# List of top-scoring protein chains for t04-w0.5-1-n_sep-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 2h78A 302 5.11e-11 1yb4A 295 5.99e-11 2i76A 276 1.87e-10 1vpdA 299 3.21e-10 a.100.1.1,c.2.1.6 113951,113952 2rcyA 262 3.31e-10 2ahrA 259 6.31e-10 a.100.1.10,c.2.1.6 126775,126776 2izzA 322 1.02e-09 2pgdA 482 1.48e-09 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 2.47e-09 2f1kA 279 2.74e-09 a.100.1.12,c.2.1.6 132772,132773 1yqgA 263 2.93e-09 2cvzA 289 4.96e-09 a.100.1.1,c.2.1.6 130890,130891 2g5cA 281 7.29e-09 a.100.1.12,c.2.1.6 134646,134647 2graA 277 8.12e-09 2pv7A 298 8.44e-09 1np3A 338 2.73e-08 a.100.1.2,c.2.1.6 85946,85947 1pgjA 478 5.10e-08 a.100.1.1,c.2.1.6 18783,30195 2pgd 482 6.36e-08 3c24A 286 1.97e-07 1i36A 264 5.11e-07 a.100.1.8,c.2.1.6 71108,71109 1ks9A 291 7.15e-07 a.100.1.7,c.2.1.6 68857,68858 1bg6 359 7.47e-07 1txgA 335 1.51e-06 a.100.1.6,c.2.1.6 112775,112776 1yrlA 491 1.64e-06 1qmgA 524 1.70e-06 a.100.1.2,c.2.1.6 18785,30182 2ew2A 316 2.26e-06 1zejA 293 4.99e-06 1evyA 366 5.16e-06 a.100.1.6,c.2.1.6 18811,30215 2o3jA 481 8.77e-06 1mv8A 436 1.38e-05 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1f0yA 302 1.77e-05 a.100.1.3,c.2.1.6 18793,30197 1dljA 402 3.08e-05 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 5.08e-05 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1z82A 335 0.000101 1zcjA 463 0.000186 1jayA 212 0.000236 c.2.1.6 66478 1bg6A 359 0.002526 a.100.1.5,c.2.1.6 18810,30214 2dpoA 319 0.003673 1ff9A 450 0.008915 c.2.1.3,d.81.1.2 30039,39954 1x0vA 354 0.009812 2qytA 317 0.01367 1gdhA 320 0.02123 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.02423 c.2.1.4,c.23.12.1 30088,31348 1tltA 319 0.04309 c.2.1.3,d.81.1.5 107135,107136 1t2dA 322 0.06054 c.2.1.5,d.162.1.1 99084,99085 1u8xX 472 0.06136 c.2.1.5,d.162.1.2 107741,107742 1mx3A 347 0.08291 c.2.1.4,c.23.12.1 79638,79639 1wwkA 307 0.09491 1ldg 316 0.1006 2b0jA 358 0.1142 a.100.1.11,c.2.1.6 127639,127640 1lssA 140 0.1200 c.2.1.9 74246 1xdwA 331 0.1223 2fssA 365 0.1231 1lldA 319 0.1281 c.2.1.5,d.162.1.1 30177,42144 1d4fA 431 0.1354 c.2.1.4,c.23.12.3 30110,31370 2g76A 335 0.1355 1vllA 334 0.1377 c.2.1.13 108834 1j4aA 333 0.1448 c.2.1.4,c.23.12.1 71502,71503 1xwfA 431 0.1483 c.2.1.4,c.23.12.3 122392,122393 2j6iA 364 0.1620 1ur5A 309 0.1891 c.2.1.5,d.162.1.1 99807,99808 2hk9A 275 0.1960 1li4A 432 0.1967 c.2.1.4,c.23.12.3 84616,84617 