# List of top-scoring protein chains for t04-w0.5-1-o_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 2d5lA 706 8.31e-24 2z3zA 706 1.44e-23 2hu5A 582 2.24e-23 b.69.7.2,c.69.1.33 136763,136764 1xfdA 723 1.25e-21 b.70.3.1,c.69.1.24 115251,115252 1orvA 728 1.51e-21 b.70.3.1,c.69.1.24 87354,87355 1h2wA 710 1.71e-21 b.69.7.1,c.69.1.4 76596,76597 2qm0A 275 2.21e-21 1o6gA 710 2.58e-21 b.69.7.1,c.69.1.4 81087,81088 1qfmA 710 3.09e-21 b.69.7.1,c.69.1.4 27673,34641 1yr2A 741 5.40e-21 2bklA 695 9.80e-21 2uz0A 263 1.10e-20 2jbwA 386 1.62e-19 1wb4A 297 1.70e-19 c.69.1.2 120827 3c8dA 403 1.79e-19 1l7aA 318 2.46e-19 c.69.1.25 77772 1vlqA 337 3.03e-19 c.69.1.25 108848 2gzsA 278 3.85e-19 2i3dA 249 4.49e-19 1pv1A 299 4.86e-19 c.69.1.34 111639 2b20A 403 6.12e-19 b.1.18.20,c.69.1.2 127685,127686 3b5eA 223 6.47e-19 2r8bA 251 6.65e-19 1f0nA 285 1.54e-18 c.69.1.3 34636 1fj2A 232 6.00e-18 c.69.1.14 34720 2o2gA 223 6.45e-18 1zi8A 236 6.84e-18 1jjfA 268 8.38e-18 c.69.1.2 66765 1ycdA 243 1.02e-17 3bxpA 277 1.04e-17 1jfrA 262 1.16e-17 c.69.1.16 34724 1din 236 1.28e-17 2fx5A 258 1.47e-17 1lzlA 323 4.21e-17 c.69.1.2 78306 2fukA 220 6.62e-17 1jjiA 311 1.68e-16 c.69.1.2 66766 1qe3A 489 2.04e-16 c.69.1.1 34630 1ufoA 238 2.63e-16 c.69.1.27 99344 1u4nA 310 3.17e-16 c.69.1.2 113021 1r88A 280 3.55e-16 c.69.1.3 97219 1auoA 218 4.03e-16 c.69.1.14 34716 1thg 544 4.21e-16 1mpxA 615 4.62e-16 b.18.1.13,c.69.1.21 85041,85042 1ea5A 537 5.95e-16 c.69.1.1 34592 1p0iA 529 6.93e-16 c.69.1.1 93867 1cleA 534 7.65e-16 c.69.1.17 34771 1dqzA 280 8.49e-16 c.69.1.3 34638 1vkhA 273 1.03e-15 c.69.1.32 108662 1ukcA 522 1.90e-15 c.69.1.17 107911 1llfA 534 2.35e-15 c.69.1.17 78094 2hdwA 367 5.60e-15 2pblA 262 2.52e-14 2bce 581 1.68e-13 1ju3A 583 1.79e-13 b.18.1.13,c.69.1.21 67300,67301 1wm1A 317 4.53e-13 c.69.1.7 109405 2hm7A 310 6.82e-13 1imjA 210 9.70e-13 c.69.1.23 71246 1j1iA 296 2.19e-12 c.69.1.10 83977 1b6g 310 2.42e-12 1ede 310 2.53e-12 1qtrA 317 2.59e-12 c.69.1.7 34660 1jkmA 358 3.29e-12 c.69.1.2 34633 1q0rA 298 3.29e-12 c.69.1.28 95508 1hlgA 371 3.31e-12 c.69.1.6 34656 1k8qA 377 4.20e-12 c.69.1.6 72177 1u2eA 289 5.39e-12 1azwA 313 6.14e-12 c.69.1.7 34658 1c4xA 285 1.05e-11 c.69.1.10 34684 1ehyA 294 1.09e-11 c.69.1.11 34693 1va4A 279 1.18e-11 c.69.1.12 108458 2o7rA 338 1.23e-11 1mtzA 293 1.52e-11 c.69.1.7 79467 1bn7A 294 1.57e-11 c.69.1.8 