# 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 1qvcA 145 7.54e-27 3ullA b.40.4.3 25284 1kawA 135 5.21e-22 3ullA b.40.4.3 25288 3ullA 132 2.07e-17 3ullA b.40.4.3 25282 1je5A 206 9.33e-03 1je5A b.40.4.7 62909 1bfeA 119 3.53e-02 1pdr b.36.1.1 24775 1pdr 99 4.01e-02 1pdr b.36.1.1 24771 1be9A 119 7.88e-02 1pdr b.36.1.1 24774 1a8p 258 3.88e-01 1fdr b.43.4.2 25654 c.25.1.1 31544 1otcA 495 6.29e-01 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1ndoB 194 8.76e-01 1ndoB d.17.4.4 38121 1be1 137 1.47e+00 1be1 c.23.6.1 31237 1d1nA 99 1.71e+00 1d1nA b.43.3.1 25718 1a49A 530 2.23e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1l9mA 692 2.36e+00 1ewjA 126 3.38e+00 1ecsA d.32.1.2 59526 1jb7A 495 3.40e+00 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1krs 120 4.72e+00 1krs b.40.4.1 25256 1ccwA 137 4.85e+00 1be1 c.23.6.1 31238 1lylA 504 4.85e+00 1lylA b.40.4.1 25261 d.104.1.1 40717 1e1oA 504 4.93e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1qg0A 308 5.15e+00 1fnc b.43.4.2 25639 c.25.1.1 31529 1ecsA 126 5.19e+00 1ecsA d.32.1.2 59407 1btkB 169 6.10e+00 1btkA b.55.1.1 26960 1bmv2 374 6.12e+00 1bmv2 1eg9B 194 6.25e+00 1ndoB d.17.4.4 38120 1pkn 530 6.29e+00 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1fdr 248 6.32e+00 1fdr b.43.4.2 25653 c.25.1.1 31543 1ytfD 121 6.93e+00 1ytfD a.32.1.1 16998 b.56.1.1 27011 1b33N 67 7.18e+00 1b33N d.30.1.1 38459 1h8eG 272 7.44e+00 1e79G c.49.2.1 60756 1ihgA 370 7.61e+00 2cpl a.118.8.1 62380 b.62.1.1 62381 1cqqA 180 8.20e+00 1cqqA b.47.1.4 26422 1jb3A 131 8.88e+00 1jc7A b.40.3.2 62833 1bmfA 510 9.90e+00 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1b1a 137 1.02e+01 1be1 c.23.6.1 31242 1cjwA 166 1.04e+01 1cjwA d.108.1.1 40818 1jc7A 131 1.04e+01 1jc7A b.40.3.2 62873 1dw9A 156 1.10e+01 1dw9A a.35.1.4 17065 d.72.1.1 39596 1dwkA 156 1.10e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1b8zA 90 1.21e+01 1huuA a.55.1.1 17902 3rp2A 224 1.25e+01 1a7s b.47.1.2 26298 1btkA 169 1.26e+01 1btkA b.55.1.1 26959 1kxrA 339 1.28e+01 1hqcA 324 1.30e+01 1hqcA a.4.5.11 16127 c.37.1.13 32424 1bg6 359 1.37e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1ep3B 262 1.37e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1e19A 314 1.37e+01 1b7bA c.73.1.1 34967 1hx0A 496 1.40e+01 b.71.1.1 61346 c.1.8.1 61347 1b8aA 438 1.51e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1ft9A 222 1.54e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1j8mF 297 1.60e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1f52A 468 1.65e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 2lgsA 468 1.73e+01 1lgr d.15.9.1 37838 d.128.1.1 41168 1avaA 403 1.75e+01 1jdc b.71.1.1 27797 c.1.8.1 28784 1lgr 468 1.81e+01 1lgr d.15.9.1 37837 d.128.1.1 41167 1noyA 388 1.83e+01 1clqA c.55.3.5 33713 1ggxA 223 1.86e+01 1ggxA d.22.1.1 38367 1al3 324 2.01e+01 1al3 c.94.1.1 35835 2hvm 273 2.15e+01 1cnv c.1.8.5 28985 1qcsA 211 2.19e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1nozA 388 2.19e+01 1clqA c.55.3.5 33715 1pbn 289 2.25e+01 1b8oA c.56.2.1 33771 2sodB 152 2.28e+01 1mfmA b.1.8.1 22242 4enl 436 2.31e+01 4enl c.1.11.1 29202 d.54.1.1 38846 1cliA 345 2.36e+01 1cliA d.79.4.1 39816 d.139.1.1 41459 1aw8E 91 2.41e+01 1aw8B 1tupA 219 2.47e+01 1tupA b.2.5.1 22434 1oneA 436 2.55e+01 4enl c.1.11.1 29200 d.54.1.1 38844 1aw8B 91 2.55e+01 1aw8B 1fvzA 271 2.55e+01 1fvzA d.129.3.4 60050 1shbA 104 2.55e+01 1fmk d.93.1.1 40425 1ir6A 424 2.65e+01 1que 303 2.69e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1qj4A 257 2.73e+01 1qj4A c.69.1.20 34796 3tdt 274 2.83e+01 3tdt b.81.1.2 28053 2tnfA 156 2.87e+01 2tnfA b.22.1.1 23880 1yaiA 151 2.90e+01 1yaiA b.1.8.1 22289 1jh2A 99 2.92e+01 b.35.1.1 63038 1ep2B 261 2.98e+01 1ep2B b.43.4.2 25666 c.25.1.3 31556 1oaa 259 2.99e+01 1oaa c.2.1.2 29829 2tdt 274 3.03e+01 3tdt b.81.1.2 28054 1h8dH 260 3.05e+01 5ptp 1erzA 303 3.07e+01 1erzA d.160.1.2 59498 1yasA 257 3.13e+01 1qj4A c.69.1.20 34801 1fnd 314 3.14e+01 1fnc b.43.4.2 25626 c.25.1.1 31516 1e3mA 800 3.16e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1a7cA 379 3.21e+01 1sek e.1.1.1 42660 1fnc 314 3.26e+01 1fnc b.43.4.2 25627 c.25.1.1 31517 8kme2 259 3.26e+01 1ucyE 1shaA 104 3.27e+01 1fmk d.93.1.1 40424 1ijaA 148 3.29e+01 1ijaA b.100.1.1 62484 2oneA 436 3.32e+01 4enl c.1.11.1 29203 d.54.1.1 38847 1i40A 175 3.37e+01 b.40.5.1 66024 1c8bA 371 3.45e+01 1c8bA c.56.1.2 59082 1hqz1 141 3.58e+01 1ahtH 259 3.60e+01 5ptp 1pfo 500 3.63e+01 1pfo f.9.1.1 43826 1kyoA 430 3.68e+01 5cpp 414 3.71e+01 1phd a.104.1.1 18935 1qfhA 212 3.72e+01 1qfhA b.1.1.5 21893 b.1.1.5 21894 1f46A 140 3.73e+01 1f46A d.129.4.1 59643 1php 394 3.76e+01 16pk c.86.1.1 35452 1dynA 125 3.84e+01 1dynA b.55.1.1 26955 1danH 254 3.88e+01 5ptp b.47.1.2 26292