# 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 1i9yA 347 2.35e-58 1i9yA d.151.1.2 62101 1i9zA 347 2.60e-58 1i9yA d.151.1.2 62102 1ako 268 3.78e-06 1ako d.151.1.1 41779 1hd7A 318 4.28e-03 1bix d.151.1.1 41780 1bix 287 8.32e-03 1bix d.151.1.1 41781 2dnjA 260 8.28e-02 3dni d.151.1.1 41790 3dni 260 9.36e-02 3dni d.151.1.1 41791 1g6aA 271 1.35e-01 1btl e.3.1.1 42704 1k0iA 394 7.09e-01 c.3.1.2 67942 d.16.1.2 67943 1pbe 394 7.12e-01 1pbe c.3.1.2 30338 d.16.1.2 37869 1bgj 394 8.85e-01 1pbe c.3.1.2 30352 d.16.1.2 37883 2phh 394 1.15e+00 1pbe c.3.1.2 30353 d.16.1.2 37884 1efcA 393 1.39e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1kk1A 410 1.43e+00 1ckmA 330 1.73e+00 1ckmA b.40.4.6 25358 d.142.2.3 41585 1qhoA 686 1.84e+00 1cxlA b.1.1.5 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 2dpg 485 3.62e+00 1dpgA c.2.1.3 30076 d.81.1.5 39991 1i50B 1224 4.15e+00 e.29.1.2 61755 1dpgA 485 4.20e+00 1dpgA c.2.1.3 30074 d.81.1.5 39989 1cknA 330 4.42e+00 1ckmA b.40.4.6 25360 d.142.2.3 41587 1ton 235 4.75e+00 5ptp b.47.1.2 26307 1i88A 389 4.79e+00 c.95.1.2 66070 c.95.1.2 66071 1k0gA 453 4.81e+00 d.161.1.1 67940 1i86A 389 4.92e+00 c.95.1.2 66068 c.95.1.2 66069 1cgt 684 4.94e+00 1cxlA b.1.1.5 21815 b.3.1.1 22484 b.71.1.1 27722 c.1.8.1 28709 1qfgA 725 5.12e+00 1by5A f.4.3.3 43803 1hd8A 363 5.44e+00 b.105.1.1 65803 e.3.1.1 65804 1bi5A 389 7.07e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1memA 215 7.55e+00 1cs8A d.3.1.1 37069 1brnL 110 7.76e+00 1b20A d.1.1.1 36143 1ha3A 405 7.99e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1a2pA 110 8.21e+00 1b20A d.1.1.1 36140 1pamA 686 8.48e+00 1cxlA b.1.1.5 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1mpyA 307 8.56e+00 1mpyA d.32.1.3 38508 d.32.1.3 38509 1rnbA 110 9.07e+00 1b20A d.1.1.1 36196 1cs8A 316 9.29e+00 1cs8A d.3.1.1 37065 1qjdA 571 9.56e+00 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1cxlA 686 9.56e+00 1cxlA b.1.1.5 21829 b.3.1.1 22498 b.71.1.1 27736 c.1.8.1 28723 1d2eA 397 9.96e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1fjmA 330 9.97e+00 1auiA d.159.1.3 42082 1k0eA 453 1.11e+01 d.161.1.1 67938 1jk7A 323 1.12e+01 1auiA d.159.1.3 63144 1djxB 624 1.18e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1by5A 714 1.23e+01 1by5A f.4.3.3 43800 1b20A 110 1.23e+01 1b20A d.1.1.1 36207 2fcr 173 1.24e+01 1rcf c.23.5.1 31151 1jjvA 206 1.27e+01 1ej6A 1289 1.27e+01 i.7.1.1 45967 1gjwA 637 1.28e+01 b.71.1.1 60582 c.1.8.1 60583 2fcpA 723 1.33e+01 1by5A f.4.3.3 43802 1exmA 405 1.35e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1djxA 624 1.35e+01 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 1gjuA 637 1.35e+01 b.71.1.1 60580 c.1.8.1 60581 1d3cA 686 1.39e+01 1cxlA b.1.1.5 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1d5tA 433 1.40e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1by3A 714 1.53e+01 1by5A f.4.3.3 43801 1etc 110 1.54e+01 1awcA a.4.5.21 16162 1cseE 274 1.56e+01 1gci c.41.1.1 32481 1gv9A 260 