# List of top-scoring protein chains for t04-100-30-n_notor2-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 1hqsA 423 3.99e-02 1iso c.77.1.1 61154 1d7uA 433 7.17e-01 2dkb c.67.1.4 34439 1jqbA 351 1.15e+00 b.35.1.2,c.2.1.1 77151,77152 4bcl 366 1.22e+00 4bcl b.75.1.1 27968 1a05A 358 1.24e+00 1cnzA c.77.1.1 35059 1yozA 116 1.33e+00 1jq5A 370 1.40e+00 e.22.1.2 67084 1tl0D 103 1.50e+00 1djrD 103 1.58e+00 3chbD b.40.2.1 24865 1lf6A 684 1.74e+00 a.102.1.5,b.30.5.5 77918,77919 3chbD 104 1.83e+00 3chbD b.40.2.1 24970 1huuA 90 1.84e+00 1huuA a.55.1.1 17897 1nnjA 271 1.98e+00 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1h3qA 140 2.14e+00 d.110.4.3 76652 2hbg 147 2.27e+00 2hbg a.1.1.2 15014 1lv7A 257 2.65e+00 c.37.1.20 78232 1rxwA 336 3.39e+00 a.60.7.1,c.120.1.2 98059,98060 1cnzA 363 3.56e+00 1cnzA c.77.1.1 35061 1woqA 267 3.70e+00 c.55.1.10,c.55.1.10 109462,109463 1v58A 241 3.83e+00 c.47.1.9,d.17.3.1 108371,108372 1nrlA 316 4.20e+00 a.123.1.1 92091 1qusA 322 4.39e+00 1ltm d.2.1.6 36991 1vb3A 428 4.92e+00 1wdkC 390 5.34e+00 c.95.1.1,c.95.1.1 109258,109259 2af6A 258 5.67e+00 1w2yA 229 6.19e+00 a.204.1.1 109140 1q59A 172 6.29e+00 f.1.4.1 95881 1qw9A 502 6.66e+00 b.71.1.2,c.1.8.3 96466,96467 1ihp 438 7.66e+00 1ihp c.60.1.2 33993 1x3lA 440 7.82e+00 1ea7A 310 7.94e+00 c.41.1.1 70086 1yq7A 374 8.40e+00 1sffA 426 8.53e+00 c.67.1.4 105482 1ac5 483 8.71e+00 1ac5 c.69.1.5 34653 1k0eA 453 9.11e+00 d.161.1.1 67938 1p32A 209 9.22e+00 1p32A d.25.1.1 38379 1u55A 188 9.29e+00 d.278.1.1 107677 1ejxC 567 9.46e+00 b.92.1.1,c.1.9.2 83184,83185 1eg3A 261 9.95e+00 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1hbnB 442 1.03e+01 1mroB a.89.1.1,d.58.31.2 60900,60901 1wl4A 397 1.08e+01 1phk 298 1.09e+01 1cdkA d.144.1.7 41635 2dkaA 544 1.09e+01 1wa5C 960 1.10e+01 1dzkA 157 1.14e+01 1obpA b.60.1.1 27096 2b18A 164 1.15e+01 1sedA 117 1.18e+01 a.219.1.1 105449 2eu9A 355 1.23e+01 1b8zA 90 1.24e+01 1huuA a.55.1.1 17902 1jchA 551 1.35e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1xxsA 122 1.36e+01 1z6gA 218 1.38e+01 1xdwA 331 1.38e+01 1y63A 184 1.42e+01 1tuoA 464 1.42e+01 1eexB 224 1.43e+01 1dioB c.51.3.1 33213 1o9wA 177 1.45e+01 b.2.3.5 86713 1txnA 328 1.60e+01 1uumA 372 1.62e+01 c.1.4.1 100010 1ie9A 259 1.65e+01 1db1A a.123.1.1 62318 1yuwA 554 1.66e+01 1wrvA 308 1.68e+01 1iomA 377 1.78e+01 a.103.1.1 83698 2c2hA 192 1.81e+01 1ak5 503 1.81e+01 1ak5 c.1.5.1 28639 1pbtA 244 1.85e+01 c.124.1.1 94416 1nrfA 262 1.86e+01 e.3.1.1 92086 1l9vA 317 1.95e+01 d.13.2.1,d.216.1.1 73760,73761 1guzA 310 1.96e+01 c.2.1.5,d.162.1.1 65586,65587 2cg4A 152 