# List of top-scoring protein chains for t04-w0.5-1-n_notor2-0.1-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. # #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 SCOP_domain SCOP_suid 5S 5N 12S 12S 10N 2hu5A 582 1.01e-16 b.69.7.2,c.69.1.33 136763,136764 1xfdA 723 2.71e-16 b.70.3.1,c.69.1.24 115251,115252 1orvA 728 2.92e-16 b.70.3.1,c.69.1.24 87354,87355 2z3zA 706 1.33e-15 1qfmA 710 1.34e-15 b.69.7.1,c.69.1.4 27673,34641 2qm0A 275 1.36e-15 2d5lA 706 1.39e-15 1h2wA 710 1.52e-15 b.69.7.1,c.69.1.4 76596,76597 2uz0A 263 2.58e-15 2bklA 695 2.73e-15 3c8dA 403 3.35e-15 1yr2A 741 7.76e-15 1vlqA 337 1.06e-14 c.69.1.25 108848 1l7aA 318 1.39e-14 c.69.1.25 77772 1o6gA 710 1.98e-14 b.69.7.1,c.69.1.4 81087,81088 2b20A 403 2.83e-14 b.1.18.20,c.69.1.2 127685,127686 2jbwA 386 2.87e-14 1wb4A 297 3.27e-14 c.69.1.2 120827 2r8bA 251 3.96e-14 2gzsA 278 4.55e-14 3b5eA 223 5.30e-14 1pv1A 299 5.58e-14 c.69.1.34 111639 1f0nA 285 6.92e-14 c.69.1.3 34636 2i3dA 249 9.76e-14 1jjfA 268 1.02e-13 c.69.1.2 66765 1ycdA 243 2.99e-13 2o2gA 223 4.19e-13 1fj2A 232 5.49e-13 c.69.1.14 34720 1zi8A 236 6.48e-13 1lzlA 323 8.81e-13 c.69.1.2 78306 1auoA 218 1.43e-12 c.69.1.14 34716 1din 236 1.70e-12 1ea5A 537 1.83e-12 c.69.1.1 34592 3bxpA 277 2.04e-12 1jfrA 262 2.25e-12 c.69.1.16 34724 2fukA 220 3.06e-12 2fx5A 258 3.35e-12 1dqzA 280 4.86e-12 c.69.1.3 34638 1jjiA 311 5.12e-12 c.69.1.2 66766 1u4nA 310 5.38e-12 c.69.1.2 113021 1ufoA 238 5.49e-12 c.69.1.27 99344 1p0iA 529 6.69e-12 c.69.1.1 93867 1r88A 280 6.83e-12 c.69.1.3 97219 1thg 544 8.75e-12 1vkhA 273 9.74e-12 c.69.1.32 108662 1mpxA 615 1.28e-11 b.18.1.13,c.69.1.21 85041,85042 1cleA 534 1.68e-11 c.69.1.17 34771 1ukcA 522 1.99e-11 c.69.1.17 107911 1qe3A 489 2.66e-11 c.69.1.1 34630 2hdwA 367 3.50e-11 2bce 581 8.59e-11 1llfA 534 1.16e-10 c.69.1.17 78094 2pblA 262 2.70e-10 1ju3A 583 1.11e-09 b.18.1.13,c.69.1.21 67300,67301 1imjA 210 2.49e-09 c.69.1.23 71246 2hm7A 310 2.77e-09 1j1iA 296 3.27e-09 c.69.1.10 83977 1u2eA 289 3.79e-09 1wm1A 317 4.59e-09 c.69.1.7 109405 1k8qA 377 5.40e-09 c.69.1.6 72177 1q0rA 298 7.20e-09 c.69.1.28 95508 1c4xA 285 7.48e-09 c.69.1.10 34684 1hlgA 371 8.28e-09 c.69.1.6 34656 1ede 310 8.55e-09 1jkmA 358 9.37e-09 c.69.1.2 34633 1qtrA 317 9.45e-09 c.69.1.7 34660 1b6g 310 1.02e-08 1a88A 275 1.10e-08 c.69.1.12 34707 1yasA 257 1.15e-08 c.69.1.20 34801 1uk8A 282 1.18e-08 c.69.1.10 107907 2h7cA 542 1.39e-08 c.69.1.1 136207 1bn7A 294 1.47e-08 c.69.1.8 34677 1va4A 279 1.66e-08 c.69.1.12 108458 1broA 277 1.83e-08 c.69.1.12 34700 1brt 277 2.06e-08 1ehyA 294 2.23e-08 c.69.1.11 34693 1womA 271 2.50e-08 2o7rA 338 2.57e-08 1mtzA 293 2.80e-08 c.69.1.7 79467 1tqhA 247 3.69e-08 c.69.1.29 107225 1azwA 313 4.30e-08 c.69.1.7 34658 1m33A 258 4.66e-08 c.69.1.26 78514 3bdiA 207 4.93e-08 1zd3A 555 5.54e-08 c.108.1.2,c.69.1.11 124930,124931 2r11A 306 5.64e-08 2veoA 441 6.31e-08 1qj4A 257 6.41e-08 c.69.1.20 34796 2qjwA 176 7.76e-08 1hkhA 279 7.90e-08 c.69.1.12 90628 1tca 