# List of top-scoring protein chains for t2k-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 1abwA 283 6.67e-02 1abwA a.1.1.2 15288 a.1.1.2 15289 1h5rA 293 3.55e-01 c.68.1.6 65623 1nvvS 481 6.56e-01 a.117.1.1 86279 1mp4A 292 1.18e+00 c.68.1.6 79376 1lkxA 697 1.34e+00 c.37.1.9 73981 1fewA 184 1.50e+00 1fewA a.7.4.1 16334 1ki1B 352 1.55e+00 a.87.1.1 72497 b.55.1.1 72498 1jpzA 473 2.30e+00 a.104.1.1 67069 1j1uA 306 2.51e+00 c.26.1.1 83980 1ab4 477 2.87e+00 1ab4 e.11.1.1 43251 1bg1A 722 4.01e+00 1bg1A a.47.1.1 17767 b.2.5.5 22461 d.93.1.1 40527 1jk0A 419 4.01e+00 a.25.1.2 63142 1lvwA 295 4.92e+00 c.68.1.6 84723 1afrA 345 5.14e+00 1afrA a.25.1.2 16805 1bu7A 455 5.18e+00 1bu7A a.104.1.1 18937 1colA 204 5.40e+00 1a87 f.1.1.1 43378 1dg3A 592 5.74e+00 1dg3A a.114.1.1 19078 c.37.1.8 32153 1h0aA 158 6.13e+00 a.118.9.1 76434 1nstA 325 6.43e+00 1nstA c.37.1.5 31951 1qsaA 618 6.55e+00 1qsaA a.118.5.1 19182 d.2.1.6 36988 1eduA 149 6.56e+00 1eduA a.118.9.1 19215 1ffkQ 119 6.78e+00 1ffkQ b.34.5.1 24605 1eyhA 144 6.80e+00 1eduA a.118.9.1 19214 1iybA 208 7.10e+00 1bh9B 89 7.12e+00 1bh9B a.22.1.3 16485 1hz4A 373 7.98e+00 a.118.8.2 65960 1bkdS 439 8.00e+00 1bkdS a.117.1.1 19111 1dlc 584 8.11e+00 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1f5nA 592 8.84e+00 1dg3A a.114.1.1 19077 c.37.1.8 32152 1gqiA 708 9.00e+00 c.1.8.10 76279 d.92.2.2 76280 2bmhA 455 9.86e+00 1bu7A a.104.1.1 18941 1orjA 130 9.91e+00 1e12A 253 1.01e+01 1c3wA f.13.1.1 43428 1flcB 175 1.03e+01 1flcB h.3.1.1 45716 1eguA 731 1.06e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1hc7A 477 1.17e+01 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1lxkA 721 1.26e+01 a.102.3.2 74331 b.24.1.1 74332 b.30.5.2 74333 1oyjA 231 1.29e+01 a.45.1.1 87597 c.47.1.5 87598 1q5nA 454 1.30e+01 1sly 618 1.32e+01 1qsaA a.118.5.1 19184 d.2.1.6 36990 1t7pA 698 1.33e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1vom 762 1.37e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 1oq9A 363 1.47e+01 a.25.1.2 87257 1n7oA 721 1.51e+01 a.102.3.2 80259 b.24.1.1 80260 b.30.5.2 80261 1e8pA 46 1.56e+01 g.55.1.1 59385 1oe9A 795 1.59e+01 1sva1 361 1.59e+01 1vpsA 1dkgD 383 1.64e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1jqeA 292 1.65e+01 c.66.1.19 71789 1h0oA 390 1.81e+01 a.25.1.2 70845 1pmi 440 1.83e+01 1pmi b.82.1.3 28114 1qazA 351 1.87e+01 1qazA a.102.3.1 18848 2wrpR 107 1.91e+01 1jhgA a.4.12.1 19010 1fmcA 255 1.95e+01 1cydA c.2.1.2 29856 1fqvD 149 1.96e+01 1fqvD a.157.1.1 19263 d.42.1.1 38667 1div 149 2.01e+01 1div d.99.1.1 40692 d.100.1.1 40693 1fqvJ 149 2.01e+01 1fqvD a.157.1.1 19266 d.42.1.1 38670 1delA 241 2.04e+01 1dekA c.37.1.1 31844 1nt2B 258 2.06e+01 a.183.1.1 86150 1o1yA 239 2.07e+01 c.23.16.1 86554 1cpq 129 2.09e+01 1cpq a.24.3.2 16556 1dekA 241 2.10e+01 1dekA c.37.1.1 31842 1a6r 471 2.23e+01 3gcb d.3.1.1 37033 1kp9B 287 2.23e+01 c.66.1.18 68734 1a87 321 2.27e+01 1a87 f.1.1.1 43380 1kpgA 287 2.28e+01 c.66.1.18 68735 1xsm 390 2.29e+01 1xsm a.25.1.2 16804 1qgiA 259 2.37e+01 1qgiA d.2.1.7 37001 1hstA 90 2.41e+01 1hstA a.4.5.13 16140 1ha2A 585 2.42e+01 1bj5 a.126.1.1 60866 a.126.1.1 60867 a.126.1.1 60868 2pgd 482 2.47e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1j7nB 776 2.48e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1ljrA 244 2.50e+01 1ljrA a.45.1.1 17707 c.47.1.5 33001 1b3qA 379 2.53e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1nox 205 2.62e+01 1nox d.90.1.1 40242 1aj3 110 2.77e+01 1cunA a.7.1.1 16319 1h8gA 95 2.79e+01 b.109.1.1 65735 3gcb 470 2.79e+01 3gcb d.3.1.1 37032 1fi4A 416 2.96e+01 1fi4A d.14.1.5 59847 d.58.26.2 59848 1h6qA 168 2.96e+01 1h6qA b.88.1.2 60692 1gcb 454 3.06e+01 3gcb d.3.1.1 37034 1trrA 107 3.08e+01 1jhgA a.4.12.1 19017 1oheA 348 3.14e+01 c.45.1.1 87013 c.45.1.1 87014 1c3cA 429 3.19e+01 1c3cA a.127.1.1 19425 1n83A 270 3.22e+01 a.123.1.1 80276 1f9vA 347 3.22e+01 1bg2 c.37.1.9 59745 1ffyA 917 3.30e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 3.30e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1g0rA 293 3.46e+01 1g0rA c.68.1.6 34532 1ekyA 129 3.53e+01 1cpq i.11.1.1 46012 1gheA 177 3.55e+01 d.108.1.1 76222 1n5uA 585 3.57e+01 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1iioA 84 3.63e+01 a.39.4.1 66150 1b78A 193 3.68e+01 1b78A c.51.4.1 33221 1rusA 490 3.69e+01 1burA c.1.14.1 29388 d.58.9.1 39294 1g97A 459 3.72e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 16vpA 366 3.76e+01 16vpA d.180.1.1 42601 1d0yA 761 3.86e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1l7vA 326 3.92e+01 f.22.1.1 73672 2cblA 305 3.93e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528