# List of top-scoring protein chains for t04-w0.5-1-alpha-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 2c2xA 281 2.10e-07 2eklA 313 1.40e-06 1b0aA 288 1.45e-06 c.2.1.7,c.58.1.2 30286,33934 1ygyA 529 1.53e-06 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2cukA 311 1.71e-06 2gcgA 330 1.92e-06 2g76A 335 1.97e-06 1gdhA 320 2.16e-06 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 2.37e-06 c.2.1.4,c.23.12.1 30088,31348 2pi1A 334 3.23e-06 1wwkA 307 3.39e-06 1a4iA 301 3.58e-06 c.2.1.7,c.58.1.2 30278,33926 1psdA 409 3.63e-06 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 2dbqA 334 3.65e-06 1j4aA 333 5.44e-06 c.2.1.4,c.23.12.1 71502,71503 1mx3A 347 6.26e-06 c.2.1.4,c.23.12.1 79638,79639 1dxyA 333 8.31e-06 c.2.1.4,c.23.12.1 30094,31354 2vojA 371 8.72e-06 1xdwA 331 9.02e-06 2j6iA 364 9.08e-06 2fssA 365 9.80e-06 1dxy 333 1.01e-05 2d0iA 333 1.11e-05 1qp8A 303 1.13e-05 c.2.1.4,c.23.12.1 30092,31352 1sc6A 404 1.19e-05 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2vhxA 377 1.83e-05 1edzA 320 2.01e-05 c.2.1.7,c.58.1.2 30287,33935 1li4A 432 2.50e-05 c.2.1.4,c.23.12.3 84616,84617 2o4cA 380 2.58e-05 1xwfA 431 3.43e-05 c.2.1.4,c.23.12.3 122392,122393 1v8bA 479 3.72e-05 c.2.1.4,c.23.12.3 113564,113565 2qrlA 394 5.08e-05 1d4fA 431 5.22e-05 c.2.1.4,c.23.12.3 30110,31370 1pjcA 361 0.000663 c.2.1.4,c.23.12.2 30101,31361 1l7dA 384 0.009664 c.2.1.4,c.23.12.2 77774,77775 1lehA 364 0.01416 c.2.1.7,c.58.1.1 30268,33916 1gpjA 404 0.01827 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1x13A 401 0.03198 1x7dA 350 0.03957 c.2.1.13 114927 2hk9A 275 0.07491 1vllA 334 0.1020 c.2.1.13 108834 1p77A 272 0.1299 c.2.1.7,c.58.1.5 94214,94215 1nytA 271 0.1459 c.2.1.7,c.58.1.5 86417,86418 1np3A 338 0.2035 a.100.1.2,c.2.1.6 85946,85947 1c1dA 355 0.2370 c.2.1.7,c.58.1.1 30270,33918 1vpdA 299 0.2630 a.100.1.1,c.2.1.6 113951,113952 2nloA 302 0.3163 1omoA 322 0.3762 c.2.1.13 104017 1yrlA 491 0.3824 2d5cA 263 0.4558 2eggA 297 0.5426 1e3jA 352 0.5650 b.35.1.2,c.2.1.1 24765,29781 2ahrA 259 0.5740 a.100.1.10,c.2.1.6 126775,126776 2f1kA 279 0.6063 a.100.1.12,c.2.1.6 132772,132773 1uufA 369 0.7486 b.35.1.2,c.2.1.1 100006,100007 1nvtA 287 0.8424 c.2.1.7,c.58.1.5 86270,86271 3c24A 286 0.8564 2h78A 302 0.9586 2cf5A 357 1.049 1f8fA 371 1.139 b.35.1.2,c.2.1.1 83246,83247 2cdcA 366 1.240 1luaA 287 1.299 c.2.1.7,c.58.1.4 78216,78217 2ew2A 316 1.342 1bg6 359 1.506 1vj0A 380 1.513 b.35.1.2,c.2.1.1 100786,100787 1npyA 271 1.521 c.2.1.7,c.58.1.5 85995,85996 1jqbA 351 1.547 b.35.1.2,c.2.1.1 77151,77152 1vi2A 300 1.608 c.2.1.7,c.58.1.5 100726,100727 1yqdA 366 1.633 2dvmA 439 1.702 2pgd 482 1.796 1bg6A 359 1.804 a.100.1.5,c.2.1.6 18810,30214 1pl8A 356 1.807 b.35.1.2,c.2.1.1 94878,94879 1y9aA 360 1.840 1lluA 342 1.854 b.35.1.2,c.2.1.1 91064,91065 1u3wA 374 