34677 1uk8A 282 1.62e-11 c.69.1.10 107907 2veoA 441 1.91e-11 1lnsA 763 2.31e-11 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1a88A 275 2.62e-11 c.69.1.12 34707 1tqhA 247 2.75e-11 c.69.1.29 107225 1yasA 257 3.50e-11 c.69.1.20 34801 2h7cA 542 4.81e-11 c.69.1.1 136207 1brt 277 4.96e-11 1broA 277 5.69e-11 c.69.1.12 34700 2qjwA 176 7.09e-11 1zd3A 555 7.47e-11 c.108.1.2,c.69.1.11 124930,124931 1womA 271 8.65e-11 1qj4A 257 8.69e-11 c.69.1.20 34796 1tca 317 1.09e-10 1xqwA 293 1.12e-10 2cjpA 328 1.26e-10 2ogtA 498 1.27e-10 1zoiA 276 1.35e-10 1m33A 258 1.39e-10 c.69.1.26 78514 1hkhA 279 1.54e-10 c.69.1.12 90628 1r1dA 247 1.56e-10 c.69.1.29 96813 3bdiA 207 1.67e-10 3c5vA 316 1.96e-10 2r11A 306 2.25e-10 2ocgA 254 2.68e-10 1cv2A 296 3.02e-10 c.69.1.8 34680 2rhwA 283 3.32e-10 1mj5A 302 3.42e-10 c.69.1.8 91285 1xklA 273 3.57e-10 c.69.1.20 115410 1b6gA 310 4.14e-10 c.69.1.8 34661 2og1A 286 5.29e-10 2puhA 286 6.66e-10 2e3jA 356 6.75e-10 2pujA 286 7.69e-10 1ei9A 279 8.49e-10 c.69.1.13 34713 1a8sA 273 8.89e-10 c.69.1.12 34710 1uxoA 192 9.75e-10 c.69.1.31 108121 1mnaA 298 1.03e-09 c.69.1.22 79322 3bwxA 285 1.06e-09 2b61A 377 1.18e-09 1a8qA 274 1.24e-09 c.69.1.12 34702 2qruA 274 1.42e-09 2qmqA 286 1.61e-09 2psdA 318 1.71e-09 1tcaA 317 2.10e-09 c.69.1.17 34726 1brtA 277 2.15e-09 c.69.1.12 34699 1r3dA 264 2.79e-09 c.69.1.35 111680 1gpl 432 2.93e-09 1pjaA 302 2.95e-09 c.69.1.13 94758 2yysA 286 3.16e-09 1qo7A 394 3.60e-09 c.69.1.11 34697 3bdvA 191 3.62e-09 2qs9A 194 3.66e-09 3bf7A 255 4.14e-09 1y37A 304 5.50e-09 1bu8A 452 5.79e-09 b.12.1.2,c.69.1.19 23647,34795 2qvbA 297 7.53e-09 2rauA 354 1.03e-08 1qlwA 328 1.42e-08 c.69.1.15 34722 1ys1X 320 1.46e-08 2o2iA 300 1.51e-08 2pl5A 366 2.35e-08 1thgA 544 2.43e-08 c.69.1.17 34763 1cvl 319 3.34e-08 3bixA 574 3.55e-08 1jmkC 230 4.62e-08 c.69.1.22 71747 1cvlA 319 1.97e-07 c.69.1.18 34786 2bceA 585 2.36e-07 c.69.1.1 34625 2hfkA 319 2.86e-07 1hplA 449 3.36e-07 b.12.1.2,c.69.1.19 23639,34787 2d80A 318 4.22e-07 2q0xA 335 1.76e-06 2cb9A 244 2.07e-06 1ivyA 452 8.99e-06 c.69.1.5 34654 2px6A 316 9.95e-06 2d81A 318 1.05e-05 1ispA 181 1.18e-05 c.69.1.18 76778 1ac5A 483 2.92e-05 c.69.1.5 34653 1ac5 483 3.98e-05 1i6wA 181 5.19e-05 c.69.1.18 61859 1gt6A 269 0.000182 c.69.1.17 76342 1tibA 269 0.000520 c.69.1.17 34738 1uwcA 261 0.001433 c.69.1.17 100101 1tib 269 0.001872 2z5gA 387 