1v8bA 479 0.2226 c.2.1.4,c.23.12.3 113564,113565 1omoA 322 0.2231 c.2.1.13 104017 1xeaA 323 0.2440 c.2.1.3,d.81.1.5 109572,109573 1uxjA 309 0.2704 c.2.1.5,d.162.1.1 108112,108113 1psdA 409 0.2781 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1up6A 416 0.2842 c.2.1.5,d.162.1.2 107976,107977 1dxy 333 0.3057 1pzgA 331 0.3181 c.2.1.5,d.162.1.1 95425,95426 1x7dA 350 0.3458 c.2.1.13 114927 1sc6A 404 0.3585 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2dbqA 334 0.3907 1up7A 417 0.4701 c.2.1.5,d.162.1.2 113374,113375 1gpjA 404 0.5353 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2hmvA 144 0.5890 c.2.1.9 136615 2d0iA 333 0.6057 1guzA 310 0.8487 c.2.1.5,d.162.1.1 65586,65587 2ewdA 317 0.8762 2o4cA 380 0.8830 1lsuA 147 0.9069 c.2.1.9 74250 1obbA 480 0.9356 c.2.1.5,d.162.1.2 86760,86761 2d5cA 263 0.9804 1qp8A 303 1.021 c.2.1.4,c.23.12.1 30092,31352 1s6yA 450 1.113 c.2.1.5,d.162.1.2 105314,105315 2pi1A 334 1.147 1nytA 271 1.162 c.2.1.7,c.58.1.5 86417,86418 1hyhA 309 1.174 c.2.1.5,d.162.1.1 30150,42117 6ldhA 329 1.351 c.2.1.5,d.162.1.1 30161,42128 2glxA 332 1.430 2nvwA 479 1.493 c.2.1.3,d.81.1.5 138665,138666 2ho3A 325 1.562 1ygyA 529 1.589 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2nloA 302 1.603 2axqA 467 1.652 1npyA 271 1.652 c.2.1.7,c.58.1.5 85995,85996 1gcuA 295 1.668 c.2.1.3,d.81.1.4 30063,39978 2eggA 297 1.686 1f06A 320 1.723 c.2.1.3,d.81.1.3 59556,59557 2i6tA 303 1.774 2d59A 144 1.850 c.2.1.8 131266 1vjtA 483 1.890 c.2.1.5,d.162.1.2 100833,100834 2g1uA 155 1.901 1nvtA 287 2.107 c.2.1.7,c.58.1.5 86270,86271 2gcgA 330 2.221 2aefA 234 2.230 2dc1A 236 2.230 1pjcA 361 2.677 c.2.1.4,c.23.12.2 30101,31361 2v7pA 310 2.682 1qv9A 283 2.722 c.127.1.1 96356 3ceaA 346 2.890 2vhxA 377 2.945 1iukA 140 2.972 c.2.1.8 83712 1c1dA 355 3.145 c.2.1.7,c.58.1.1 30270,33918 2q4eA 362 3.316 1p77A 272 3.335 c.2.1.7,c.58.1.5 94214,94215 1a5zA 319 3.344 c.2.1.5,d.162.1.1 30181,42148 1y81A 138 3.501 c.2.1.8 122731 2cukA 311 3.518 3c85A 183 3.582 1ofgA 381 3.861 c.2.1.3,d.81.1.5 30064,39979 3c1aA 315 4.019 1h6dA 433 4.963 c.2.1.3,d.81.1.5 65656,65657 1luaA 287 5.436 c.2.1.7,c.58.1.4 78216,78217 1ez4A 318 5.472 c.2.1.5,d.162.1.1 64917,64918 2vojA 371 5.648 2csuA 457 5.946 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 2o4uX 334 5.998 2p2sA 336 6.080 2gptA 523 6.187 1zh8A 340 6.584 c.2.1.3,d.81.1.5 125077,125078 1hdoA 206 7.158 c.2.1.2 