1.921 b.35.1.2,c.2.1.1 113013,113014 2g5cA 281 1.994 a.100.1.12,c.2.1.6 134646,134647 1h2bA 359 1.996 b.35.1.2,c.2.1.1 90543,90544 1kevA 351 2.315 b.35.1.2,c.2.1.1 24749,29765 1ks9A 291 2.331 a.100.1.7,c.2.1.6 68857,68858 2hcyA 347 2.381 2izzA 322 2.664 1p0fA 373 2.701 b.35.1.2,c.2.1.1 87642,87643 1evyA 366 2.713 a.100.1.6,c.2.1.6 18811,30215 2h6eA 344 2.764 2pv7A 298 2.821 2d8aA 348 2.995 2b5wA 357 3.074 1yqgA 263 3.136 1iz0A 302 3.178 b.35.1.2,c.2.1.1 83821,83822 1jayA 212 3.198 c.2.1.6 66478 1qmgA 524 3.340 a.100.1.2,c.2.1.6 18785,30182 2p4qA 497 3.346 1qorA 327 3.490 b.35.1.2,c.2.1.1 24766,29782 1n8kA 374 3.889 b.35.1.2,c.2.1.1 80298,80299 1pgjA 478 4.168 a.100.1.1,c.2.1.6 18783,30195 2graA 277 4.626 2cvzA 289 4.661 a.100.1.1,c.2.1.6 130890,130891 1ff9A 450 4.669 c.2.1.3,d.81.1.2 30039,39954 1gesA 450 5.217 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1kyqA 274 5.419 c.2.1.11,e.37.1.1 73281,73282 2eihA 343 5.546 2gptA 523 5.741 1d7yA 408 6.290 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1hyuA 521 6.582 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1z82A 335 6.603 2ohxA 374 6.744 b.35.1.2,c.2.1.1 24669,29685 2a4kA 263 7.003 c.2.1.2 126156 3ladA 476 7.148 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1jvbA 347 7.256 b.35.1.2,c.2.1.1 77181,77182 1i36A 264 7.395 a.100.1.8,c.2.1.6 71108,71109 1zcjA 463 7.761 1txgA 335 7.969 a.100.1.6,c.2.1.6 112775,112776 2pgdA 482 8.497 a.100.1.1,c.2.1.6 18778,30190 1dliA 402 8.646 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2hmvA 144 8.833 c.2.1.9 136615 1kolA 398 8.839 b.35.1.2,c.2.1.1 77474,77475 1mo9A 523 8.935 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1lsuA 147 9.017 c.2.1.9 74250 1g0oA 283 9.215 c.2.1.2 60181 2ouiA 360 9.435 1f0yA 302 9.548 a.100.1.3,c.2.1.6 18793,30197 3grs 478 9.903 1dljA 402 10.83 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2o3jA 481 10.86 2dpoA 319 11.73 1fl2A 310 11.78 c.3.1.5,c.3.1.5 59869,59870 1enp 312 12.14 1cjcA 460 12.26 c.3.1.1,c.4.1.1 30319,30604 2o7sA 523 12.89 1q1rA 431 13.02 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1mv8A 436 13.17 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1othA 321 13.87 c.78.1.1,c.78.1.1 35260,35261 1lssA 140 14.08 c.2.1.9 74246 1tt7A 330 14.26 b.35.1.2,c.2.1.1 112623,112624 2gqwA 408 14.29 1vl6A 388 14.37 c.2.1.7,c.58.1.3 108724,108725 1yb4A 295 14.58 1trb 320 14.58 2yquA 455 15.32 1yb5A 351 15.42 b.35.1.2,c.2.1.1 116601,116602 1ps9A 671 15.86 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1xhcA 367 16.00 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1b26A 416 17.05 c.2.1.7,c.58.1.1 30232,33880 2g1uA 155 17.38 1zejA 293 17.52 1d7oA 297 17.79 c.2.1.2 29907 1hrdA 449 17.96 c.2.1.7,c.58.1.1 30219,33867 1gu7A 364 18.01 b.35.1.2,c.2.1.1 83321,83322 