# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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.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 1o60A 292 6.04e-02 c.1.10.4 92532 2aq4A 434 4.29e-01 1mjhA 162 7.22e-01 1mjhA c.26.2.4 31639 1vplA 256 7.56e-01 2bgkA 278 7.81e-01 1ur4A 399 9.63e-01 1brwA 433 9.76e-01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1c93A 265 9.90e-01 2ebn c.1.8.5 28998 1edt 271 1.02e+00 2ebn c.1.8.5 28993 1j0aA 325 1.08e+00 c.79.1.1 83871 1uanA 227 1.30e+00 c.134.1.1 99135 1w5tA 412 1.38e+00 1sc6A 404 1.59e+00 1o20A 427 1.64e+00 c.82.1.1 86556 1u2zA 433 1.64e+00 c.66.1.31 107626 1i60A 278 1.94e+00 c.1.15.4 71118 2g09A 297 2.26e+00 2c6cA 707 2.36e+00 2a2fX 325 2.53e+00 1gtzA 156 2.61e+00 c.23.13.1 70539 2bduA 297 2.85e+00 1bxkA 355 2.88e+00 1bxkA c.2.1.2 29803 1jilA 420 2.90e+00 c.26.1.1 66745 2d13A 227 3.07e+00 1h05A 146 3.18e+00 c.23.13.1 76433 1d0iA 156 3.19e+00 2dhqA c.23.13.1 31383 1e4yA 214 3.30e+00 1zin c.37.1.1,g.41.2.1 31901,45181 1pdo 135 3.70e+00 1pdo c.54.1.1 33376 1j0dA 341 3.82e+00 c.79.1.1 83902 2dhqA 146 3.86e+00 2dhqA c.23.13.1 31382 1qtwA 285 3.87e+00 1qumA c.1.15.1 29392 1geqA 248 4.07e+00 2tysA c.1.2.4 28589 2f5gA 133 4.65e+00 1xqiA 195 4.95e+00 1r85A 379 5.21e+00 c.1.8.3 104839 1sz9A 144 5.60e+00 a.118.9.4 106139 1pii 452 5.91e+00 1pii c.1.2.4,c.1.2.4 28559,28563 1kv5A 250 5.94e+00 c.1.1.1 73052 1l8nA 679 5.96e+00 c.1.8.10,d.92.2.2 84564,84565 2bjvA 265 5.97e+00 1furA 467 6.01e+00 1furA a.127.1.1 19403 1h3fA 432 6.08e+00 c.26.1.1,d.66.1.4 76631,76632 1vdkA 466 6.31e+00 a.127.1.1 100561 1sflA 238 6.68e+00 1ka2A 499 6.99e+00 d.92.1.5 77305 16pk 415 7.29e+00 16pk c.86.1.1 35454 1gqiA 708 7.36e+00 c.1.8.10,d.92.2.2 76279,76280 1ydnA 295 7.38e+00 1yzgA 179 7.44e+00 2ac2A 309 7.50e+00 1tuaA 191 7.71e+00 d.51.1.1,d.51.1.1 107321,107322 1tzbA 302 7.97e+00 c.80.1.1 107470 2ac4A 309 8.07e+00 1om4A 422 8.10e+00 d.174.1.1 87067 1x9iA 302 8.11e+00 2b0tA 738 8.33e+00 1mmvB 419 8.90e+00 d.174.1.1 91318 1opr 213 8.94e+00 1opr c.61.1.1 34091 1rypK 198 9.04e+00 d.153.1.4 41879 1ofuA 320 9.15e+00 c.32.1.1,d.79.2.1 86972,86973 1lv7A 257 9.37e+00 c.37.1.20 78232 2f5xA 312 9.41e+00 1xwfA 431 9.42e+00 1li4A 432 9.71e+00 c.2.1.4,c.23.12.3 84616,84617 1wstA 417 9.80e+00 1ltzA 297 1.00e+01 d.178.1.1 74254 1qxoA 388 1.05e+01 d.258.1.1 96539 1f2dA 341 1.11e+01 1f2dA c.79.1.1 35298 1hqkA 154 1.12e+01 c.16.1.1 65902 1obdA 306 1.12e+01 d.143.1.1 86767 1uqrA 154 1.13e+01 c.23.13.1 99779 1jclA 260 1.14e+01 