60965 1j5pA 253 7.399 d.81.1.3,c.2.1.3 71577,83092 2o7sA 523 7.403 1a4iA 301 7.986 c.2.1.7,c.58.1.2 30278,33926 1id1A 153 8.371 c.2.1.9 62286 1lehA 364 8.532 c.2.1.7,c.58.1.1 30268,33916 1rydA 387 8.645 c.2.1.3,d.81.1.5 118801,118802 2czcA 334 11.00 d.81.1.1 131044 1vi2A 300 11.23 c.2.1.7,c.58.1.5 100726,100727 1nvmB 312 11.55 c.2.1.3,d.81.1.1 86251,86252 2r6jA 318 11.63 1vknA 351 12.35 c.2.1.3,d.81.1.1 108676,108677 1l1eA 287 12.88 c.66.1.18 73454 1n7hA 381 13.36 c.2.1.2 80250 1dxyA 333 14.08 c.2.1.4,c.23.12.1 30094,31354 1orrA 347 14.35 c.2.1.2 93460 2ph5A 480 14.63 1scuA 288 15.46 c.2.1.8,c.23.4.1 30307,31135 1q7bA 244 15.67 c.2.1.2 96026 1hxhA 253 15.87 c.2.1.2 76725 1lc0A 294 16.30 c.2.1.3,d.81.1.4 73823,73824 1l7dA 384 16.69 c.2.1.4,c.23.12.2 77774,77775 1b0aA 288 16.83 c.2.1.7,c.58.1.2 30286,33934 1k2wA 256 17.04 c.2.1.2 90927 1nffA 260 18.42 c.2.1.2 80457 1hdcA 253 19.43 c.2.1.2 29862 2hjsA 340 19.57 c.2.1.3,d.81.1.1 136547,136548 2yx0A 342 19.72 1drw 273 19.84 1drwA 273 20.33 c.2.1.3,d.81.1.3 30057,39972 2z1nA 260 20.59 1xhlA 297 20.60 c.2.1.2 109591 2exxA 306 20.98 2g17A 337 21.66 c.2.1.3,d.81.1.1 134512,134513 2v3aA 384 21.89 1e6wA 260 22.63 c.2.1.2 59326 1jw9B 249 23.26 c.111.1.1 67377 2ixaA 444 23.38 1fmcA 255 23.93 c.2.1.2 29856 1bxkA 355 24.17 c.2.1.2 29803 1ydeA 270 24.18 c.2.1.2 122980 2pd6A 264 24.36 2cmdA 312 25.13 c.2.1.5,d.162.1.1 30135,42102 1rkxA 357 25.56 c.2.1.2 97631 1xseA 295 26.04 c.2.1.2 115925 1gegA 256 26.42 c.2.1.2 29888 1k6xA 352 26.44 c.2.1.2 68238 2nqtA 352 26.59 2a4kA 263 26.63 c.2.1.2 126156 1t2aA 375 27.41 c.2.1.2 99078 2o23A 265 28.11 c.2.1.2 138884 1xkqA 280 28.62 c.2.1.2 115417 1qydA 313 29.78 c.2.1.2 96583 2b5wA 357 30.01 1yb1A 272 30.30 c.2.1.2 116599 2gz1A 366 30.75 c.2.1.3,d.81.1.1 135887,135888 1yxmA 303 30.91 c.2.1.2 124192 2q49A 359 32.38 c.2.1.3,d.81.1.1 139831,139832 1xu9A 286 32.65 c.2.1.2 116052 2dt5A 211 32.84 a.4.5.38,c.2.1.12 131708,131709 1uufA 369 33.24 b.35.1.2,c.2.1.1 100006,100007 1ja9A 274 34.28 c.2.1.2 62817 2gasA 307 35.26 1pl8A 356 35.97 b.35.1.2,c.2.1.1 94878,94879 1zmdA 474 36.35 1xq6A 253 36.62 c.2.1.2 115829 1db3A 372 37.99 c.2.1.2 29813 1zmtA 254 38.20 c.2.1.2 125363 3grs 478 38.21 2eklA 313 40.13 1w6uA 302 40.53 c.2.1.2 114288 1x7gA 261 40.61 c.2.1.2 114929 2bryA 497 40.94 2gqwA 408 42.25 2ag5A 246 42.75 c.2.1.2 126719 1pwxA 254 42.85 c.2.1.2 95262 2h6eA 344 42.90 2gdzA 267 