1.58e+01 1cb8A 678 1.65e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.3.1 24422 1fc4A 401 1.65e+01 1bs0A c.67.1.4 59760 1aa6 715 1.67e+01 2napA b.52.2.2 26916 c.81.1.1 35324 1bhe 376 1.67e+01 1bhe b.80.1.3 28030 1hw6A 278 1.79e+01 1frb c.1.7.1 61296 1bkpA 278 1.82e+01 1bkpA d.117.1.1 41029 1ed8A 449 1.88e+01 1b8jA c.76.1.1 34988 1ho1A 242 1.90e+01 1ho1A c.1.24.1 61097 1e39A 571 1.93e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 9ldtA 332 1.97e+01 3ldh c.2.1.5 30154 d.162.1.1 42121 1aipE 405 1.98e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 8acn 754 1.98e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1amj 754 2.06e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1alkA 449 2.09e+01 1b8jA c.76.1.1 34994 1ppo 216 2.20e+01 1cs8A d.3.1.1 37020 1qexA 288 2.27e+01 1qexA b.32.1.1 24425 2hpaA 342 2.27e+01 1cviA c.60.1.2 33985 1ush 550 2.28e+01 1ush d.114.1.1 40923 d.159.1.2 42079 2sak 121 2.40e+01 2sak d.15.5.1 37711 1cztA 160 2.46e+01 1cztA b.18.1.2 23715 1gnd 447 2.48e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 2anhA 446 2.50e+01 1b8jA c.76.1.1 35004 1jeqA 609 2.52e+01 1jeqA a.140.2.1 64748 e.31.1.1 64749 1eguA 731 2.59e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.3.1 24423 1d5rA 324 2.59e+01 1d5rA b.7.1.1 23181 c.45.1.1 32697 1rds 105 2.59e+01 9rnt d.1.1.1 36236 1apa 266 2.60e+01 1qi7A d.165.1.1 42205 1qatB 622 2.69e+01 1djxB a.39.1.7 17355 b.7.1.1 23172 c.1.18.1 29600 1czsA 160 2.69e+01 1cztA b.18.1.2 23714 1ckiA 317 2.70e+01 1csn d.144.1.1 41660 1vokA 200 2.81e+01 1ytbA d.129.1.1 41242 d.129.1.1 41243 1ofv 169 2.88e+01 1rcf c.23.5.1 31184 1h6tA 291 2.95e+01 b.1.1.6 65686 c.10.2.1 65687 1a80 277 3.00e+01 1frb c.1.7.1 28700 1jg1A 235 3.03e+01 c.66.1.7 66661 1cviA 342 3.04e+01 1cviA c.60.1.2 33989 1jeyA 609 3.05e+01 1jeqA e.31.1.1 62924 1rms 105 3.09e+01 9rnt d.1.1.1 36235 1b0jA 754 3.17e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1qapA 296 3.21e+01 1qpoA c.1.17.1 29559 d.41.2.1 38595 1wpoA 256 3.28e+01 1lay b.57.1.1 27012 1gkuB 1054 3.30e+01 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 3sil 379 3.31e+01 3sil b.68.1.1 27542 1f60A 458 3.33e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1bouB 302 3.33e+01 1bouB c.56.6.1 33859 1jnyA 435 3.39e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1isiA 265 3.41e+01 2gd1O 334 3.44e+01 1dssG c.2.1.3 29978 d.81.1.1 39893 1hyeA 313 3.48e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1elyA 449 3.51e+01 1b8jA c.76.1.1 35028 1qfcA 306 3.52e+01 1uteA d.159.1.1 42077 1ivhA 394 3.56e+01 3mdeA a.29.3.1 16608 e.6.1.1 42869 1b8jA 449 3.64e+01 1b8jA c.76.1.1 34992 1j9jA 247 3.65e+01 c.106.1.1 62758 1g8jA 825 3.75e+01 1g8jA b.52.2.2 26924 c.81.1.1 35332 2sil 381 3.76e+01 3sil b.68.1.1 27543 1kh5A 449 3.82e+01 1aqzA 149 3.86e+01 1aqzA d.1.1.1 36238 1efm 393 3.87e+01 1efcA c.37.1.8 64732 1cznA 169 3.87e+01 1rcf c.23.5.1 31181 1jyhA 157 3.89e+01 1g8kA 825 3.97e+01 1g8jA b.52.2.2 26920 c.81.1.1 35328