# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-scores 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 1tnfA 158 9.74e-02 2tnfA b.22.1.1 23871 3l9jT 149 1.39e-01 2e7aA 157 1.60e-01 4tsvA 150 1.67e-01 2tnfA b.22.1.1 23860 2tnfA 156 3.46e-01 2tnfA b.22.1.1 23880 1a8mA 157 3.76e-01 2tnfA b.22.1.1 23868 1z47A 355 3.96e-01 2glzA 153 7.68e-01 d.81.3.1 135348 2wgoA 98 1.26e+00 3eo6A 106 1.31e+00 1o7iA 119 2.63e+00 b.40.4.3 86642 3kwuA 150 3.34e+00 2fblA 153 3.39e+00 d.63.1.2 133249 1oqeA 144 3.51e+00 b.22.1.1 87286 1fguA 252 3.67e+00 1jmcA b.40.4.3,b.40.4.3 25296,25297 1y6kR 214 3.81e+00 b.1.2.1,b.1.2.1 122663,122664 2qa9E 185 3.83e+00 b.47.1.1 150200 1sgpE 185 3.83e+00 1qq4A b.47.1.1 25816 2v6vA 156 4.05e+00 3hzhB 172 4.06e+00 3kf8A 220 4.22e+00 1k42A 168 4.43e+00 b.18.1.14 72032 3h0lB 478 4.67e+00 3fvqA 359 4.74e+00 1bdyA 123 4.77e+00 1bdyA b.7.1.1 23190 2r60A 499 4.87e+00 1wdxA 69 5.04e+00 1aihA 170 5.09e+00 1aihA d.163.1.1 42149 2wawA 199 5.32e+00 2vovA 336 5.37e+00 3jxsA 174 5.45e+00 1kxgA 152 6.03e+00 b.22.1.1 73145 1onqA 283 6.40e+00 b.1.1.2,d.19.1.1 93365,93366 1tg0A 68 6.41e+00 2rdkA 109 6.73e+00 2b0rA 202 7.56e+00 1khdA 345 7.61e+00 a.46.2.1,c.27.1.1 77400,77401 1nb9A 147 8.46e+00 b.43.5.1 85515 1y3tA 337 9.64e+00 b.82.1.5 122600 3kkgA 146 9.69e+00 2p2sA 336 1.01e+01 2h0vA 338 1.01e+01 1oxwA 373 1.03e+01 c.19.1.3 87539 1jmcA 246 1.03e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 2hzlA 365 1.06e+01 1yrkA 126 1.07e+01 3ljyA 243 1.07e+01 1yb2A 275 1.10e+01 c.66.1.13 122868 1bmlC 362 1.10e+01 1bmlC d.15.5.1,d.15.5.1,d.15.5.1 37729,37730,37731 3i35A 60 1.10e+01 3mhsA 476 1.14e+01 1vc3B 97 1.16e+01 2bycA 137 1.26e+01 d.58.10.2 129476 3gfzA 413 1.28e+01 2ooqA 286 1.34e+01 2nqlA 388 1.39e+01 2pp6A 102 1.41e+01 b.106.1.2 149728 1j1tA 233 1.42e+01 b.29.1.18 90771 1tx4B 178 1.45e+01 1ctqA c.37.1.8 32045 3k17A 365 1.49e+01 2zooA 442 1.51e+01 2sfaA 191 1.52e+01 b.47.1.1 25815 1gutA 68 1.56e+01 b.40.6.1 65576 1jkgA 140 1.57e+01 d.17.4.2 66795 1a87 321 1.69e+01 1a87 1d7qA 143 1.83e+01 1d7qA b.40.4.5 25331 1kbvA 327 1.84e+01 b.6.1.3,b.6.1.3 68395,68396 1b9mA 265 1.84e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1ocsA 162 2.05e+01 d.189.1.1 92776 2jjuA 127 2.12e+01 1lqyA 184 2.15e+01 d.167.1.1 74212 2amuA 143 2.17e+01 2ebdA 309 2.17e+01 1svsA 353 2.18e+01 c.37.1.8 106051 1a78A 134 2.19e+01 1c1lA b.29.1.3 24212 3h15A 198 2.21e+01 1q8rA 120 2.23e+01 d.79.6.1 96225 2kk8A 84 2.24e+01 1vqtA 213 2.29e+01 c.1.2.3 120417 1t6eX 381 2.38e+01 b.50.1.2 106564 1nvpC 76 2.52e+01 b.56.1.1 92212 2h8eA 120 2.52e+01 1sqlA 146 2.56e+01 d.96.1.3 105925 3g4pA 244 2.58e+01 1vkyA 347 2.62e+01 e.53.1.1 108696 3c19A 186 2.65e+01 2jc7A 244 2.66e+01 2vbuA 136 2.69e+01 b.43.5.2 152911 1dqiA 124 2.70e+01 1do6A b.1.13.1 22357 1cipA 353 2.71e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1zh8A 340 2.81e+01 c.2.1.3,d.81.1.5 125077,125078 2oklA 185 2.83e+01 1rvkA 382 2.87e+01 c.1.11.2,d.54.1.1 97928,97929 2ajfE 180 2.93e+01 d.318.1.1 126884 1c8zA 265 2.96e+01 1c8zA d.23.1.1 38375 2ghvC 203 2.99e+01 d.318.1.1 135214 1kzlA 208 3.03e+01 b.43.4.3,b.43.4.3 77635,77636 1kkhA 317 3.03e+01 d.14.1.5,d.58.26.3 