# List of top-scoring protein chains for t2k-100-30-str 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 1necA 216 4.79e-01 1vfrA d.90.1.1 40249 1a8h 500 6.58e-01 1a8h a.27.1.1 16922 c.26.1.1 31589 1ggqA 174 6.94e-01 1ggqA a.24.12.1 60486 1icrA 217 7.89e-01 1vfrA d.90.1.1 62274 1brwA 433 8.09e-01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1io7A 368 9.57e-01 1f4tA a.104.1.1 18971 1a59 378 9.68e-01 1aj8A a.103.1.1 18902 1cll 148 1.18e+00 1cll a.39.1.5 17263 1dcnD 436 1.19e+00 1auwA a.127.1.1 19423 1hy0A 466 1.52e+00 1auwA a.127.1.1 61392 1k7wA 468 1.60e+00 6cts 433 1.73e+00 1csh a.103.1.1 18891 1auwA 468 2.14e+00 1auwA a.127.1.1 19416 1osa 148 2.22e+00 1cll a.39.1.5 17300 1f1mA 164 2.26e+00 1ggqA a.24.12.1 59598 1ljrA 244 2.41e+00 1ljrA a.45.1.1 17707 c.47.1.5 33001 1rcd 173 2.57e+00 2fha a.25.1.1 16687 1h6oA 204 2.63e+00 a.146.1.1 60689 1exrA 148 2.94e+00 1cll a.39.1.5 17299 1g4yR 148 3.11e+00 1cll a.39.1.5 60252 1fd9A 213 3.29e+00 1fd9A d.26.1.1 59771 1i0aA 466 3.42e+00 1auwA a.127.1.1 61479 1fps 348 3.57e+00 1uby a.128.1.1 19436 5cpp 414 3.65e+00 1phd a.104.1.1 18935 1dcnA 424 3.68e+00 1auwA a.127.1.1 19420 1j6wA 175 4.35e+00 1j98A d.185.1.2 62663 1go3F 107 4.58e+00 a.60.8.2 65407 1ggzA 148 4.60e+00 1b8aA 438 4.61e+00 1b8aA b.40.4.1 25244 d.104.1.1 40765 1h99A 224 4.73e+00 a.142.1.1 60814 a.142.1.1 60815 3cln 148 5.05e+00 1cll a.39.1.5 17286 1d9cA 121 5.29e+00 1d9cA a.26.1.3 16901 1rec 201 5.42e+00 1rec a.39.1.5 17326 1dz4A 414 5.92e+00 1phd a.104.1.1 18903 1phg 414 6.19e+00 1phd a.104.1.1 18910 1b78A 193 6.35e+00 1b78A c.51.4.1 33221 1a28A 256 6.42e+00 1a28A a.123.1.1 19290 1cmnA 402 6.58e+00 1rom a.104.1.1 18958 1phb 414 6.62e+00 1phd a.104.1.1 18906 1qmqA 414 6.65e+00 1phd a.104.1.1 18907 1dik 874 6.76e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1f4tA 368 6.82e+00 1f4tA a.104.1.1 18973 1phd 414 6.85e+00 1phd a.104.1.1 18913 2mjpA 193 6.94e+00 1b78A c.51.4.1 33223 1h7cA 108 6.95e+00 1jfbA 404 7.25e+00 a.104.1.1 66624 1f3iA 481 7.46e+00 1b7eA c.55.3.4 33679 1e1dA 553 7.51e+00 1e1dA e.26.1.1 43363 1qf5A 431 7.75e+00 1adeA c.37.1.10 32212 1f24A 402 8.19e+00 1rom a.104.1.1 18953 1exnA 290 8.19e+00 1exnA a.60.7.1 18088 c.53.1.2 33358 1qtrA 317 8.21e+00 1qtrA c.69.1.7 34660 1ukz 203 8.37e+00 1zin c.37.1.1 31840 2ezi 75 8.38e+00 2ezh a.4.1.2 16028 2ezh 75 8.44e+00 2ezh a.4.1.2 16029 1tpt 440 9.08e+00 1brwA a.46.2.1 17763 c.27.1.1 31627 d.41.3.1 38625 1csh 435 9.38e+00 1csh a.103.1.1 18880 1pbv 195 9.51e+00 1pbv a.118.3.1 19179 1adeA 431 9.54e+00 1adeA c.37.1.10 32213 9gafA 295 9.57e+00 1apyA d.153.1.5 42008 1jb0L 154 9.58e+00 1jb0L f.2.1.12 62829 1pbwA 216 9.61e+00 1pbwA a.116.1.1 19103 1e2uA 553 9.95e+00 1e1dA e.26.1.1 43362 1gntA 553 9.98e+00 1rom 403 1.01e+01 1rom a.104.1.1 18963 1gjnA 153 1.01e+01 1jipA 403 1.02e+01 a.104.1.1 66748 1f1sA 814 1.04e+01 a.102.3.2 64928 b.1.1.5 64929 b.24.1.1 64930 b.30.3.1 64931 1bqv 110 1.06e+01 1bqv a.60.1.1 17932 1ycsB 239 1.08e+01 1ycsB a.118.2.1 19155 b.34.2.1 24553 1bglA 1023 