# List of top-scoring protein chains for T0393.t04-w0.5 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 1vpdA 299 6.79e-08 a.100.1.1,c.2.1.6 113951,113952 3cumA 302 1.07e-07 2i9pA 319 1.12e-07 2gf2A 296 1.32e-07 1yb4A 295 2.36e-07 2cvzA 289 5.79e-07 a.100.1.1,c.2.1.6 130890,130891 2uyyA 316 9.95e-07 2f1kA 279 8.81e-05 a.100.1.12,c.2.1.6 132772,132773 2g5cA 281 0.000505 a.100.1.12,c.2.1.6 134646,134647 1pgjA 478 0.000560 a.100.1.1,c.2.1.6 18783,30195 2rcyA 262 0.000645 1yqgA 263 0.000646 2ahrA 259 0.000898 a.100.1.10,c.2.1.6 126775,126776 2p4qA 497 0.001507 2pgdA 482 0.004074 a.100.1.1,c.2.1.6 18778,30190 2iz1A 474 0.004436 2iypA 473 0.004670 2iyoA 472 0.004992 3c24A 286 0.01476 2izzA 322 0.01605 2gerA 321 0.01730 2graA 277 0.01786 2dbqA 334 0.01821 2pv7A 298 0.01879 1jayA 212 0.02514 c.2.1.6 66478 1zejA 293 0.02664 2rafA 209 0.04860 2i76A 276 0.1097 1bg6A 359 0.1431 a.100.1.5,c.2.1.6 18810,30214 2gcgA 330 0.1539 2q50A 328 0.1540 1np3A 338 0.1952 a.100.1.2,c.2.1.6 85946,85947 1txgA 335 0.1982 a.100.1.6,c.2.1.6 112775,112776 1i36A 264 0.2519 a.100.1.8,c.2.1.6 71108,71109 2d0iA 333 0.2824 1gpjA 404 0.2926 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1x0vA 354 0.3770 1wwkA 307 0.4309 2pi1A 334 0.4549 1zcjA 463 0.4599 2dldA 337 0.4805 c.2.1.4,c.23.12.1 30099,31359 2p9gA 410 0.4872 c.2.1.4,c.23.12.1,d.58.18.1 139574,139575,139576 2p9cA 410 0.4889 c.2.1.4,c.23.12.1,d.58.18.1 139556,139557,139558 1j4aA 333 0.5057 c.2.1.4,c.23.12.1 71502,71503 1j49A 333 0.5097 c.2.1.4,c.23.12.1 71498,71499 1sc6A 404 0.5127 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1yrlA 491 0.5190 1psdA 409 0.5380 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1ybaA 410 0.5391 c.2.1.4,c.23.12.1,d.58.18.1 122872,122873,122874 2d5cA 263 0.5522 1wpqA 349 0.5954 2dpoA 319 0.6084 2ew2A 316 0.6360 1evyA 366 0.7104 a.100.1.6,c.2.1.6 18811,30215 2hk8A 269 0.7185 2hk9A 275 0.7193 1z82A 335 0.7315 1qp8A 303 0.7490 c.2.1.4,c.23.12.1 30092,31352 1dxyA 333 0.7863 c.2.1.4,c.23.12.1 30094,31354 1xdwA 331 0.8273 1hkuA 358 1.180 c.2.1.4,c.23.12.1 83557,83558 1lsuA 147 1.478 c.2.1.9 74250 2hmvA 144 1.494 c.2.1.9 136615 2plaA 349 1.601 1il0A 302 1.642 a.100.1.3,c.2.1.6 66189,66190 1mx3A 347 1.644 c.2.1.4,c.23.12.1 79638,79639 2rirA 300 1.821 1m75A 302 1.914 a.100.1.3,c.2.1.6 91212,91213 1f17A 310 1.914 a.100.1.3,c.2.1.6 18797,30201 1f0yA 302 1.935 a.100.1.3,c.2.1.6 18793,30197 1lsjA 302 1.946 a.100.1.3,c.2.1.6 91116,91117 2j6iA 364 1.971 2fssA 365 2.000 3hadA 308 2.276 a.100.1.3,c.2.1.6 18799,30203 3hdhA 302 2.416 a.100.1.3,c.2.1.6 18805,30209 2eklA 313 2.449 1lsoA 302 2.622 a.100.1.3,c.2.1.6 91120,91121 2hdhA 293 2.804 a.100.1.3,c.2.1.6 18795,30199 2omeA 336 2.999 2o4cA 380 3.062 1m76A 302 3.764 a.100.1.3,c.2.1.6 91216,91217 1vknA 351 3.880 c.2.1.3,d.81.1.1 108676,108677 1pjcA 361 3.977 c.2.1.4,c.23.12.2 30101,31361 1ygyA 529 3.990 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2vhxA 377 3.999 2vojA 371 4.013 2ep5A 