c.1.10.1 66501 1p1xA 260 1.16e+01 c.1.10.1 104060 1u9iA 519 1.16e+01 1vq3A 94 1.17e+01 1zbqA 327 1.18e+01 1u5tA 233 1.19e+01 a.4.5.54,a.4.5.54 107684,107685 1ta8A 332 1.22e+01 1f74A 293 1.22e+01 1nal3 c.1.10.1 29079 1tpfA 250 1.24e+01 1amk c.1.1.1 28467 1dozA 309 1.25e+01 1ak1 c.92.1.1 35592 1e7rA 321 1.27e+01 1bsvA c.2.1.2 29808 1pjqA 457 1.31e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1mldA 314 1.35e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 2btzA 394 1.36e+01 1fvpA 231 1.36e+01 1nfp c.1.16.2 29556 1np7A 489 1.37e+01 a.99.1.1,c.28.1.1 80677,80678 1a48 306 1.37e+01 1a48 d.143.1.1 41590 1lt8A 406 1.40e+01 c.1.26.1 78186 1to6A 371 1.40e+01 c.141.1.1 107170 1e6uA 321 1.41e+01 1bsvA c.2.1.2 29805 2bleA 367 1.42e+01 1lzlA 323 1.49e+01 c.69.1.2 78306 1onrA 316 1.52e+01 1onrA c.1.10.1 29169 1wteA 272 1.53e+01 2gnoA 305 1.55e+01 1qxhA 167 1.56e+01 c.47.1.10 96528 1z41A 338 1.58e+01 2f1rA 171 1.61e+01 1dekA 241 1.62e+01 1dekA c.37.1.1 31842 1gq6A 313 1.64e+01 c.42.1.1 70341 1pbgA 468 1.67e+01 1e70M c.1.8.4 28946 1on3A 523 1.67e+01 c.14.1.4,c.14.1.4 87107,87108 1k1xA 659 1.78e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1kewA 361 1.79e+01 c.2.1.2 68544 1d1vA 444 1.80e+01 1nseA d.174.1.1 59101 2tpt 440 1.80e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 2c2aA 258 1.80e+01 1oltA 457 1.80e+01 c.1.28.2 93334 1o58A 303 1.83e+01 c.79.1.1 92491 2bjbA 462 1.83e+01 1gz6A 319 1.84e+01 c.2.1.2 76410 2plc 274 1.85e+01 2plc c.1.18.2 29614 1gdoA 240 1.89e+01 1gdoA 1l4uA 176 1.93e+01 c.37.1.2 73568 1b5tA 275 1.94e+01 1b5tA c.1.23.1 29676 1fkmA 396 1.95e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1d0cA 444 1.97e+01 d.174.1.1 64769 1m5q1 130 1.97e+01 1ed5A 444 1.97e+01 1nseA d.174.1.1 42530 1nbaA 264 1.98e+01 1nbaA c.33.1.3 31753 7a3hA 303 2.00e+01 7a3hA c.1.8.3 28817 4pgaA 337 2.03e+01 4pgaA c.88.1.1 35565 1dbqA 289 2.05e+01 1qpzA c.93.1.1 35666 1xyzA 347 2.05e+01 1taxA c.1.8.3 28804 1xffA 240 2.08e+01 d.153.1.1 109580 1p3jA 217 2.09e+01 c.37.1.1,g.41.2.1 94022,94023 2c6qA 351 2.12e+01 2ffeA 311 2.12e+01 1ve1A 304 2.15e+01 1ag9A 175 2.16e+01 1rcf c.23.5.1 31178 1yxyA 234 2.18e+01 1w36B 1180 2.18e+01 1lh0A 213 2.19e+01 c.61.1.1 73896 1w0mA 226 2.20e+01 c.1.1.1 109027 1ix9A 205 2.22e+01 a.2.11.1,d.44.1.1 76899,76900 2bznA 351 2.27e+01 1khtA 192 2.27e+01 c.37.1.1 84401 1jmvA 141 2.29e+01 c.26.2.4 66897 1sazA 381 2.33e+01 1uhvA 500 2.33e+01 b.71.1.2,c.1.8.3 99402,99403 1x38A 602 2.37e+01 1wvfA 520 2.38e+01 1ujcA 161 2.41e+01 