43.11 c.2.1.2 135043 2a9fA 398 43.61 1vl8A 267 43.66 c.2.1.2 108733 2c5aA 379 44.38 c.2.1.2 129894 2jahA 247 44.99 1xcbA 211 45.17 a.4.5.38,c.2.1.12 109552,109553 1y5mA 276 46.95 c.2.1.2 122645 1b16A 254 48.34 c.2.1.2 29875 1x13A 401 48.68 1e7wA 291 49.23 c.2.1.2 59373 1zk4A 251 49.90 c.2.1.2 125176 1qycA 308 50.05 c.2.1.2 96581 1bdb 277 50.88 2ozpA 345 51.82 1oi7A 288 52.24 c.2.1.8,c.23.4.1 87049,87050 1bdbA 277 54.30 c.2.1.2 29874 2ae2A 260 54.94 c.2.1.2 29945 1sb8A 352 55.48 c.2.1.2 105410 1iy8A 267 56.48 c.2.1.2 83774 1nhpA 447 56.78 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2cdcA 366 56.83 1zud1 251 57.71 1nhp 447 57.74 1cydA 244 57.75 c.2.1.2 29825 2q46A 253 58.77 c.2.1.2 139825 2nwqA 272 59.09 1fl2A 310 59.64 c.3.1.5,c.3.1.5 59869,59870 2r00A 336 59.90 1spxA 278 60.17 c.2.1.2 98958 1e3jA 352 60.21 b.35.1.2,c.2.1.1 24765,29781 2ph3A 245 60.37 2pnfA 248 62.00 1vj0A 380 62.79 b.35.1.2,c.2.1.1 100786,100787 1hyuA 521 64.78 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2c07A 285 65.48 c.2.1.2 129577 2qa1A 500 65.60 2r0cA 549 65.68 2cduA 452 65.82 1xg5A 279 66.00 c.2.1.2 115277 1i2cA 404 67.23 c.2.1.2 83666 1zemA 262 67.28 c.2.1.2 124984 2cfcA 250 67.30 1kewA 361 67.35 c.2.1.2 68544 2ew8A 249 68.84 c.2.1.2 132447 1l9cA 389 69.34 c.3.1.2,d.16.1.3 77815,77816 1f6yA 262 69.88 c.1.21.2 29673 1kwgA 645 70.13 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1cf2O 337 71.55 c.2.1.3,d.81.1.1 29994,39909 1h5qA 265 71.93 c.2.1.2 60643 1yqzA 438 72.15 2bzgA 232 73.48 c.66.1.36 129559 1rpnA 335 73.76 c.2.1.2 97708 1xhcA 367 73.97 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 3ladA 476 75.96 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 2jhfA 374 76.84 b.35.1.2,c.2.1.1 138314,138315 3c8mA 331 77.17 1y1pA 342 77.61 c.2.1.2 122550 1x1eA 239 79.34 1vqwA 457 80.12 c.3.1.5,c.3.1.5 114028,114029 2p91A 285 80.73 2cf5A 357 81.26 3bofA 566 81.27 1othA 321 82.28 c.78.1.1,c.78.1.1 35260,35261 1q1rA 431 82.95 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 5nul 138 83.44 1tx2A 297 83.73 c.1.21.1 107420 1nhsA 447 86.85 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1sbyA 254 87.43 c.2.1.2 118930 1n8kA 374 87.46 b.35.1.2,c.2.1.1 80298,80299 1aj2A 282 87.53 c.1.21.1 29665 1kjqA 391 88.19 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1wmaA 276 88.63 c.2.1.2 121042 2bw0A 329 89.28 b.46.1.1,c.65.1.1 129303,129304