317 8.20e-08 1lnsA 763 8.83e-08 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1xklA 273 9.42e-08 c.69.1.20 115410 3c5vA 316 1.15e-07 1r1dA 247 1.20e-07 c.69.1.29 96813 1zoiA 276 1.30e-07 2cjpA 328 1.35e-07 1xqwA 293 1.36e-07 2b61A 377 1.61e-07 2ocgA 254 1.65e-07 1mj5A 302 1.67e-07 c.69.1.8 91285 2og1A 286 1.72e-07 1mnaA 298 1.82e-07 c.69.1.22 79322 2rhwA 283 1.93e-07 2puhA 286 2.16e-07 1cv2A 296 2.28e-07 c.69.1.8 34680 1uxoA 192 2.50e-07 c.69.1.31 108121 2qmqA 286 2.62e-07 1a8sA 273 2.62e-07 c.69.1.12 34710 2pujA 286 2.74e-07 2psdA 318 3.61e-07 2ogtA 498 4.51e-07 1ei9A 279 5.31e-07 c.69.1.13 34713 1tcaA 317 5.52e-07 c.69.1.17 34726 1a8qA 274 5.67e-07 c.69.1.12 34702 3bwxA 285 5.94e-07 1b6gA 310 6.04e-07 c.69.1.8 34661 2qruA 274 6.20e-07 3bf7A 255 6.41e-07 1brtA 277 6.99e-07 c.69.1.12 34699 2e3jA 356 7.33e-07 1bu8A 452 1.12e-06 b.12.1.2,c.69.1.19 23647,34795 2rauA 354 1.17e-06 3bdvA 191 1.37e-06 2qs9A 194 1.47e-06 2yysA 286 1.55e-06 1qo7A 394 1.65e-06 c.69.1.11 34697 1pjaA 302 1.76e-06 c.69.1.13 94758 1r3dA 264 1.78e-06 c.69.1.35 111680 2qvbA 297 2.26e-06 2o2iA 300 2.72e-06 1y37A 304 3.69e-06 1gpl 432 4.28e-06 1jmkC 230 4.85e-06 c.69.1.22 71747 1qlwA 328 5.34e-06 c.69.1.15 34722 2pl5A 366 7.79e-06 2bceA 585 9.63e-06 c.69.1.1 34625 1ys1X 320 1.03e-05 3bixA 574 1.05e-05 1cvl 319 1.28e-05 1thgA 544 1.43e-05 c.69.1.17 34763 2hfkA 319 2.18e-05 1cvlA 319 6.21e-05 c.69.1.18 34786 2cb9A 244 7.02e-05 1hplA 449 7.87e-05 b.12.1.2,c.69.1.19 23639,34787 2q0xA 335 0.000125 2d80A 318 0.000253 1ivyA 452 0.000278 c.69.1.5 34654 2px6A 316 0.000762 1ispA 181 0.001321 c.69.1.18 76778 1i6wA 181 0.001670 c.69.1.18 61859 1ac5 483 0.001827 1ac5A 483 0.002572 c.69.1.5 34653 1gt6A 269 0.002710 c.69.1.17 76342 1tibA 269 0.007514 c.69.1.17 34738 1tib 269 0.007610 2d81A 318 0.007797 1uwcA 261 0.01372 c.69.1.17 100101 3tglA 269 0.02051 c.69.1.17 34733 2bjhA 260 0.05966 2z5gA 387 0.1224 1whsA 255 0.1446 c.69.1.5 34649 1t3tA 1303 0.2607 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1thtA 305 0.3350 c.69.1.13 34711 1cexA 214 0.3517 c.69.1.30 31285 1cex 214 0.4001 1whtA 256 1.265 c.69.1.5 34646 2oryA 346 1.313 2dsnA 387 1.839 2czqA 205 4.333 1b3bA 415 5.453 c.2.1.7,c.58.1.1 30244,33892 1whsB 153 6.200 1whtB 153 6.455 1qh8A 478 6.631 c.92.2.3 35633 1qnrA 344 8.857 c.1.8.3 28834 1ku0A 388 9.788 c.69.1.18 72994 2csuA 457 9.96 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1ctn 540 10.43 1pswA 348 10.47 c.87.1.7 88287 1eu1A 780 11.38 b.52.2.2,c.81.1.1 26903,35311 1vflA 356 11.77 c.1.9.1 120041 1hzdA 272 11.87 c.14.1.3 65969 1hkkA 364 11.93 c.1.8.5,d.26.3.1 90634,90635 1vf8A 377 13.13 c.1.8.5,d.26.3.1 120029,120030 2jfgA 445 13.86 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 2v9cA 215 14.98 1g66A 207 15.30 c.69.1.30 31329 1hrdA 449 16.61 c.2.1.7,c.58.1.1 30219,33867 1e3jA 352 17.57 b.35.1.2,c.2.1.1 24765,29781 1vlbA 907 18.15 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 2hpvA 208 