1vbuA 328 2.53e+01 1d4fA 431 2.56e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1jbkA 195 2.60e+01 c.37.1.20 71631 1eny 268 2.62e+01 1eny c.2.1.2 29910 1yhtA 367 2.62e+01 2c5aA 379 2.64e+01 2a19B 284 2.64e+01 1ewkA 490 2.65e+01 1ewkA c.93.1.1 35712 1gesA 450 2.66e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1i2oA 316 2.66e+01 1onrA c.1.10.1 61574 2liv 344 2.68e+01 2liv c.93.1.1 35708 1g8pA 350 2.69e+01 1g8pA c.37.1.20 60376 2fyxA 143 2.71e+01 1jsmA 325 2.73e+01 b.19.1.2 63264 2f6hX 419 2.75e+01 1ufoA 238 2.76e+01 c.69.1.27 99344 1uroA 367 2.78e+01 1uroA c.1.22.1 29675 1r3sA 367 2.81e+01 c.1.22.1 96963 1k7cA 233 2.82e+01 c.23.10.4 68267 1deoA 233 2.84e+01 1deoA c.23.10.4 31345 1zin 217 2.84e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1ir6A 424 2.85e+01 c.107.1.2 71342 1ypfA 336 2.89e+01 1ra0A 430 2.89e+01 2czdA 208 2.93e+01 1zip 217 2.95e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1wz3A 96 2.99e+01 1rqbA 539 3.02e+01 a.5.7.2,c.1.10.5 105057,105058 1r03A 182 3.04e+01 a.25.1.1 104675 1yoeA 322 3.07e+01 1wu7A 434 3.11e+01 1q1gA 276 3.13e+01 c.56.2.1 95574 1amk 251 3.14e+01 1amk c.1.1.1 28503 2b69A 343 3.17e+01 2fha 183 3.20e+01 2fha a.25.1.1 16674 2bvyA 475 3.22e+01 2d2eA 250 3.24e+01 1lyxA 248 3.27e+01 c.1.1.1 78304 1uurA 473 3.29e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1gjwA 637 3.37e+01 b.71.1.1,c.1.8.1 60582,60583 1k9sA 237 3.37e+01 c.56.2.1 68359 1k6wA 426 3.42e+01 b.92.1.2,c.1.9.5 68236,68237 1jx6A 342 3.44e+01 c.93.1.1 67406 1jqgA 433 3.46e+01 c.56.5.1,d.58.3.1 71791,71792 1kwmA 402 3.46e+01 c.56.5.1,d.58.3.1 73079,73080 1tzjA 338 3.48e+01 1rd5A 262 3.50e+01 1to3A 304 3.50e+01 c.1.10.1 107161 1pz1A 333 3.50e+01 c.1.7.1 95390 1u9jA 358 3.59e+01 1mw9X 592 3.63e+01 e.10.1.1 91480 1bw0A 416 3.64e+01 1bw0A c.67.1.1 34385 1sfjA 238 3.65e+01 2aebA 322 3.70e+01 2fcr 173 3.74e+01 1rcf c.23.5.1 31151 1i0hA 205 3.75e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1v7wA 807 3.76e+01 a.102.1.4,b.30.5.3 108411,108412 2bllA 345 3.79e+01 1b74A 254 3.82e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1vctA 205 3.86e+01 1blxA 326 3.91e+01 1hcl d.144.1.7 41596 3gcb 470 3.93e+01 3gcb d.3.1.1 37032 1h21A 247 4.03e+01 a.138.1.3 76510 1sf8A 126 4.03e+01 d.271.1.1 105472 2absA 383 4.04e+01 2c2xA 281 4.07e+01 1zp4A 304 4.11e+01 1yisA 478 4.12e+01 1jksA 294 4.12e+01 d.144.1.7 71710 1nnsA 326 4.15e+01 c.88.1.1 85910 1wzuA 300 4.15e+01 1z15A 344 4.24e+01 1od8A 313 4.26e+01 c.1.8.3 86838 1xsnA 335 4.31e+01 1nc5A 