350 4.422 2nacA 393 4.628 c.2.1.4,c.23.12.1 30088,31348 2go1A 401 4.640 2vhvA 377 4.709 2ofpA 320 5.639 a.100.1.7,c.2.1.6 139052,139053 1wdkA 715 5.913 a.100.1.3,a.100.1.3,c.2.1.6,c.14.1.3 109250,109251,109252,109253 1hyhA 309 6.489 c.2.1.5,d.162.1.1 30150,42117 1f06A 320 7.696 c.2.1.3,d.81.1.3 59556,59557 1ks9A 291 8.403 a.100.1.7,c.2.1.6 68857,68858 1yonA 303 8.453 a.100.1.7,c.2.1.6 123780,123781 2hjrA 328 8.705 1gdhA 320 8.849 c.2.1.4,c.23.12.1 30095,31355 2o7sA 523 9.355 1mv8A 436 9.422 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2i99A 312 9.98 2b0jA 358 11.12 a.100.1.11,c.2.1.6 127639,127640 2a92A 321 11.34 2gsdA 402 11.66 2v6bA 304 12.64 1jw9B 249 12.91 c.111.1.1 67377 1lssA 140 13.56 c.2.1.9 74246 2eezA 369 13.97 2cukA 311 14.27 1pquA 371 16.60 c.2.1.3,d.81.1.1 104288,104289 1oc4A 322 16.77 c.2.1.5,d.162.1.1 92770,92771 1ps8A 371 16.89 c.2.1.3,d.81.1.1 104304,104305 1ozaA 371 17.00 c.2.1.3,d.81.1.1 104045,104046 2dc1A 236 17.13 1v9lA 421 17.17 c.2.1.7,c.58.1.1 113583,113584 1nwcA 371 17.23 c.2.1.3,d.81.1.1 92229,92230 1pr3A 371 17.36 c.2.1.3,d.81.1.1 104300,104301 2o3jA 481 17.40 2eggA 297 17.40 1t2dA 322 17.50 c.2.1.5,d.162.1.1 99084,99085 1q2xA 371 17.61 c.2.1.3,d.81.1.1 104503,104504 1pu2A 371 17.63 c.2.1.3,d.81.1.1 104308,104309 1nwhA 371 17.71 c.2.1.3,d.81.1.1 92233,92234 1t2eA 322 17.73 c.2.1.5,d.162.1.1 99086,99087 1xivA 323 17.92 c.2.1.5,d.162.1.1 122018,122019 2a94A 321 17.96 c.2.1.5,d.162.1.1 126423,126424 1pqpA 371 17.97 c.2.1.3,d.81.1.1 104286,104287 1j5pA 253 18.10 d.81.1.3,c.2.1.3 71577,83092 1yj8A 375 18.73 1ff9A 450 19.18 c.2.1.3,d.81.1.2 30039,39954 1ys4A 354 19.55 2cf5A 357 19.70 3ceaA 346 19.76 1ceqA 316 19.93 c.2.1.5,d.162.1.1 30163,42130 2q3eA 467 20.61 2g82A 331 21.01 c.2.1.3,d.81.1.1 134746,134747 1zud1 251 21.65 1zfnA 253 21.68 2ho3A 325 21.74 2qytA 317 21.82 2axqA 467 21.98 2bw0A 329 25.05 b.46.1.1,c.65.1.1 129303,129304 1ldgA 316 25.56 c.2.1.5,d.162.1.1 30165,42132 3bioA 304 25.81 1zh8A 340 25.96 c.2.1.3,d.81.1.5 125077,125078 1qmgA 524 26.27 a.100.1.2,c.2.1.6 18785,30182 1h2hA 241 26.92 d.81.1.3,c.2.1.3 70861,83058 2g76A 335 27.77 1mxhA 276 28.00 c.2.1.2 91490 1piwA 360 28.74 b.35.1.2,c.2.1.1 104156,104157 1cj2A 391 29.76 c.3.1.2,d.16.1.2 30351,37882 1lldA 319 30.32 c.2.1.5,d.162.1.1 30177,42144 1a5zA 319 30.71 c.2.1.5,d.162.1.1 30181,42148 1nytA 271 32.28 c.2.1.7,c.58.1.5 86417,86418 2r2gA 318 33.41 2r6jA 318 33.41 2bcpA 490 33.83 1wamA 384 34.39 c.4.1.3,d.16.1.7 120811,120812 2bi7A 384 34.65 1brmA 367 35.15 c.2.1.3,d.81.1.1 30030,39945 2bc0A 490 35.38 1g0oA 283 36.43 c.2.1.2 60181 1ybvA 283 36.43 c.2.1.2 29948 1t4bA 367 36.89 c.2.1.3,d.81.1.1 106406,106407 1yqdA 366 37.15 1nvmB 312 37.24 c.2.1.3,d.81.1.1 86251,86252 2c7vA 268 40.37 1x7dA 350 40.78 c.2.1.13 114927 2czcA 334 41.32 d.81.1.1 131044 2cvoA 366 42.97 c.2.1.3,d.81.1.1 130877,130878 2cd9A 366 43.29 1cj3A 392 43.36 c.3.1.2,d.16.1.2 30347,37878 1yxmA 303 44.94 c.2.1.2 124192 2cdcA 366 45.07 