# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1brwA 433 1.39e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1ukz 203 2.69e+00 1zin c.37.1.1 31840 1k7wA 468 3.61e+00 4xiaA 393 3.93e+00 4xis c.1.15.3 29439 1qlaA 656 4.59e+00 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1hy0A 466 4.64e+00 1auwA a.127.1.1 61392 1dcnA 424 4.89e+00 1auwA a.127.1.1 19420 1a59 378 4.92e+00 1aj8A a.103.1.1 18902 1fd9A 213 5.13e+00 1fd9A d.26.1.1 59771 1auwA 468 5.47e+00 1auwA a.127.1.1 19416 1necA 216 5.50e+00 1vfrA d.90.1.1 40249 1icrA 217 5.68e+00 1vfrA d.90.1.1 62274 1ljrA 244 5.77e+00 1ljrA a.45.1.1 17707 c.47.1.5 33001 5cpp 414 5.83e+00 1phd a.104.1.1 18935 1tpt 440 6.83e+00 1brwA a.46.2.1 17763 c.27.1.1 31627 d.41.3.1 38625 1cmnA 402 7.30e+00 1rom a.104.1.1 18958 1dcnD 436 7.81e+00 1auwA a.127.1.1 19423 1iapA 211 7.89e+00 a.91.1.1 62119 6cts 433 8.09e+00 1csh a.103.1.1 18891 1h7cA 108 8.21e+00 1h6oA 204 8.27e+00 a.146.1.1 60689 1phg 414 8.27e+00 1phd a.104.1.1 18910 1toh 343 8.28e+00 4pah d.178.1.1 42573 1go3F 107 8.66e+00 a.60.8.2 65407 1d9cA 121 8.98e+00 1d9cA a.26.1.3 16901 1phb 414 8.99e+00 1phd a.104.1.1 18906 1jfbA 404 9.01e+00 a.104.1.1 66624 1f24A 402 9.05e+00 1rom a.104.1.1 18953 1e70M 501 9.28e+00 1e70M c.1.8.4 28926 1phd 414 9.36e+00 1phd a.104.1.1 18913 1dz4A 414 9.65e+00 1phd a.104.1.1 18903 1i0aA 466 9.67e+00 1auwA a.127.1.1 61479 1h99A 224 9.70e+00 a.142.1.1 60814 a.142.1.1 60815 1e4iA 447 9.76e+00 1e70M c.1.8.4 59225 1jipA 403 9.92e+00 a.104.1.1 66748 1uby 367 1.03e+01 1uby a.128.1.1 19435 1b6g 310 1.04e+01 1b6g c.69.1.8 34661 1ede 310 1.06e+01 1b6g c.69.1.8 34662 1rom 403 1.07e+01 1rom a.104.1.1 18963 1ebuA 358 1.11e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 1qmqA 414 1.15e+01 1phd a.104.1.1 18907 1hqcA 324 1.19e+01 1hqcA a.4.5.11 16127 c.37.1.13 32424 1a28A 256 1.20e+01 1a28A a.123.1.1 19290 1ebfA 358 1.20e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1rec 201 1.22e+01 1rec a.39.1.5 17326 1ebmA 317 1.24e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1e4mM 501 1.28e+01 1e70M c.1.8.4 59226 1e6qM 501 1.30e+01 1e70M c.1.8.4 28920 1f1mA 164 1.31e+01 1ggqA a.24.12.1 59598 1tr1A 447 1.32e+01 1e70M c.1.8.4 28957 1io7A 368 1.32e+01 1f4tA a.104.1.1 18971 1i50B 1224 1.38e+01 e.29.1.2 61755 1qf5A 431 1.43e+01 1adeA c.37.1.10 32212 1adeA 431 1.44e+01 1adeA c.37.1.10 32213 1exnB 290 1.45e+01 1exnA a.60.7.1 18089 c.53.1.2 33359 1qt9A 98 1.53e+01 1awd d.15.4.1 37647 1czpA 98 1.54e+01 1awd d.15.4.1 37645 1exnA 290 1.56e+01 1exnA a.60.7.1 18088 c.53.1.2 33358 1ycsB 239 1.58e+01 1ycsB a.118.2.1 19155 b.34.2.1 24553 1vxrA 537 1.61e+01 2bce c.69.1.1 34595 1j9bA 141 1.62e+01 c.47.1.12 66459 1fps 348 1.75e+01 1uby a.128.1.1 19436 1cpt 412 1.80e+01 1cpt a.104.1.1 18968 1ea5A 537 1.86e+01 2bce c.69.1.1 34592 1jlnA 297 1.87e+01 1pty c.45.1.2 63172 1rcd 173 1.87e+01 2fha a.25.1.1 16687 2minB 522 1.88e+01 