373 4.31e+01 a.102.1.6 85548 1t06A 235 4.31e+01 a.118.1.17 106194 1gteA 1025 4.34e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1i6pA 220 4.37e+01 1ddzA c.53.2.1 61848 1dosA 358 4.44e+01 1dosA c.1.10.2 29175 1pv5A 264 4.45e+01 d.251.1.1 95150 1xp3A 307 4.46e+01 1qycA 308 4.48e+01 c.2.1.2 96581 2bo9A 308 4.49e+01 1qmeA 702 4.52e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1zq1C 633 4.67e+01 2b4gA 317 4.68e+01 1ex1A 605 4.71e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1li5A 461 4.73e+01 a.27.1.1,c.26.1.1 73912,73913 4uagA 437 4.73e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1n55A 251 4.80e+01 c.1.1.1 80007 1v0lA 313 4.81e+01 c.1.8.3 108207 1y5eA 169 4.81e+01 1khyA 148 4.81e+01 a.174.1.1 77410 1t9xA 1049 4.82e+01 1oyeA 1049 4.85e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1x6vA 630 4.87e+01 1e0wA 313 4.89e+01 1taxA c.1.8.3 59150 1uouA 474 4.90e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 2b06A 155 4.96e+01 1h7wA 1025 4.98e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1r8sA 164 5.02e+01 c.37.1.8 97247 1j6rA 214 5.14e+01 d.173.1.2 71598 1fzqA 181 5.20e+01 1hurA c.37.1.8 32060 2bkxA 242 5.22e+01 1yumA 242 5.23e+01 1b0uA 262 5.24e+01 1b0uA c.37.1.12 32370 1bx4A 345 5.28e+01 1bx4A c.72.1.1 34935 1ptmA 329 5.30e+01 c.77.1.3 95104 1tv9A 335 5.37e+01 1yrbA 262 5.44e+01 1yueA 427 5.45e+01 1y42X 392 5.46e+01 1kamA 194 5.52e+01 c.26.1.3 72254 1lvaA 258 5.55e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1ug7A 128 5.55e+01 a.24.24.1 107824 1xm3A 264 5.57e+01 2ar0A 541 5.62e+01 2dfkA 402 5.75e+01 1gcb 454 5.75e+01 3gcb d.3.1.1 37034 2cbiA 594 5.77e+01 1sk4A 163 5.79e+01 d.118.1.1 105664 1ihoA 283 5.87e+01 1ihoA c.26.1.4 62390 1keyA 235 5.89e+01 a.118.16.1 72389 1nxuA 333 5.90e+01 c.122.1.1 86389 1l2lA 457 5.94e+01 c.72.1.3 77656 1jftA 340 5.95e+01 a.35.1.5,c.93.1.1 66652,66653 1w44A 331 5.97e+01 1mzjA 339 5.98e+01 c.95.1.2,c.95.1.2 79700,79701 1v8gA 329 5.99e+01 a.46.2.1,c.27.1.1 100505,100506 1nfp 228 5.99e+01 1nfp c.1.16.2 29555 1rztA 331 6.02e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 2apjA 260 6.04e+01 1tvnA 293 6.04e+01 1wwkA 307 6.09e+01 1o3yA 166 6.10e+01 c.37.1.8 86618 2bcqA 335 6.11e+01 2c1lA 358 6.15e+01 1rvkA 382 6.17e+01 c.1.11.2,d.54.1.1 97928,97929 1kfcA 268 6.17e+01 c.1.2.4 77371 1jl3A 139 6.20e+01 c.44.1.1 66826 2gokA 429 6.24e+01 1t0qA 498 6.25e+01 a.25.1.2 106220 1vf8A 377 6.32e+01 1iow 306 6.34e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1ve3A 227 6.41e+01 