# 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.soe.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 2itbA 206 6.74e-01 1epwA 1290 1.15e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1pw4A 451 2.21e+00 f.38.1.1 95198 1xikA 375 2.33e+00 1xikA a.25.1.2 16784 1pfvA 551 2.75e+00 a.27.1.1 94660 c.26.1.1 94661 g.41.1.1 94662 1sw6A 327 2.76e+00 1sw6A d.211.1.1 19176 1v4aA 440 3.84e+00 a.24.16.4 108350 d.218.1.9 108351 1h6gA 256 4.03e+00 1h6gA a.24.9.1 60669 a.24.9.1 60670 3bg2A 444 4.22e+00 1bvp1 349 4.25e+00 1bvp1 1egdA 396 5.47e+00 3mdeA a.29.3.1 16596 e.6.1.1 42857 1f4lA 551 5.48e+00 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1aorA 605 5.60e+00 1b25A a.110.1.1 19042 d.152.1.1 41794 1pu6A 218 5.73e+00 a.96.1.5 95123 1qqtA 551 6.16e+00 1qqtA a.27.1.1 16923 c.26.1.1 31590 g.41.1.1 45175 1krqA 167 6.27e+00 a.25.1.1 68855 2rdzA 452 6.33e+00 1h2sA 225 6.54e+00 f.13.1.1 76578 1biqA 375 7.39e+00 1xikA a.25.1.2 16786 1unlD 208 7.69e+00 a.74.1.1 113326 2r6gG 296 7.70e+00 1av8A 340 8.01e+00 1xikA a.25.1.2 16796 1r03A 182 8.49e+00 a.25.1.1 104675 3ck6A 252 8.64e+00 2qf9A 179 8.82e+00 1mxrA 375 9.53e+00 a.25.1.2 85197 2dsjA 423 9.86e+00 1s2xA 206 1.03e+01 a.47.3.1 105229 2ouwA 138 1.07e+01 1wwmA 190 1.10e+01 a.132.1.3 121363 1z21A 112 1.21e+01 a.243.1.2 124367 1h68A 239 1.25e+01 f.13.1.1 118486 1v54A 514 1.26e+01 f.24.1.1 100321 2rghA 571 1.29e+01 1itwA 741 1.30e+01 c.77.1.2 76793 1tqyA 424 1.36e+01 c.95.1.1 107245 c.95.1.1 107246 2p14A 192 1.36e+01 2aelA 374 1.36e+01 2occA 514 1.38e+01 2occA f.24.1.1 43518 2hnhA 910 1.39e+01 3bi1A 709 1.41e+01 2fm9A 215 1.43e+01 a.257.1.1 133770 1ykjA 394 1.46e+01 1iweA 457 1.47e+01 c.37.1.10 71486 1jgjA 217 1.53e+01 1c3wA f.13.1.1 62952 2dfkA 402 1.63e+01 1ribA 375 1.64e+01 1xikA a.25.1.2 16788 1keyA 235 1.70e+01 a.118.16.1 72389 2qeuA 141 1.70e+01 1cpcA 162 1.71e+01 1cpcA a.1.1.3 15643 3caxA 369 1.71e+01 3biqA 467 1.73e+01 2o9gA 234 1.75e+01 3bhcA 249 1.81e+01 2ootA 709 1.84e+01 a.48.2.1 139176 c.8.4.1 139177 c.56.5.5 139178 2nnwA 376 1.85e+01 2jdiG 273 1.86e+01 c.49.2.1 138272 2f6hX 419 1.87e+01 3bhxA 709 1.89e+01 2or0A 414 1.92e+01 1a6dA 545 2.00e+01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1nekA 