1.99e+01 1mroB 442 2.00e+01 1mroB a.89.1.1,d.58.31.2 18531,39449 1vm8A 534 2.02e+01 1zq1C 633 2.03e+01 1g8aA 227 2.06e+01 c.66.1.3 90506 1to6A 371 2.17e+01 c.141.1.1 107170 1dssG 333 2.20e+01 1dssG c.2.1.3,d.81.1.1 30022,39937 1djxB 624 2.31e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1xpxA 163 2.33e+01 1hdhA 536 2.35e+01 c.76.1.2 65805 1ep3B 262 2.36e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1r6fA 310 2.37e+01 e.46.1.1 97149 1kqfB 294 2.37e+01 d.58.1.5,f.23.22.1 75900,75901 1vjtA 483 2.40e+01 c.2.1.5,d.162.1.2 100833,100834 1pjjA 271 2.43e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1g0uG 252 2.48e+01 d.153.1.4 41952 1wkaA 147 2.51e+01 1f0cA 305 2.57e+01 1c8oA e.1.1.1 42676 1dar 691 2.58e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1auoA 218 2.62e+01 1auoA c.69.1.14 34716 1zc6A 305 2.65e+01 1rkbA 173 2.67e+01 1h0oA 390 2.77e+01 a.25.1.2 70845 1dfaA 454 2.79e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28375,40575,40576 1iyjB 817 2.81e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 1bebA 162 2.85e+01 1bebA b.60.1.1 27115 1fo3A 460 2.88e+01 1dl2A a.102.2.1 18845 1nthA 458 2.89e+01 c.1.25.1 80730 1fcdA 401 2.95e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1lw6E 281 2.95e+01 c.41.1.1 74293 1e9xA 455 2.97e+01 1ea1A a.104.1.1 18969 1yvkA 163 2.99e+01 1xfdA 723 3.07e+01 1on3A 523 3.15e+01 c.14.1.4,c.14.1.4 87107,87108 1i19A 561 3.16e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1b67A 68 3.16e+01 1a7w a.22.1.2 16474 2c30A 321 3.18e+01 1gteA 1025 3.18e+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 1i6aA 219 3.20e+01 c.94.1.1 61827 1jnrA 643 3.22e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1wu4A 396 3.29e+01 1xx1A 285 3.29e+01 1d3gA 367 3.29e+01 1d3gA c.1.4.1 28600 1ia8A 289 3.34e+01 1ia8A d.144.1.7 62112 1ta9A 450 3.40e+01 1xwl 580 3.45e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 2cfaA 217 3.47e+01 1qh4A 380 3.55e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1khyA 148 3.66e+01 a.174.1.1 77410 1xwwA 157 3.72e+01 3tmkA 216 3.73e+01 3tmkA c.37.1.1 31920 1t3qA 168 3.73e+01 a.56.1.1,d.15.4.2 106367,106368 1kaeA 434 3.78e+01 c.82.1.2 72247 1v3yA 192 3.82e+01 1gox 370 3.82e+01 1gox c.1.4.1 28607 1t6jA 714 3.84e+01 2cvzA 289 3.88e+01 1gnd 447 3.96e+01 1gnd c.3.1.3,d.16.1.6 30423,37987 2madH 373 3.96e+01 2bbkH b.69.2.1 27639 1x0cA 549 3.98e+01 1a0cA 438 4.01e+01 1a0cA c.1.15.3 29529 1g9mG 321 4.04e+01 1gc1G d.172.1.1 42492 1wsrA 375 4.04e+01 2g8oA 264 4.04e+01 1pufA 77 4.05e+01 a.4.1.1 95131 1to2E 281 4.15e+01 1uasA 362 4.16e+01 b.71.1.1,c.1.8.1 