b8jA c.76.1.1 34988 1qksA 567 1.11e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1k3eA 156 1.12e+01 d.198.1.1 68103 1nx8A 273 1.12e+01 b.82.2.8 86374 1gnxA 479 1.13e+01 c.1.8.4 76241 1ho1A 242 1.14e+01 1ho1A c.1.24.1 61097 1jx4A 352 1.14e+01 e.8.1.5 67405 1f0iA 504 1.16e+01 1f0iA d.136.1.2 59566 d.136.1.2 59567 1n08A 163 1.21e+01 b.43.5.1 79730 1sqgA 429 1.21e+01 2lbp 346 1.23e+01 2liv c.93.1.1 35709 1vimA 200 1.25e+01 1ld8B 437 1.29e+01 a.102.4.3 73839 1gz8A 299 1.29e+01 d.144.1.7 83405 1vrtA 560 1.30e+01 1rthA c.55.3.1 33574 e.8.1.2 43023 1s9rA 410 1.31e+01 1nqkA 381 1.32e+01 1iarB 207 1.35e+01 1iarB b.1.2.1 22037 b.1.2.1 22038 1fc6A 388 1.37e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1q6cA 495 1.37e+01 1sdsA 117 1.44e+01 1kbpA 432 1.45e+01 4kbpA b.1.12.1 22349 d.159.1.1 42068 1byb 495 1.47e+01 1byb c.1.8.1 28790 1e5dA 402 1.47e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1d8wA 426 1.49e+01 1de5A c.1.15.2 29394 1uwsA 489 1.49e+01 1v7rA 186 1.55e+01 1gowA 489 1.58e+01 1qvbA c.1.8.4 28981 1rthA 560 1.59e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1kblA 873 1.62e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1o17A 345 1.63e+01 a.46.2.1 80765 c.27.1.1 80766 1h49A 512 1.63e+01 c.1.8.4 83477 1v93A 296 1.63e+01 1ufwA 95 1.66e+01 1j2rA 199 1.66e+01 1cb8A 678 1.69e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1e55A 512 1.69e+01 1e70M c.1.8.4 28934 1f61A 429 1.71e+01 1dquA c.1.12.7 29319 1fe0A 68 1.72e+01 1cc8A d.58.17.1 39345 1iuqA 367 1.78e+01 1b3tA 147 1.78e+01 1b3tA d.58.8.1 39228 1gklA 297 1.82e+01 c.69.1.2 65250 1ojxA 263 1.84e+01 1d0qA 103 1.86e+01 1d0qA g.41.3.2 45208 1n9eA 787 1.87e+01 1hbnC 248 1.87e+01 1mroC d.58.31.1 60902 1oglA 283 1.87e+01 1vddA 228 1.88e+01 1uroA 367 1.89e+01 1uroA c.1.22.1 29675 1q9uA 130 1.89e+01 1hrdA 449 1.89e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1uxy 340 1.90e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1o5zA 442 1.92e+01 1mroC 247 1.93e+01 1mroC d.58.31.1 39437 1fsu 492 1.95e+01 1auk c.76.1.2 35032 1bgvA 449 1.96e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1meoA 209 2.01e+01 c.65.1.1 79035 1oc7A 364 2.02e+01 c.6.1.1 86794 1bpoA 494 2.02e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1dbiA 280 2.05e+01 1gci c.41.1.1 32543 1avpA 204 2.06e+01 1avpA d.3.1.7 37132 1vhsA 175 2.06e+01 1rcqA 357 2.08e+01 1f8vA 355 2.11e+01 2bbvA b.121.4.4 23329 1ms9A 648 2.11e+01 b.29.1.15 85088 b.68.1.1 85089 1mx3A 347 2.12e+01 c.2.1.4 79638 c.23.12.1 79639 1o08A 221 2.14e+01 c.108.1.6 86525 1un8A 552 2.15e+01 1i36A 264 2.18e+01 a.100.1.8 71108 c.2.1.6 71109 1f8mA 429 2.23e+01 1dquA c.1.12.7 29315 1q7lA 198 2.26e+01 1ejxC 567 2.31e+01 b.92.1.1 83184 c.1.9.2 83185 1vapA 123 2.34e+01 1poa a.133.1.2 19548 1qusA 322 2.36e+01 1ltm d.2.1.6 36991 1uhvA 500 2.37e+01 1r0rE 274 2.40e+01 1j5sA 463 2.42e+01 c.1.9.8 71580 1i50A 1733 2.46e+01 e.29.1.1 61754 1cseE 274 2.49e+01 1gci c.41.1.1 32481 1usgA 346 2.49e+01 1e79H 146 2.50e+01 1e79H a.2.10.1 15721 b.93.1.1 28438 1vi9A 299 2.54e+01 