# List of top-scoring protein chains for t04-100-30-str2 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 1tljA 213 7.32e-26 1b65A 375 1.60e-01 1b65A d.154.1.1 42020 1ftrA 296 1.66e-01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1kwgA 645 4.08e-01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1t7pA 698 9.10e-01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1w1kA 560 1.07e+00 1oo0B 110 1.18e+00 d.58.7.1 87183 1gpjA 404 1.48e+00 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1rk8A 165 1.61e+00 d.58.7.1 -10018 1rkqA 282 1.69e+00 c.108.1.10 -6847 1j3mA 129 1.96e+00 1j5yA 187 2.57e+00 a.4.5.1 71592 d.94.2.1 71593 1e8gA 560 2.60e+00 1qltA d.58.32.1 39455 d.145.1.1 41718 1evhA 112 2.85e+00 1evhA b.55.1.4 26997 1qwdA 177 4.29e+00 b.60.1.1 -4455 1st0A 337 5.68e+00 unknown_sccs -9014 unknown_sccs -9474 1iyeA 309 5.82e+00 e.17.1.1 83786 1i1kA 309 5.98e+00 1daaA e.17.1.1 61533 1ni4A 365 6.20e+00 c.36.1.7 85728 1v3hA 495 6.76e+00 1f0xA 571 6.78e+00 1f0xA d.58.32.2 39483 d.145.1.1 41746 1uouA 474 7.83e+00 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1eudB 396 7.85e+00 2scuB c.23.4.1 31150 d.142.1.4 41571 1oaoC 729 8.14e+00 e.26.1.3 86746 1b8oA 284 8.17e+00 1b8oA c.56.2.1 33762 1rpjA 288 8.69e+00 2dri c.93.1.1 35656 2irfG 113 8.70e+00 2irfG a.4.5.23 16185 1q6cA 495 8.93e+00 c.1.8.1 -5300 1agi 125 9.02e+00 7rsa d.5.1.1 37303 1brwA 433 9.18e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1ut7A 171 9.29e+00 unknown_sccs -4724 1dkzA 219 9.39e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1byb 495 9.79e+00 1byb c.1.8.1 28790 1s98A 107 1.00e+01 1ad2 228 1.10e+01 1ad2 e.24.1.1 43353 1bjt 793 1.12e+01 1bjt e.11.1.1 43249 1o0xA 262 1.13e+01 d.127.1.1 80755 1eqfA 280 1.16e+01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1nwaA 203 1.28e+01 d.58.28.1 86295 1f7uA 607 1.30e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 2viuA 328 1.32e+01 1hgeA b.19.1.2 23797 1uc2A 481 1.34e+01 unknown_sccs -11725 1iu8A 206 1.36e+01 c.56.4.1 71436 1g57A 217 1.37e+01 1g57A d.115.1.2 60253 1jeyB 565 1.38e+01 1jeqB unknown_sccs -4431 unknown_sccs -7995 1e42A 258 1.39e+01 1e42A b.1.10.1 22316 d.105.1.1 40792 1gudA 288 1.54e+01 c.93.1.1 83326 1a8q 274 1.57e+01 1brt c.69.1.12 34702 1nxiA 132 1.61e+01 d.58.47.1 86381 1is1A 185 1.62e+01 d.67.3.1 83704 1k8wA 327 1.63e+01 b.122.1.1 83094 unknown_sccs -10143 1alo 907 1.63e+01 1alo 2ctc 307 1.65e+01 1aye c.56.5.1 33802 1hlrA 907 1.66e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1bvyF 191 1.66e+01 1bvyF c.23.5.1 31207 2sak 121 1.81e+01 2sak d.15.5.1 37711 1mkeA 152 1.83e+01 b.55.1.4 79231 1kl7A 514 1.96e+01 c.79.1.1 72678 1qysA 106 2.03e+01 unknown_sccs -13432 1wdaA 670 2.10e+01 1pl5A 142 2.15e+01 1k2yX 463 2.20e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1qo7A 394 2.23e+01 1qo7A c.69.1.11 34697 1h0pA 182 2.23e+01 b.62.1.1 76450 1riqA 465 2.26e+01 unknown_sccs -1295 d.104.1.1 -10769 1fxlA 167 2.26e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1ofuX 119 2.26e+01 c.37.1.22 86976 1uwvA 433 2.35e+01 unknown_sccs -3950 unknown_sccs -8107 2napA 723 2.38e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1p5dX 463 2.46e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1vkbA 161 2.47e+01 1afb1 154 2.53e+01 1rtm1 1ufkA 254 2.61e+01 unknown_sccs -8103 1mszA 86 2.63e+01 d.68.7.1 79428 2rmcA 182 2.67e+01 2cpl b.62.1.1 27491 1m2oA 768 2.72e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1hl2A 297 2.72e+01 c.1.10.1 83581 1qm4A 396 2.74e+01 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1m4lA 307 2.77e+01 c.56.5.1 78604 1nyhA 166 2.79e+01 h.1.23.1 86403 1dl5A 317 2.81e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1pyaB 228 2.87e+01 1pyaB 1l3iA 192 2.91e+01 c.66.1.22 77676 1aw7A 194 2.95e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1ytw 306 2.96e+01 1ytw c.45.1.2 32689 1korA 400 2.97e+01 c.26.2.1 72824 d.210.1.1 72825 1nrfA 262 3.02e+01 e.3.1.1 -11780 1qlpA 394 3.06e+01 1ovaA e.1.1.1 42628 1knwA 425 3.06e+01 b.49.2.3 -4274 c.1.6.1 -5229 1uz5A 402 3.12e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1or0A 160 3.13e+01 d.153.1.2 -11415 1bueA 265 3.14e+01 1btl e.3.1.1 42727 1gw5S 142 3.18e+01 d.110.4.2 70633 1lyvA 306 3.23e+01 c.45.1.2 74348 1n9eA 787 3.24e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1ohvA 472 3.27e+01 c.67.1.4 -8181 1fm2A 169 3.28e+01 1fm2A d.153.1.2 59877 1rzjG 321 3.35e+01 d.172.1.1 -11666 1j34B 123 3.39e+01 d.169.1.1 84049 1mml 265 3.46e+01 1mml e.8.1.2 43015 1g9mG 321 3.46e+01 1gc1G d.172.1.1 42492 1pa1A 310 3.48e+01 c.45.1.2 -7332 1rtm1 149 3.48e+01 1rtm1 1ln1A 214 3.59e+01 d.129.3.2 74038 1rg9A 383 3.60e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1khcA 147 3.70e+01 b.34.9.2 68608 1ptvA 321 3.81e+01 1pty c.45.1.2 32665 1jsmA 325 3.88e+01 b.19.1.2 63264