1qguB c.92.2.3 35610 1dik 874 1.91e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1aipE 405 1.98e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 3minB 522 2.02e+01 1qguB c.92.2.3 35606 1itf 165 2.03e+01 1b5l a.26.1.3 16899 1efyA 350 2.06e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1jndA 420 2.09e+01 1qcrF 103 2.10e+01 1be3F f.2.1.8 43676 1pbv 195 2.11e+01 1pbv a.118.3.1 19179 3adk 195 2.12e+01 1zin c.37.1.1 31885 1ggqA 174 2.12e+01 1ggqA a.24.12.1 60486 1osa 148 2.17e+01 1cll a.39.1.5 17300 1pda 315 2.20e+01 1pda c.94.1.1 35751 d.50.2.1 38794 1i5pA 633 2.22e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1af7 274 2.23e+01 1af7 a.58.1.1 17928 c.66.1.8 34203 1f8xA 157 2.28e+01 1f8xA c.23.14.1 31397 1ab4 477 2.33e+01 1ab4 e.11.1.1 43251 1fkmA 396 2.35e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1jsxA 207 2.37e+01 1dp0A 1023 2.42e+01 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.1.1 24346 c.1.8.3 28845 1be3F 110 2.43e+01 1be3F f.2.1.8 43668 1jz8A 1023 2.46e+01 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.1.1 67833 c.1.8.3 67834 1bglA 1023 2.46e+01 1bglA b.1.4.1 22097 b.1.4.1 22098 b.18.1.5 23734 b.30.1.1 24358 c.1.8.3 28857 1g7dA 106 2.46e+01 1g7dA a.71.1.1 18318 1bc5A 269 2.50e+01 1af7 a.58.1.1 17929 c.66.1.8 34204 1a8h 500 2.51e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 1jb0L 154 2.52e+01 1jb0L f.2.1.12 62829 1f8yA 157 2.54e+01 1f8xA c.23.14.1 31395 1cll 148 2.55e+01 1cll a.39.1.5 17263 1do0A 442 2.56e+01 1do0A c.37.1.13 32432 1qidA 537 2.61e+01 2bce c.69.1.1 34593 1e1dA 553 2.66e+01 1e1dA e.26.1.1 43363 1f4tA 368 2.67e+01 1f4tA a.104.1.1 18973 2mhr 118 2.74e+01 2mhr a.24.4.1 16581 1j58A 385 2.81e+01 1exrA 148 2.84e+01 1cll a.39.1.5 17299 1kufA 203 2.86e+01 2btvA 901 2.94e+01 2btvA e.28.1.1 43376 1a26 361 2.98e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1e2uA 553 3.10e+01 1e1dA e.26.1.1 43362 1gntA 553 3.13e+01 1g4yR 148 3.15e+01 1cll a.39.1.5 60252 1frrA 95 3.16e+01 1awd d.15.4.1 37674 1octC 156 3.24e+01 1au7A a.4.1.1 15991 a.35.1.1 17017 1pbgA 468 3.30e+01 1e70M c.1.8.4 28946 1pbwA 216 3.31e+01 1pbwA a.116.1.1 19103 1f1sA 814 3.41e+01 a.102.3.2 64928 b.1.1.5 64929 b.24.1.1 64930 b.30.3.1 64931 2gsq 202 3.42e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1mgn 154 3.46e+01 1a6m a.1.1.2 15097 1sly 618 3.55e+01 1qsaA a.118.5.1 19184 d.2.1.6 36990 1skyE 473 3.57e+01 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1qe3A 489 3.60e+01 2bce c.69.1.1 34630 1kugA 203 3.62e+01 1k3rA 268 3.65e+01 1jkw 323 3.68e+01 1jkw a.74.1.1 18356 a.74.1.1 18357 1csh 435 3.72e+01 1csh a.103.1.1 18880 1jt6A 188 3.74e+01 a.4.1.9 67247 a.121.1.1 67248 1cpo 299 3.75e+01 1cpo a.39.3.1 17390 a.39.3.1 17391 3pbgA 468 3.87e+01 1e70M c.1.8.4 28951 1i74A 309 3.90e+01 1i74A c.107.1.1 61867 1dmtA 696 3.95e+01 1dmtA d.92.1.4 40296 1jqjC 343 3.99e+01 a.80.1.1 67097 c.37.1.13 67098