88388,88389 1z77A 200 4.18e+01 1e4mM 501 4.24e+01 1e70M c.1.8.4 59226 1whzA 70 4.24e+01 1hlvA 131 4.26e+01 a.4.1.7,a.4.1.7 65854,65855 1sly 618 4.27e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1b65A 375 4.33e+01 1b65A d.154.1.1 42020 1yrlA 491 4.33e+01 1n8kA 374 4.35e+01 b.35.1.2,c.2.1.1 80298,80299 1rwtA 232 4.36e+01 f.43.1.1 97992 2al2A 436 4.37e+01 1xrsA 516 4.44e+01 2bcfA 276 4.48e+01 2dbqA 334 4.49e+01 1oi7A 288 4.49e+01 c.2.1.8,c.23.4.1 87049,87050 1s9jA 341 4.49e+01 1ve4A 206 4.49e+01 4ubpC 570 4.51e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1rqbA 539 4.51e+01 a.5.7.2,c.1.10.5 105057,105058 1uz5A 402 4.54e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1o7fA 469 4.56e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1ukxA 137 4.57e+01 d.20.1.3 107919 1jc4A 148 4.63e+01 1jc4A d.32.1.4 62863 1ej6D 418 4.66e+01 i.7.1.1 45970 1mzhA 225 4.83e+01 c.1.10.1 79698 1ds1A 324 4.84e+01 1drtA b.82.2.2 28127 1upaA 573 4.85e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1g5cA 170 4.91e+01 1g5cA c.53.2.1 60264 1pud 386 4.98e+01 1pud c.1.20.1 29658 1fgs 428 5.09e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1hleA 345 5.17e+01 1ovaA e.1.1.1 42618 1l5aA 436 5.18e+01 c.43.1.2,c.43.1.2 75923,75924 1kblA 873 5.25e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1nd4A 264 5.25e+01 d.144.1.6 91815 2fjbA 643 5.30e+01 1hetA 374 5.34e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1xngA 268 5.38e+01 1yoxA 250 5.43e+01 1b0pA 1231 5.43e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1gwuA 309 5.44e+01 a.93.1.1 83351 1c52 131 5.47e+01 1c52 a.3.1.1 15810 1w1oA 534 5.48e+01 d.58.32.4,d.145.1.1 109071,109072 1o26A 232 5.54e+01 d.207.1.1 86566 1auiB 169 5.58e+01 1auiB a.39.1.5 17325 2bfwA 200 5.61e+01 1rvkA 382 5.68e+01 c.1.11.2,d.54.1.1 97928,97929 1o0xA 262 5.70e+01 d.127.1.1 80755 1o17A 345 5.74e+01 a.46.2.1,c.27.1.1 80765,80766 2gdzA 267 5.76e+01 2bk9A 153 5.78e+01 1s69A 124 5.89e+01 a.1.1.1 105305 1kc6A 257 5.96e+01 c.52.1.19 68419 1ggzA 148 6.06e+01 a.39.1.5 70176 1mijA 152 6.14e+01 a.4.1.1 79150 1ak0 270 6.22e+01 1ak0 a.124.1.2 19345 1st9A 143 6.27e+01 c.47.1.10 98987 1qd1A 325 6.30e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1xyn 178 6.31e+01 1axkA b.29.1.11 24322 2ptd 298 6.32e+01 2plc c.1.18.2 29605 1reqB 637 6.34e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1jfzA 154 6.49e+01 a.149.1.1 66655 1tf5A 844 6.52e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1vj5A 555 6.53e+01 c.108.1.2,c.69.1.11 100799,100800 1yhvA 297 6.53e+01 1ynfA 458 6.54e+01 1gycA 499 