# 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 1.43e-20 3ullA b.40.4.3 25284 1kawA 135 5.44e-18 3ullA b.40.4.3 25288 3ullA 132 4.14e-15 3ullA b.40.4.3 25282 1bfeA 119 1.51e-02 1pdr b.36.1.1 24775 1pdr 99 1.54e-02 1pdr b.36.1.1 24771 1be9A 119 3.34e-02 1pdr b.36.1.1 24774 1otcA 495 1.23e-01 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1a8p 258 1.25e-01 1fdr b.43.4.2 25654 c.25.1.1 31544 1ndoB 194 1.47e-01 1ndoB d.17.4.4 38121 1je5A 206 2.91e-01 1je5A b.40.4.7 62909 1jb7A 495 3.43e-01 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1eg9B 194 8.69e-01 1ndoB d.17.4.4 38120 1d1nA 99 1.49e+00 1d1nA b.43.3.1 25718 1ewjA 126 1.54e+00 1ecsA d.32.1.2 59526 1ecsA 126 1.92e+00 1ecsA d.32.1.2 59407 1fdr 248 2.17e+00 1fdr b.43.4.2 25653 c.25.1.1 31543 1jd0A 263 2.53e+00 2cba b.74.1.1 62888 1qg0A 308 2.69e+00 1fnc b.43.4.2 25639 c.25.1.1 31529 1a78A 134 3.86e+00 1c1lA b.29.1.3 24212 1jj2B 337 4.61e+00 1ffkB b.43.3.2 63086 2tnfA 156 4.62e+00 2tnfA b.22.1.1 23880 1que 303 4.97e+00 1fnc b.43.4.2 25647 c.25.1.1 31537 1ep3B 262 5.02e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 1bmv2 374 6.32e+00 1bmv2 1gm5A 780 6.54e+00 a.29.4.1 65298 b.40.4.9 65299 c.37.1.13 65300 c.37.1.13 65301 1cqqA 180 7.04e+00 1cqqA b.47.1.4 26422 1cne 270 7.08e+00 1ndh b.43.4.2 25661 c.25.1.1 31551 1at0 145 8.28e+00 1at0 b.86.1.1 28374 2tdt 274 8.60e+00 3tdt b.81.1.2 28054 1cjwA 166 9.04e+00 1cjwA d.108.1.1 40818 3tdt 274 9.48e+00 3tdt b.81.1.2 28053 1fnd 314 9.70e+00 1fnc b.43.4.2 25626 c.25.1.1 31516 1ihjA 98 9.81e+00 1pdr b.36.1.1 62382 1b8zA 90 9.86e+00 1huuA a.55.1.1 17902 1b8aA 438 1.01e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1fnc 314 1.03e+01 1fnc b.43.4.2 25627 c.25.1.1 31517 1jatB 138 1.04e+01 1jatB d.20.1.1 62819 1fvzA 271 1.10e+01 1fvzA d.129.3.4 60050 1l9mA 692 1.13e+01 1qcsA 211 1.16e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1eu3A 210 1.16e+01 1an8 b.40.2.2 25206 d.15.6.1 37795 1jmcA 246 1.21e+01 1jmcA b.40.4.3 25300 b.40.4.3 25301 1e19A 314 1.21e+01 1b7bA c.73.1.1 34967 1be1 137 1.24e+01 1be1 c.23.6.1 31237 1deoA 233 1.30e+01 1deoA c.23.10.4 31345 1i7dA 659 1.33e+01 1d6mA e.10.1.1 61886 1b1a 137 1.35e+01 1be1 c.23.6.1 31242 1hcb 260 1.36e+01 2cba b.74.1.1 27814 2cba 260 1.37e+01 2cba b.74.1.1 27821 1a7cA 379 1.37e+01 1sek e.1.1.1 42660 1k7cA 233 1.38e+01 c.23.10.4 68267 1a12A 413 1.39e+01 1a12A b.69.5.1 27663 3nn9 388 1.41e+01 2qwc b.68.1.1 27566 1i36A 264 1.46e+01 1hqcA 324 1.50e+01 1hqcA a.4.5.11 16127 c.37.1.13 32424 1jb3A 131 1.53e+01 1jc7A b.40.3.2 62833 1jh2A 99 1.53e+01 b.35.1.1 63038 1dw9A 156 1.60e+01 1dw9A a.35.1.4 17065 d.72.1.1 39596 1dwkA 156 1.60e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1ep2B 