0.002464 2bjhA 260 0.004183 3tglA 269 0.01130 c.69.1.17 34733 1cexA 214 0.02879 c.69.1.30 31285 2dsnA 387 0.05300 1cex 214 0.08706 1thtA 305 0.1652 c.69.1.13 34711 1whtA 256 0.1865 c.69.1.5 34646 1whsA 255 0.5398 c.69.1.5 34649 1ku0A 388 0.8517 c.69.1.18 72994 2oryA 346 0.9050 2csuA 457 3.170 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1vflA 356 3.266 c.1.9.1 120041 1g0cA 364 3.756 c.1.8.3 60165 1jz8A 1023 4.043 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1g66A 207 5.417 c.69.1.30 31329 1db3A 372 6.497 c.2.1.2 29813 1qh8A 478 6.733 c.92.2.3 35633 1whtB 153 7.228 1whsB 153 7.499 1ceo 343 7.705 2bv9A 290 8.059 c.1.8.3 129242 2q4zA 312 8.681 1itxA 419 8.731 c.1.8.5,d.26.3.1 71425,71426 1eqcA 394 10.99 c.1.8.3 28811 1ve5A 311 11.28 c.79.1.1 120013 2v9cA 215 12.05 1m22A 503 12.42 c.117.1.1 78464 1pamA 686 12.44 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1bg4A 302 12.62 c.1.8.3 28806 1yb0A 159 12.82 d.118.1.1 122865 1orrA 347 13.04 c.2.1.2 93460 1ryiA 382 14.78 c.3.1.2,d.16.1.3 118813,118814 1to6A 371 16.06 c.141.1.1 107170 1yt8A 539 16.99 c.46.1.2,c.46.1.2,c.46.1.2,c.46.1.2 123996,123997,123998,123999 1edg 380 17.29 1zowA 313 20.03 2q62A 247 20.24 2ob3A 330 21.08 2bfgA 503 21.97 b.71.1.2,c.1.8.3 128423,128424 2q3bA 313 22.34 2c2nA 339 22.54 1tjyA 316 23.39 c.93.1.1 107062 2dri 271 23.42 1qnrA 344 23.42 c.1.8.3 28834 1owqA 361 23.62 c.1.8.5,d.26.3.1 104041,104042 1rh9A 373 23.91 c.1.8.3 118773 2jg2A 422 23.95 2pqmA 343 23.99 2czqA 205 24.89 1k32A 1045 25.97 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1vf8A 377 26.60 c.1.8.5,d.26.3.1 120029,120030 1gudA 288 27.88 c.93.1.1 83326 1pswA 348 28.66 c.87.1.7 88287 1eceA 358 29.54 c.1.8.3 28813 2uz1A 563 29.92 1vp8A 201 30.38 c.49.1.2 113947 1e9lA 377 30.47 c.1.8.5,d.26.3.1 59395,59396 1tyfA 193 30.82 c.14.1.1 30885 1t2aA 375 30.95 c.2.1.2 99078 1eiwA 111 32.15 c.23.3.1 31130 3ctpA 330 32.74 1f0kA 364 32.96 c.87.1.2 35465 1vmkA 277 34.51 c.56.2.1 113680 2ct8A 497 36.17 1hkkA 364 36.69 c.1.8.5,d.26.3.1 90634,90635 1e3jA 352 37.14 b.35.1.2,c.2.1.1 24765,29781 1v7cA 351 37.27 c.79.1.1 100446 2z2uA 311 37.61 1h1nA 305 37.73 c.1.8.3 70855 1ceoA 343 40.41 c.1.8.3 28808 2iv2X 715 40.57 b.52.2.2,c.81.1.1 137714,137715 1gu7A 364 40.71 b.35.1.2,c.2.1.1 83321,83322 1xyzA 347 41.03 c.1.8.3 28804 2nm0A 253 43.21 2dx6A 159 43.54 