6.54e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1yi8A 351 6.56e+01 1pieA 419 6.64e+01 d.14.1.5,d.58.26.7 94706,94707 1jd0A 263 6.64e+01 2cba b.74.1.1 62888 2aj0A 71 6.79e+01 1r9lA 309 6.82e+01 c.94.1.1 97262 1tg6A 277 6.85e+01 1a48 306 6.86e+01 1a48 d.143.1.1 41590 1q8dA 108 6.90e+01 a.228.1.1 104554 1b9hA 388 6.92e+01 1b9hA c.67.1.4 34488 2d69A 430 6.96e+01 1c4kA 730 7.03e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1oa4A 222 7.06e+01 b.29.1.11 86731 2fikA 287 7.06e+01 1el4A 195 7.09e+01 1ej3A a.39.1.5 59453 1yzxA 226 7.10e+01 1a8e 329 7.14e+01 1cb6A c.94.1.2 35888 1jmuB 666 7.19e+01 1tyfA 193 7.20e+01 1tyfA c.14.1.1 30885 1tn4 159 7.30e+01 1ncx a.39.1.5 17248 1dgfA 497 7.32e+01 1cf9A e.5.1.1 42782 1qfmA 710 7.33e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1h6pA 203 7.40e+01 a.146.1.1 60690 1bu7A 455 7.46e+01 1bu7A a.104.1.1 18937 1tkeA 224 7.47e+01 1lehA 364 7.55e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1zljA 78 7.58e+01 2ck3A 510 7.58e+01 1wdcB 156 7.60e+01 1wdcB a.39.1.5 17302 1exrA 148 7.65e+01 1cll a.39.1.5 17299 2btfA 375 7.69e+01 1yagA c.55.1.1,c.55.1.1 33429,33430 1uhnA 189 7.72e+01 a.39.1.5 99399 1yreA 197 7.73e+01 1ymtA 246 7.73e+01 1zv1A 65 7.74e+01 1t17A 148 7.77e+01 1v97A 1332 7.77e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1lrzA 426 7.81e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 2d81A 318 7.86e+01 1o70A 324 7.89e+01 b.118.1.1,b.118.1.1 81115,81116 1nj4A 363 7.91e+01 b.105.1.1,e.3.1.1 80545,80546 1x72A 334 8.07e+01 d.126.1.6 109495 1v5dA 386 8.13e+01 1lox 662 8.15e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1y1xA 191 8.17e+01 1eulA 994 8.23e+01 1eulA 1j1lA 290 8.27e+01 b.82.1.12 90766 1vioA 243 8.40e+01 d.265.1.3,d.66.1.5 100762,100763 1vheA 373 8.44e+01 b.49.3.1,c.56.5.4 100669,100670 1oe4A 247 8.44e+01 c.18.1.3 86895 1yu3A 381 8.51e+01 1pme 380 8.53e+01 1hcl d.144.1.7 41653 1epfA 191 8.56e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1yz4A 160 8.56e+01 1x6vA 630 8.66e+01 1vfgA 390 8.74e+01 a.173.1.1,d.218.1.4 108570,108571 2vhbA 146 8.75e+01 2vhbA a.1.1.2 15629 1vlbA 907 8.77e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1zgdA 312 8.78e+01 1hlrA 907 8.84e+01 1s1eA 224 8.84e+01 1rsoB 56 8.85e+01 a.194.1.1 97812 2fcwA 109 8.86e+01 1r5zA 323 8.88e+01 f.40.1.1 97135 2cunA 410 8.92e+01 1s7zA 117 8.92e+01 a.159.3.1 98715 1e5kA 201 8.93e+01 1fr9A c.68.1.8 34578 1n35A 1267 8.96e+01 e.8.1.4 79935 1o69A 394 8.96e+01 c.67.1.4 92560 1q0pA 223 8.96e+01 c.62.1.1 95507 1fiqC 763 8.97e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418