1.09e+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 1jz8A 1023 1.15e+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 1dp0A 1023 1.16e+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 1emvA 86 1.19e+01 1cei a.28.2.1 16944 1zymA 258 1.19e+01 1zymA a.60.10.1 18110 c.8.1.2 30705 1qlaA 656 1.21e+01 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1hqcA 324 1.26e+01 1hqcA a.4.5.11 16127 c.37.1.13 32424 1toh 343 1.28e+01 4pah d.178.1.1 42573 1czpA 98 1.38e+01 1awd d.15.4.1 37645 1qt9A 98 1.38e+01 1awd d.15.4.1 37647 1jb0A 755 1.38e+01 1jb0A f.2.1.12 62820 1hg5A 289 1.45e+01 1hg5A a.118.10.1 19221 1jqjC 343 1.46e+01 a.80.1.1 67097 c.37.1.13 67098 1hf8A 289 1.52e+01 1hg5A a.118.10.1 19219 1be3F 110 1.65e+01 1be3F f.2.1.8 43668 1kxu 333 1.65e+01 1jkw a.74.1.1 18358 a.74.1.1 18359 1qhlA 227 1.67e+01 1qhlA c.37.1.12 32382 1i7gA 287 1.70e+01 1eia 207 1.71e+01 1eia a.28.3.1 16951 a.73.1.1 18331 1vrtA 560 1.72e+01 1rthA c.55.3.1 33574 e.8.1.2 43023 1scmB 145 1.74e+01 1wdcB a.39.1.5 17304 1uby 367 1.75e+01 1uby a.128.1.1 19435 1fhuA 320 1.76e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878 1dioA 554 1.77e+01 1dioA c.1.19.3 29656 1eexA 554 1.78e+01 1dioA c.1.19.3 29650 1jt6A 188 1.78e+01 a.4.1.9 67247 a.121.1.1 67248 3minB 522 1.79e+01 1qguB c.92.2.3 35606 1f46A 140 1.79e+01 1f46A d.129.4.1 59643 1gm5A 780 1.80e+01 a.29.4.1 65298 b.40.4.9 65299 c.37.1.13 65300 c.37.1.13 65301 1i50B 1224 1.83e+01 e.29.1.2 61755 3adk 195 1.86e+01 1zin c.37.1.1 31885 1dwtA 153 1.87e+01 1a6m a.1.1.2 15190 1jdlA 121 1.88e+01 a.3.1.1 66557 1jkw 323 1.90e+01 1jkw a.74.1.1 18356 a.74.1.1 18357 1ebuA 358 1.92e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 1iapA 211 1.93e+01 a.91.1.1 62119 1g8iA 190 1.96e+01 1rec a.39.1.5 60363 2eiaB 206 1.98e+01 1eia a.28.3.1 16950 a.73.1.1 18330 1mbd 153 1.99e+01 1a6m a.1.1.2 15033 1jq5A 370 2.03e+01 e.22.1.2 67084 1iexA 605 2.04e+01 c.1.8.7 66127 c.23.11.1 66128 1jqaA 370 2.06e+01 e.22.1.2 67085 1qb2A 109 2.07e+01 1qb2A a.36.1.1 17125 1d7uA 433 2.12e+01 2dkb c.67.1.4 34439 1dguA 183 2.14e+01 1dguA a.39.1.5 17333 1jksA 294 2.16e+01 1ed1A 135 2.16e+01 1hiwA a.61.1.1 18130 1gu9A 177 2.18e+01 a.152.1.1 65540 1bmfA 510 2.18e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1csn 298 2.21e+01 1csn d.144.1.1 41664 1fkmA 396 2.25e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1e6iA 121 2.26e+01 1b91A a.29.2.1 16969 1dq3A 454 2.28e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1b6g 310 2.29e+01 1b6g c.69.1.8 34661 1ede 310 2.29e+01 1b6g c.69.1.8 34662 1qojA 63 2.30e+01 1qojA a.2.9.1 15716 1ex1A 605 2.32e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1g7dA 106 2.33e+01 1g7dA a.71.1.1 18318 2minB 522 2.35e+01 1qguB c.92.2.3 35610 1f16A 192 2.35e+01 1f16A f.1.4.1 43400 1tfe 145 2.37e+01 1tfe d.43.1.1 38680 1lre 81 2.41e+01 1lre a.13.1.1 16376 1rthA 560 2.43e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1hjp 203 2.44e+01 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1mgn 154 2.47e+01 1a6m a.1.1.2 15097 1mhyB 395 