261 1.61e+01 1ep2B b.43.4.2 25666 c.25.1.3 31556 1lj5A 379 1.72e+01 1huuA 90 1.79e+01 1huuA a.55.1.1 17897 1h8dH 260 1.80e+01 5ptp 1wpoB 256 1.80e+01 1lay b.57.1.1 27013 1ffkB 338 1.83e+01 1ffkB b.43.3.2 25719 1ir6A 424 2.00e+01 1f46A 140 2.03e+01 1f46A d.129.4.1 59643 1ft9A 222 2.05e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1j7xA 302 2.15e+01 c.14.1.2 66425 1jc7A 131 2.17e+01 1jc7A b.40.3.2 62873 1danH 254 2.19e+01 5ptp b.47.1.2 26292 1slaA 134 2.19e+01 1c1lA b.29.1.3 24196 1fs7A 485 2.20e+01 1qdbA a.138.1.3 19691 1f28A 297 2.22e+01 1bkpA d.117.1.1 59608 1i7pA 274 2.31e+01 b.43.4.2 66048 c.25.1.1 66049 1sesA 421 2.34e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1sltA 134 2.38e+01 1c1lA b.29.1.3 24186 1bmfA 510 2.41e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1hh1A 143 2.43e+01 1gefA c.52.1.18 61036 1i40A 175 2.45e+01 b.40.5.1 66024 1krs 120 2.46e+01 1krs b.40.4.1 25256 2hvm 273 2.52e+01 1cnv c.1.8.5 28985 1php 394 2.53e+01 16pk c.86.1.1 35452 1jnyA 435 2.60e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1wpoA 256 2.61e+01 1lay b.57.1.1 27012 1a62 130 2.66e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1ucyE 109 2.71e+01 1ucyE 3hmgA 328 2.71e+01 1hgeA b.19.1.2 23825 1caj 260 2.74e+01 2cba b.74.1.1 27841 2qwc 388 2.76e+01 2qwc b.68.1.1 27547 1lay 256 2.76e+01 1lay b.57.1.1 27014 1f8eA 388 2.79e+01 2qwc b.68.1.1 59694 1ndh 272 2.80e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 8kme2 259 2.81e+01 1ucyE 1ju3A 583 2.82e+01 b.18.1.13 67300 c.69.1.21 67301 1axiB 236 2.84e+01 1axiB b.1.2.1 21997 b.1.2.1 21998 5nn9 388 2.85e+01 2qwc b.68.1.1 27563 1qj4A 257 2.96e+01 1qj4A c.69.1.20 34796 1hnnA 282 3.08e+01 c.66.1.15 65895 1gd5A 130 3.14e+01 1gd5A d.189.1.1 60439 1b33N 67 3.16e+01 1b33N d.30.1.1 38459 1qdbA 473 3.16e+01 1qdbA a.138.1.3 19688 1bg6 359 3.28e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1fljA 260 3.33e+01 2cba b.74.1.1 27954 1al3 324 3.35e+01 1al3 c.94.1.1 35835 2ebn 289 3.38e+01 2ebn c.1.8.5 28990 1j8rA 196 3.41e+01 1j8rA b.2.3.3 62745 1ccwA 137 3.44e+01 1be1 c.23.6.1 31238 1d6mA 653 3.49e+01 1d6mA e.10.1.1 43248 1cliA 345 3.53e+01 1cliA d.79.4.1 39816 d.139.1.1 41459 1d5yA 292 3.59e+01 1d5yA a.4.1.8 16055 a.4.1.8 16056 d.60.1.2 39532 1jbuH 254 3.69e+01 5ptp b.47.1.2 62856 2dln 306 3.74e+01 1iow c.30.1.2 31715 d.142.1.1 41483 2polA 366 3.76e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1yasA 257 3.76e+01 1qj4A c.69.1.20 34801 1c5lH 259 3.80e+01 5ptp 1mjhB 162 3.82e+01 1mjhA c.29.1.2 31640 1hgeA 328 3.87e+01 1hgeA b.19.1.2 23816 1jg8A 347 3.89e+01 1jg8A c.67.1.1 62946 1mjhA 162 3.91e+01 1mjhA c.29.1.2 31639 2cab 261 3.95e+01 2cba b.74.1.1 27906