18.16 2bmaA 470 19.56 1owqA 361 20.13 c.1.8.5,d.26.3.1 104041,104042 1ceo 343 21.00 1eceA 358 21.27 c.1.8.3 28813 1fehA 574 21.50 c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1g0cA 364 21.98 c.1.8.3 60165 1ea9C 583 25.04 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 2pqmA 343 25.38 1tyfA 193 25.97 c.14.1.1 30885 2i2wA 212 26.88 1m22A 503 26.93 c.117.1.1 78464 1w1iE 357 29.23 c.1.9.1 109051 2citA 282 29.95 c.1.8.3 130499 1wb0A 445 30.57 c.1.8.5,d.26.3.1 120825,120826 1rxyA 253 31.11 c.56.2.1 98065 2ajfA 597 31.83 d.92.1.5 126882 2gt1A 326 32.90 3bi1A 709 34.13 1qw9A 502 34.19 b.71.1.2,c.1.8.3 96466,96467 1ve5A 311 34.92 c.79.1.1 120013 8abp 306 35.06 1uwsA 489 35.48 c.1.8.4 108073 1to6A 371 35.78 c.141.1.1 107170 2bv9A 290 36.61 c.1.8.3 129242 2hx1A 284 38.45 2q62A 247 39.16 1f0kA 364 40.29 c.87.1.2 35465 2qahA 303 40.54 1zu4A 320 41.61 2eaxA 164 43.51 1b26A 416 44.69 c.2.1.7,c.58.1.1 30232,33880 1ozhA 566 46.29 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 2bhuA 602 48.22 b.1.18.2,b.71.1.1,c.1.8.1 128554,128555,128556 2or4A 709 48.79 a.48.2.1,c.8.4.1,c.56.5.5 139258,139259,139260 2c0hA 353 49.73 c.1.8.3 129594 1zk4A 251 49.91 c.2.1.2 125176 1usgA 346 49.94 c.93.1.1 99864 1gtmA 419 51.74 c.2.1.7,c.58.1.1 30223,33871 1eiwA 111 52.30 c.23.3.1 31130 1ile 821 52.40 1yb0A 159 53.00 d.118.1.1 122865 1gudA 288 53.69 c.93.1.1 83326 2bfgA 503 54.14 b.71.1.2,c.1.8.3 128423,128424 2jh3A 474 54.49 1uuqA 440 54.65 c.1.8.3 100015 1zowA 313 54.82 2v3gA 283 55.06 1qh8B 519 55.61 c.92.2.3 35634 1moqA 368 56.25 c.80.1.1 35302 2z2uA 311 56.90 1spxA 278 57.26 c.2.1.2 98958 2zatA 260 57.31 1o94A 729 57.43 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1e9lA 377 57.45 c.1.8.5,d.26.3.1 59395,59396 1gu7A 364 57.90 b.35.1.2,c.2.1.1 83321,83322 2gkoA 309 58.25 1hn0A 1021 61.19 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 2vbaA 406 61.76 1itxA 419 62.17 c.1.8.5,d.26.3.1 71425,71426 1j0aA 325 62.20 c.79.1.1 83871 1ecpA 238 62.45 c.56.2.1 33775 1hdoA 206 62.70 c.2.1.2 60965 1u04A 771 62.73 b.34.14.1,c.55.3.10 107539,107540 1dciA 275 63.01 c.14.1.3 30918 2nvoA 535 64.33 2c2nA 339 64.48 1g5aA 628 65.56 b.71.1.1,c.1.8.1 65152,65153 1edg 380 66.15 1tk9A 188 67.52 c.80.1.3 107082 1lamA 484 69.04 c.50.1.1,c.56.5.3 33166,33829 2napA 723 69.98 b.52.2.2,c.81.1.1 26926,35334 1eyeA 280 70.83 c.1.21.1 29672 3bhxA 709 70.90 2h1yA 321 72.44 1uwvA 433 76.18 b.40.4.12,c.66.1.40 100128,100129 1k6xA 352 76.31 c.2.1.2 68238 1gcoA 261 76.63 c.2.1.2 29884 1lam 484 78.87 1mjnA 179 80.05 c.62.1.1 79210 1l8aA 886 80.57 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1qs0A 407 83.06 c.36.1.11 31829 1qf6A 642 83.15 c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1ceoA 343 83.29 c.1.8.3 28808 2liv 344 83.32 2o55A 258 84.59 1geeA 261 84.60 c.2.1.2 90509 2nxwA 565 86.54 1vhwA 253 86.55 c.56.2.1 100706 1onxA 390 87.82 b.92.1.7,c.1.9.13 87176,87177 2f9iB 285 89.22 1lqaA 346 89.47 c.1.7.1 84674