2.48e+01 1mtyB a.25.1.2 16781 1abv 134 2.48e+01 1abv a.70.1.1 18317 1bx4A 345 2.51e+01 1bx4A c.72.1.1 34935 1ebfA 358 2.57e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1fftC 204 2.58e+01 1fftC f.2.1.3 43629 1dat 174 2.59e+01 2fha a.25.1.1 16677 1cv2A 296 2.60e+01 1bn6A c.69.1.8 34680 2mhr 118 2.62e+01 2mhr a.24.4.1 16581 1jndA 420 2.64e+01 1llp 343 2.68e+01 1arv a.93.1.1 18578 1phnA 162 2.73e+01 1cpcA a.1.1.3 15641 1fmk 452 2.77e+01 1fmk b.34.2.1 24511 d.93.1.1 40436 d.144.1.2 41690 1yacA 208 2.79e+01 1yacA c.33.1.2 31757 1a0p 290 2.80e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 1dttA 560 2.81e+01 1rthA c.55.3.1 33611 e.8.1.2 43088 1ax4A 467 2.82e+01 1ax4A c.67.1.2 34391 1hd8A 363 2.86e+01 b.105.1.1 65803 e.3.1.1 65804 1qcrF 103 2.89e+01 1be3F f.2.1.8 43676 1b4aA 149 2.90e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1exnB 290 2.91e+01 1exnA a.60.7.1 18089 c.53.1.2 33359 1jeqB 565 2.91e+01 1jeqB e.31.1.2 62922 1e70M 501 2.93e+01 1e70M c.1.8.4 28926 1hw7A 255 2.93e+01 1i7fA d.193.1.1 61297 1qs2A 401 2.94e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1fp1D 372 2.99e+01 1fpqA a.4.5.29 59939 c.66.1.12 59940 1l2iA 261 3.00e+01 1a26 361 3.04e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1ad2 228 3.07e+01 1ad2 e.24.1.1 43353 1hzxA 349 3.08e+01 1f88A f.2.1.1 61466 1aoa 275 3.10e+01 1aoa a.40.1.1 17396 a.40.1.1 17397 7ahlA 293 3.11e+01 7ahlA f.6.1.1 43812 1fpqA 372 3.12e+01 1fpqA a.4.5.29 59947 c.66.1.12 59948 1b0b 142 3.13e+01 2fal a.1.1.2 15010 1hiwA 133 3.14e+01 1hiwA a.61.1.1 18122 1e6qM 501 3.16e+01 1e70M c.1.8.4 28920 1bvsB 203 3.20e+01 1hjp a.5.1.1 16281 a.60.2.1 17956 b.40.4.2 25275 1e4mM 501 3.20e+01 1e70M c.1.8.4 59226 1ktbA 405 3.21e+01 1pprM 312 3.24e+01 1pprM a.131.1.1 19502 a.131.1.1 19503 1kxpD 458 3.25e+01 1fyhA 258 3.27e+01 1d9cA a.26.1.3 16907 a.26.1.3 16908 1a6m 151 3.27e+01 1a6m a.1.1.2 15018 1c2rA 116 3.28e+01 1ycc a.3.1.1 15887 1anxA 319 3.30e+01 1avc a.65.1.1 18161 1e6yA 569 3.30e+01 1mroA a.89.1.1 18529 d.58.31.2 39447 1eh2 106 3.33e+01 1eh2 a.39.1.6 17339 2dkb 433 3.37e+01 2dkb c.67.1.4 34438 1jdw 423 3.38e+01 1jdw d.126.1.2 41129 1kblA 873 3.56e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1flp 142 3.57e+01 1flp a.1.1.2 15011 1qj2A 166 3.60e+01 1qj2A a.56.1.1 17913 d.15.4.2 37698 1h97A 147 3.62e+01 1h97A a.1.1.2 60812 1j78A 458 3.62e+01 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 1i7fA 292 3.63e+01 1i7fA d.193.1.1 61888 1dmtA 696 3.66e+01 1dmtA d.92.1.4 40296 4crxA 322 3.69e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1mpgA 282 3.74e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1ao0A 459 3.75e+01 1ecfB c.61.1.1 34049 d.153.1.1 41816 1ewxA 146 3.80e+01 1ewxA c.47.1.10 33062 1udg 244 3.81e+01 3eugA c.18.1.1 31016 1k8uA 90 3.81e+01 1wab 232 3.83e+01 1wab c.23.10.3 31341 1hqz9 141 3.85e+01 1lehA 364 3.88e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1eguA 731 3.98e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.3.1 24423 1g6hA 257 3.98e+01 1gajA c.37.1.12 60318