2g1uA 155 45.78 1vllA 334 46.97 c.2.1.13 108834 1omoA 322 47.46 c.2.1.13 104017 1tltA 319 49.16 c.2.1.3,d.81.1.5 107135,107136 1nhpA 447 49.31 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1guzA 310 49.84 c.2.1.5,d.162.1.1 65586,65587 1nhqA 447 50.97 c.3.1.5,c.3.1.5,d.87.1.1 30551,30552,40197 1bkwA 394 51.53 c.3.1.2,d.16.1.2 30343,37874 1cj4A 392 51.89 c.3.1.2,d.16.1.2 30345,37876 1cc4A 394 53.55 c.3.1.2,d.16.1.2 30340,37871 1f8wA 447 53.69 c.3.1.5,c.3.1.5,d.87.1.1 30561,30562,40202 1yvvA 336 53.80 1npxA 447 53.87 c.3.1.5,c.3.1.5,d.87.1.1 30557,30558,40200 2cduA 452 54.04 1vm6A 228 54.54 d.81.1.3,c.2.1.3 108877,118631 1bf3A 394 54.90 c.3.1.2,d.16.1.2 30346,37877 1y81A 138 55.60 c.2.1.8 122731 1pbfA 394 55.66 c.3.1.2,d.16.1.2 30349,37880 1nvtA 287 55.71 c.2.1.7,c.58.1.5 86270,86271 1bgnA 394 55.91 c.3.1.2,d.16.1.2 30339,37870 1pbdA 394 55.95 c.3.1.2,d.16.1.2 30342,37873 1bgjA 394 56.71 c.3.1.2,d.16.1.2 30352,37883 1cc6A 394 57.11 c.3.1.2,d.16.1.2 30344,37875 1cf2O 337 58.62 c.2.1.3,d.81.1.1 29994,39909 1nhsA 447 60.95 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2gasA 307 61.55 1ykjA 394 61.60 1p77A 272 61.95 c.2.1.7,c.58.1.5 94214,94215 1bxgB 356 62.72 c.2.1.7,c.58.1.1 30277,33925 1c1dB 355 63.14 c.2.1.7,c.58.1.1 30271,33919 1bw9B 356 63.28 c.2.1.7,c.58.1.1 30275,33923 1bxgA 356 63.29 c.2.1.7,c.58.1.1 30276,33924 1c1xB 355 63.30 c.2.1.7,c.58.1.1 30273,33921 1wmaA 276 63.76 c.2.1.2 121042 1c1dA 355 63.90 c.2.1.7,c.58.1.1 30270,33918 1tt5B 434 64.31 c.111.1.2 107292 1c1xA 355 64.51 c.2.1.7,c.58.1.1 30272,33920 1bw9A 356 64.54 c.2.1.7,c.58.1.1 30274,33922 1yovB 444 64.58 c.111.1.2 123786 1nhrA 447 65.73 c.3.1.5,c.3.1.5,d.87.1.1 30553,30554,40198 1r4mB 431 66.09 c.111.1.2 97000 3cosA 381 67.13 1pbeA 394 67.29 c.3.1.2,d.16.1.2 30338,37869 1iutA 394 67.76 c.3.1.2,d.16.1.2 30355,37886 1dobA 394 67.76 c.3.1.2,d.16.1.2 30362,37893 1pxcA 394 67.76 c.3.1.2,d.16.1.2 30361,37892 2q1wA 333 67.79 1k0iA 394 67.81 c.3.1.2,d.16.1.2 67942,67943 1pxaA 394 67.89 c.3.1.2,d.16.1.2 30366,37897 1s3iA 310 68.28 b.46.1.1,c.65.1.1 98435,98436 1pxbA 394 68.44 c.3.1.2,d.16.1.2 30367,37898 2ewdA 317 68.47 1vc2A 331 69.48 c.2.1.3,d.81.1.1 100555,100556 2nvuB 805 69.65 c.111.1.2,c.94.1.1 138661,138662 2gz1A 366 69.95 c.2.1.3,d.81.1.1 135887,135888 2q49A 359 72.10 c.2.1.3,d.81.1.1 139831,139832 2d4aA 308 73.36 1luaA 287 74.27 c.2.1.7,c.58.1.4 78216,78217 2jfgA 445 76.31 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1c0pA 363 76.70 c.4.1.2,d.16.1.3 30647,37934 1b7gO 340 76.91 c.2.1.3,d.81.1.1 29992,39907 4uagA 437 77.19 c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1ldbA 317 77.65 c.2.1.5,d.162.1.1 30174,42141 1ldnA 316 77.72 c.2.1.5,d.162.1.1 30166,42133 2frmA 321 77.95 2r9zA 463 79.09 2bgkA 278 80.18 c.2.1.2 128480 2exxA 306 82.49 2dvmA 439 83.09 1u3wA 374 84.95 b.35.1.2,c.2.1.1 113013,113014 2c29D 337 86.55 1gv1A 310 87.49 c.2.1.5,d.162.1.1 65598,65599 1gv0A 310 89.25 c.2.1.5,d.162.1.1 65594,65595