1mjnA 179 43.70 c.62.1.1 79210 1avaA 403 43.87 b.71.1.1,c.1.8.1 27797,28784 1vhwA 253 43.97 c.56.2.1 100706 1n7hA 381 45.94 c.2.1.2 80250 1tk9A 188 46.40 c.80.1.3 107082 1wb0A 445 47.04 c.1.8.5,d.26.3.1 120825,120826 2gt1A 326 47.72 1fh9A 312 48.78 c.1.8.3 28913 2qtwB 546 49.13 2cksA 306 50.21 2d4wA 504 51.91 2c0hA 353 52.53 c.1.8.3 129594 1h4pA 408 53.39 c.1.8.3 90617 2yvaA 196 54.04 1rxyA 253 54.27 c.56.2.1 98065 1ng4A 390 55.91 c.3.1.2,d.16.1.3 85666,85667 2c82A 413 56.93 2hpvA 208 57.60 2i2wA 212 57.85 1w85A 368 58.46 c.36.1.11 114335 3c8uA 208 58.62 2cuyA 305 61.26 2c1xA 456 61.41 2ax4A 198 62.12 1jndA 420 62.30 c.1.8.5,d.26.3.1 71757,71758 1w1iE 357 62.55 c.1.9.1 109051 2osxA 481 62.70 1o58A 303 63.20 c.79.1.1 92491 3cdxA 354 63.50 1hjsA 332 63.96 c.1.8.3 83492 2jh3A 474 64.02 3clwA 507 64.77 1p5jA 372 65.00 c.79.1.1 104067 1bdbA 277 65.55 c.2.1.2 29874 1l1eA 287 65.57 c.66.1.18 73454 1vjzA 341 65.67 c.1.8.3 100838 1z7yA 322 65.99 c.79.1.1 124679 2fk8A 318 66.07 c.66.1.18 133648 1ll7A 392 67.53 c.1.8.5,d.26.3.1 78085,78086 1fcjA 322 68.78 c.79.1.1 35289 2e7zA 727 68.96 2q09A 416 69.07 1fobA 334 69.10 c.1.8.3 83255 1jaeA 471 69.90 b.71.1.1,c.1.8.1 27773,28760 1uuqA 440 70.37 c.1.8.3 100015 1qe5A 266 70.80 c.56.2.1 33784 1x92A 199 73.01 c.80.1.3 114976 1z15A 344 73.15 1v72A 356 74.70 c.67.1.1 119860 2d51A 406 75.52 1v0wA 506 76.72 d.136.1.2,d.136.1.2 108220,108221 1q0qA 406 76.97 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1xpkC 388 78.14 c.95.1.2,c.95.1.2 115747,115748 2v3gA 283 78.55 2hcuA 213 80.25 1dv1A 449 80.38 b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1o89A 345 80.54 b.35.1.2,c.2.1.1 92644,92645 1hzdA 272 81.07 c.14.1.3 65969 1edqA 540 82.97 b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1hjxA 362 84.41 c.1.8.5,d.26.3.1 83512,83513 1szoA 257 84.82 c.14.1.3 106164 1b8oA 284 85.26 c.56.2.1 33762 1ivnA 190 85.65 c.23.10.5 83719 1usgA 346 85.70 c.93.1.1 99864 1x6vA 630 85.77 b.122.1.3,c.26.1.5,c.37.1.4 121755,121756,121757 1g2oA 268 86.67 c.56.2.1 60228 1lfaA 187 86.89 c.62.1.1 34122 2jfgA 445 87.75 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 2h1yA 321 88.31 1o8uA 257 88.34 c.14.1.3 81194 1e8cA 498 88.58 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 2eaxA 164 88.93 1gca 309 89.49 1kbjA 412 89.50 c.1.4.1 72280 1iirA 415 89.62 c.87.1.5 62453