588 2.00e+01 a.7.3.1 80426 c.3.1.4 80427 d.168.1.1 80428 2idgA 175 2.04e+01 2ps5A 374 2.14e+01 1toaA 313 2.16e+01 1toaA c.92.2.2 35598 1t6jA 714 2.25e+01 a.127.1.2 112259 1uddA 226 2.25e+01 a.132.1.3 107776 1h99A 224 2.27e+01 a.142.1.1 60814 a.142.1.1 60815 2c6cA 707 2.28e+01 a.48.2.1 129989 c.8.4.1 129990 c.56.5.5 129991 1dd5A 185 2.30e+01 1dd5A d.67.3.1 39564 2b0tA 738 2.31e+01 1iw0A 215 2.31e+01 a.132.1.1 83720 1wovA 250 2.37e+01 a.132.1.1 121124 1txdA 385 2.43e+01 a.87.1.1 107422 b.55.1.1 107423 1k0fA 277 2.45e+01 c.92.2.2 71974 2q9rA 200 2.45e+01 2etvA 346 2.47e+01 c.92.2.4 132372 2qisA 374 2.48e+01 1u61A 138 2.48e+01 a.149.1.1 107696 1v2aA 210 2.49e+01 a.45.1.1 100263 c.47.1.5 100264 2o8bB 1022 2.52e+01 2ojqA 348 2.53e+01 1jfgA 374 2.55e+01 a.128.1.5 66636 1vpdA 299 2.61e+01 a.100.1.1 113951 c.2.1.6 113952 1yyqA 374 2.69e+01 1pbe 394 2.75e+01 1pbe 1pbeA 394 2.75e+01 c.3.1.2 30338 d.16.1.2 37869 1t7rA 269 2.75e+01 a.123.1.1 106635 1cj3A 392 2.76e+01 1pbe c.3.1.2 30347 d.16.1.2 37878 2va8A 715 2.77e+01 1q2zA 120 2.78e+01 a.118.19.1 95656 2f94F 350 2.87e+01 1q8cA 151 2.90e+01 a.79.1.2 96202 1t7vA 278 2.92e+01 b.1.1.2 112302 d.19.1.1 112303 1vpt 348 2.93e+01 3mag 1vptA 348 2.93e+01 c.66.1.25 34207 1y2mA 716 2.97e+01 2qvwA 756 2.98e+01 2pziA 681 3.05e+01 2ie4A 589 3.10e+01 a.118.1.2 137291 2qwtA 196 3.10e+01 1h21A 247 3.16e+01 a.138.1.3 76510 1hyt 316 3.17e+01 1hyt 8tlnE 316 3.17e+01 1hyt d.92.1.2 59075 1wzdA 215 3.18e+01 a.132.1.1 121493 2p6vA 114 3.20e+01 1k0iA 394 3.21e+01 c.3.1.2 67942 d.16.1.2 67943 2vhbA 146 3.29e+01 2vhbA a.1.1.2 15629 1yv5A 374 3.31e+01 1tm0A 350 3.31e+01 d.21.1.3 107147 2pgd 482 3.39e+01 2pgd 2pgdA 482 3.39e+01 a.100.1.1 18778 c.2.1.6 30190 2h1nA 567 3.41e+01 1fouA 309 3.44e+01 1fouA e.27.1.1 43364 2ga9A 297 3.44e+01 c.66.1.25 134885 1v39 322 3.45e+01 3mag 2pbxA 203 3.49e+01 2g3bA 208 3.51e+01 a.4.1.9 134558 a.121.1.1 134559 1av6A 289 3.52e+01 3mag c.66.1.25 34218 2ck3G 272 3.55e+01 c.49.2.1 130562 1vdzA 588 3.55e+01 2olpA 152 3.56e+01 1rx0A 393 3.64e+01 a.29.3.1 98007 e.6.1.1 98008 2pg0A 385 3.73e+01 2uw1A 338 3.86e+01 2lbd 267 3.88e+01 2lbd 3mag 307 3.93e+01 3mag 1pb6A 212 3.95e+01 a.4.1.9 88017 a.121.1.1 88018 2a19B 284 3.99e+01