2pfkA 320 2.56e+01 3pfk c.89.1.1 35577 7taa 478 2.56e+01 7taa b.71.1.1 27778 c.1.8.1 28765 1hn0A 1021 2.58e+01 a.102.3.2 83616 b.18.1.17 83617 b.24.1.1 83618 b.30.5.2 83619 4kbpA 432 2.61e+01 4kbpA b.1.12.1 22345 d.159.1.1 42064 1umvX 122 2.61e+01 1o98A 511 2.65e+01 c.105.1.1 86684 c.76.1.3 86685 1t2dA 322 2.68e+01 1nulA 152 2.70e+01 1nulA c.61.1.1 34011 1fo8A 343 2.77e+01 1foaA c.68.1.10 59927 1rvgA 305 2.82e+01 1cex 214 2.87e+01 1cex c.23.9.1 31285 1jkmB 361 2.88e+01 1jkmA c.69.1.2 34634 1dbtA 239 2.89e+01 1dbtA c.1.2.3 28539 1e7uA 961 2.90e+01 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1olsA 400 2.97e+01 1zrn 232 2.99e+01 1qq5A c.108.1.1 43323 1ir6A 424 3.08e+01 c.107.1.2 71342 1h8lA 380 3.09e+01 b.3.2.1 65737 c.56.5.1 65738 1aj8A 371 3.11e+01 1aj8A a.103.1.1 18900 1dik 874 3.13e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1on3A 523 3.13e+01 c.14.1.4 87107 c.14.1.4 87108 1a7j 290 3.14e+01 1a7j c.37.1.6 31952 1r3sA 367 3.14e+01 1e0tA 470 3.15e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1jltA 122 3.16e+01 a.133.1.2 66867 1knwA 425 3.16e+01 1eqjA 511 3.17e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1eyeA 280 3.17e+01 1aj2 c.1.21.1 29672 1o4uA 285 3.18e+01 c.1.17.1 86624 d.41.2.1 86625 1e8gA 560 3.20e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1uouA 474 3.24e+01 1i8dA 213 3.24e+01 b.43.4.3 61953 b.43.4.3 61954 1ffa 214 3.26e+01 1cex c.23.9.1 31289 1otgA 125 3.26e+01 1otgA d.80.1.2 39831 2fokA 579 3.27e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1p3wA 404 3.29e+01 c.67.1.3 87752 1qqqA 264 3.30e+01 1bkpA d.117.1.1 40931 1lwjA 441 3.31e+01 b.71.1.1 74303 c.1.8.1 74304 1jbwA 428 3.31e+01 c.59.1.2 62860 c.72.2.2 62861 1qr0A 228 3.35e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1sb8A 352 3.36e+01 1j9bA 141 3.37e+01 c.47.1.12 66459 1ddgA 374 3.38e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1ckv 141 3.39e+01 1ckv d.137.1.1 41452 1lw6E 281 3.40e+01 c.41.1.1 74293 1ldjA 760 3.44e+01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1gdhA 320 3.44e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 2apr 325 3.51e+01 2er7E b.50.1.2 26819 1mpxA 615 3.52e+01 b.18.1.13 85041 c.69.1.21 85042 1qnaA 200 3.55e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1c96A 753 3.62e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1g6sA 427 3.62e+01 1eps d.68.2.2 39584 1k30A 368 3.63e+01 c.112.1.1 68067 1dp4A 435 3.68e+01 1dp4A c.93.1.1 35710 1sfsA 240 3.71e+01 1a0p 290 3.73e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 1d8hA 311 3.74e+01 1d8iA d.63.1.1 39544 1cojA 212 3.75e+01 1avmA a.2.11.1 15737 d.44.1.1 38734 1g8iA 190 3.76e+01 1rec a.39.1.5 60363 1ltoA 245 3.76e+01 b.47.1.2 84707 1umdA 367 3.79e+01 1iatA 557 3.83e+01 1dqrA c.80.1.2 62123 1vhvA 268 3.86e+01 1pbgA 468 3.86e+01 1e70M c.1.8.4 28946 1qmeA 702 3.89e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1nnlA 225 3.91e+01 c.108.1.4 85906 1ja9A 274 3.94e+01 c.2.1.2 62817 1j97A 211 3.95e+01 1f5sA c.108.1.4 62753 1l7mA 211 3.97e+01 c.108.1.4 73664