72645,72646 2pbeA 294 3.09e+01 a.160.1.5,d.218.1.13 149355,149356 3hd8A 389 3.12e+01 2dd8S 202 3.12e+01 d.318.1.1 131393 3kg9A 296 3.29e+01 2axoA 270 3.30e+01 c.47.1.19 127496 1mjuL 219 3.30e+01 b.1.1.1,b.1.1.2 91304,91305 7odcA 424 3.31e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1do6A 124 3.36e+01 1do6A b.1.13.1 22361 1tnrA 144 3.43e+01 2tnfA b.22.1.1 23867 3fv7A 244 3.50e+01 3e29A 144 3.56e+01 3k2mC 101 3.59e+01 2x540 372 3.64e+01 3ebeA 200 3.65e+01 3edpA 236 3.70e+01 1rcqA 357 3.82e+01 b.49.2.2,c.1.6.1 104882,104883 3g0mA 141 3.83e+01 2x531 375 3.85e+01 3kzhA 328 3.96e+01 2g1uA 155 3.98e+01 1uh6A 100 3.99e+01 d.15.1.1 99394 3bjvA 161 4.00e+01 3m6sA 331 4.02e+01 1h6hA 143 4.05e+01 d.189.1.1 65681 2gk6A 624 4.10e+01 3ic3A 101 4.16e+01 3e53A 480 4.18e+01 2c4eA 302 4.22e+01 1h9sA 140 4.24e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1q1cA 280 4.25e+01 d.26.1.1,d.26.1.1 104474,104475 3fkeA 129 4.26e+01 2oynA 146 4.26e+01 b.43.5.2 149067 2bpqA 373 4.36e+01 3fssA 237 4.40e+01 1d7kA 421 4.43e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1xb3A 128 4.43e+01 b.6.1.1 115060 1tzzA 392 4.47e+01 c.1.11.2,d.54.1.1 112896,112897 1h5bB 113 4.48e+01 b.1.1.1 60639 3l4bA 143 4.55e+01 3f7fA 729 4.62e+01 1hjdA 101 4.64e+01 b.34.2.1 65846 3hxjA 330 4.66e+01 2nwhA 317 4.71e+01 3en2A 101 4.84e+01 1uebA 184 4.84e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 2jk8A 302 4.86e+01 1iqaA 160 4.91e+01 b.22.1.1 71274 1c52 131 4.95e+01 1c52 1c52A 131 4.95e+01 a.3.1.1 15810 1h5bA 113 4.99e+01 1tvdA b.1.1.1 60638 3km3A 206 5.10e+01 2btuA 346 5.10e+01 2ov7A 137 5.12e+01 2ii1A 301 5.14e+01 1suvE 345 5.19e+01 i.21.1.1 99011 1y9zA 441 5.22e+01 2oqkA 117 5.25e+01 3it8D 324 5.27e+01 2ibpA 409 5.31e+01 2por 301 5.34e+01 2por 2porA 301 5.34e+01 f.4.3.1 43759 2kgyA 102 5.40e+01 2v8lA 106 5.55e+01 1qhuA 460 5.72e+01 1qhuA b.66.1.1,b.66.1.1 27530,27531 1i1jA 108 5.75e+01 1i1jA b.34.2.1 61531 2brjA 188 5.82e+01 b.159.1.1 146213 1s55A 156 5.84e+01 b.22.1.1 118865 1jj7A 260 5.85e+01 c.37.1.12 63114 1ka9H 200 6.05e+01 c.23.16.1 77308 3fppA 341 6.13e+01 2aznA 219 6.19e+01 c.71.1.2 127608 1u5xA 140 6.24e+01 b.22.1.1 113055 3ezmA 101 6.30e+01 3ezmA b.89.1.1 28395 2w5yA 192 6.31e+01 3f1zA 133 6.34e+01 1jnrB 150 6.36e+01 d.58.1.5 66969 2h29A 189 6.43e+01 1khoA 370 6.58e+01 a.124.1.1,b.12.1.3 72489,72490 3bpuA 88 6.69e+01 1v3eA 431 6.70e+01 b.68.1.1 100287 2djmA 106 6.72e+01 2vq4A 106 6.76e+01 1z8kA 193 6.81e+01 b.159.1.1 124703 1z4vA 532 6.96e+01 2hczX 245 7.04e+01 1miwA 404 7.09e+01 a.173.1.1,d.218.1.4 79162,79163 1cghA 224 7.11e+01 1a7s b.47.1.2 26290 1kz7A 353 7.15e+01 a.87.1.1,b.55.1.1 73333,73334 3eykA 323 7.20e+01 2biiA 424 7.25e+01 1e8tA 454 7.28e+01 1e8tA b.68.1.1 59387 2o7rA 338 7.41e+01 3i1iA 377 7.42e+01 1fnhA 271 7.43e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 2aneA 125 7.47e+01 b.122.1.10 127046 3h7nA 729 7.61e+01 1fna 93 7.65e+01 1fnf 3h7lA 586 7.67e+01 1yfoA 302 7.75e+01 2shpA c.45.1.2 32681 1dmaA 214 7.81e+01 1aerA d.166.1.1 42251 2wxuA 370 7.83e+01 1ca1 370 7.90e+01 1ca1 1ca1A 370 7.90e+01 a.124.1.1,b.12.1.3 19340,23648 1lqwA 183 7.94e+01 d.167.1.1 74210 3i23A 349 7.95e+01