1ja1A 622 6.42e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1zn8A 180 6.43e+01 2br9A 234 6.43e+01 1xknA 355 6.45e+01 2tpsA 227 6.58e+01 2tpsA c.1.3.1 28591 1dp4A 435 6.65e+01 1dp4A c.93.1.1 35710 2rslA 140 6.68e+01 2rslA c.53.1.1 33345 1s72N 187 6.68e+01 c.55.4.1 105333 1q8fA 313 6.74e+01 c.70.1.1 96203 1wcgA 464 6.81e+01 2akoA 251 6.85e+01 2bfwA 200 6.87e+01 1oo0A 147 6.89e+01 d.232.1.1 87182 1qhtA 775 6.89e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1o9rA 162 6.97e+01 a.25.1.1 86706 1y8qB 640 7.11e+01 1ubeA 349 7.20e+01 c.37.1.11,d.48.1.1 88412,88413 2pfkA 320 7.21e+01 3pfk c.89.1.1 35577 2a0b 125 7.24e+01 2a0b a.24.10.1 16630 1dpgA 485 7.26e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1yc9A 442 7.26e+01 2dri 271 7.28e+01 2dri c.93.1.1 35637 1v6sA 390 7.36e+01 c.86.1.1 100424 1s2xA 206 7.36e+01 a.47.3.1 105229 1vqoN 187 7.41e+01 1tv8A 340 7.44e+01 c.1.28.3 107352 1vqrA 297 7.45e+01 1nq6A 302 7.45e+01 c.1.8.3 92046 1rtwA 220 7.46e+01 a.132.1.3 97823 1rxxA 421 7.61e+01 d.126.1.4 98061 1sb8A 352 7.62e+01 c.2.1.2 105410 1y8oA 419 7.67e+01 2g76A 335 7.71e+01 1oj6A 151 7.75e+01 a.1.1.2 93088 1o5xA 248 7.80e+01 c.1.1.1 92528 1o9iA 266 7.81e+01 a.25.1.3 92671 2b7kA 200 7.84e+01 1jkvA 266 7.90e+01 a.25.1.3 71719 1tk9A 188 7.93e+01 c.80.1.3 107082 1zuwA 272 7.94e+01 1cnzA 363 7.96e+01 1cnzA c.77.1.1 35061 1xwiA 322 7.96e+01 1v8fA 276 7.97e+01 c.26.1.4 100503 1e9lA 377 7.97e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1qo2A 241 8.00e+01 1qo2A c.1.2.1 28533 1o5zA 442 8.02e+01 c.59.1.2,c.72.2.2 92530,92531 1cydA 244 8.06e+01 1cydA c.2.1.2 29825 1vk6A 269 8.08e+01 d.113.1.4,d.113.1.4 100851,100852 1qjcA 158 8.08e+01 1b6tA c.26.1.3 63328 1z7bA 358 8.14e+01 1aky 221 8.16e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1t4hA 290 8.16e+01 d.144.1.7 106420 1qvbA 481 8.24e+01 1qvbA c.1.8.4 28983 1vkyA 347 8.24e+01 e.53.1.1 108696 1azsA 220 8.25e+01 1azsA d.58.29.1 39416 2fkbA 180 8.26e+01 1jj2M 186 8.31e+01 1ffkK c.55.4.1 63098 1bn7A 294 8.31e+01 1bn6A c.69.1.8 34677 1quuA 250 8.43e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1vhtA 218 8.56e+01 c.37.1.1 100700 2cwxA 430 8.58e+01 1svdA 473 8.59e+01 2a3nA 355 8.64e+01 1tc1A 220 8.66e+01 1tc1A c.61.1.1 34083 1zxxA 319 8.70e+01 1xneA 113 8.77e+01 2g0wA 296 8.79e+01 1lwdA 413 8.80e+01 c.77.1.1 78265 1bpyA 335 8.80e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1ad2 228 8.81e+01 1ad2 e.24.1.1 43353 1li5B 461 8.99e+01 a.27.1.1,c.26.1.1 73914,73915 2fmpA 335 9.00e+01