1yb1A 272 18.78 c.2.1.2 116599 1b3bA 415 18.80 c.2.1.7,c.58.1.1 30244,33892 1pvvA 315 18.97 c.78.1.1,c.78.1.1 95190,95191 1xa0A 328 19.36 b.35.1.2,c.2.1.1 115021,115022 1wlyA 333 19.38 1h7wA 1025 19.40 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 2aefA 234 19.46 1zmdA 474 19.78 2q0lA 311 19.91 1ydeA 270 19.93 c.2.1.2 122980 2jhfA 374 19.93 b.35.1.2,c.2.1.1 138314,138315 1o94A 729 20.13 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1zk7A 467 20.47 1hwxA 501 20.93 c.2.1.7,c.58.1.1 30250,33898 1xeaA 323 21.40 c.2.1.3,d.81.1.5 109572,109573 1tltA 319 21.81 c.2.1.3,d.81.1.5 107135,107136 2tmdA 729 21.90 c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 1o5iA 249 22.21 c.2.1.2 92499 1ja9A 274 22.72 c.2.1.2 62817 1dhr 241 22.85 2j3hA 345 23.25 2c0cA 362 24.23 3c85A 183 24.40 2h7mA 269 24.42 c.2.1.2 136219 1bdbA 277 25.36 c.2.1.2 29874 1ooeA 236 25.38 c.2.1.2 87196 2ag5A 246 25.44 c.2.1.2 126719 1y5mA 276 25.68 c.2.1.2 122645 1vl8A 267 26.14 c.2.1.2 108733 1uluA 261 26.50 c.2.1.2 113292 2axqA 467 26.60 1fecA 490 26.79 c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 2rcyA 262 26.85 1nhp 447 27.08 2jahA 247 27.14 2zbwA 335 27.61 2pnfA 248 27.77 1trbA 320 28.04 c.3.1.5,c.3.1.5 30529,30530 2v3aA 384 28.50 1xu9A 286 29.00 c.2.1.2 116052 1k2wA 256 29.02 c.2.1.2 90927 2ew8A 249 29.22 c.2.1.2 132447 1o89A 345 29.78 b.35.1.2,c.2.1.1 92644,92645 1gteA 1025 30.01 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 1uh5A 329 30.45 c.2.1.2 107840 1zbqA 327 30.53 c.2.1.2 124862 1wmaA 276 30.55 c.2.1.2 121042 1xseA 295 31.23 c.2.1.2 115925 2d1yA 256 31.29 c.2.1.2 131151 1xdzA 240 31.41 c.66.1.20 115196 2i76A 276 31.71 1yxmA 303 31.87 c.2.1.2 124192 1m6iA 493 32.09 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1bgvA 449 33.32 c.2.1.7,c.58.1.1 30217,33865 2v6oA 596 35.14 1zemA 262 35.29 c.2.1.2 124984 1qsgA 265 35.42 c.2.1.2 29935 2hq1A 247 36.52 2nm0A 253 37.06 1nhsA 447 37.50 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1nhpA 447 37.97 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2jfgA 445 38.08 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1qo8A 566 38.18 a.138.1.3,c.3.1.4,d.168.1.1 19696,30433,42316 1s6yA 450 38.21 c.2.1.5,d.162.1.2 105314,105315 1cydA 244 38.45 c.2.1.2 29825 2c07A 285 38.63 c.2.1.2 129577 1nffA 260 38.68 c.2.1.2 80457 2eq6A 464 39.48 2ae2A 260 39.73 c.2.1.2 29945 1zsyA 357 39.78 1yb2A 275 40.33 c.66.1.13 122868 2p91A 285 40.50 1pzgA 331 40.51 c.2.1.5,d.162.1.1 95425,95426 2bgkA 278 40.75 c.2.1.2 128480 2gdzA 267 40.78 c.2.1.2 135043 2qytA 317 40.89 1h5qA 265 40.90 c.2.1.2 60643 2cduA 452 41.33 2iidA 498 41.52 c.3.1.2,d.16.1.5 137426,137427 1e6wA 260 41.93 c.2.1.2 59326 1nvmB 312 42.27 c.2.1.3,d.81.1.1 86251,86252 1w6uA 302 42.43 c.2.1.2 114288 1hdcA 253 43.00 c.2.1.2 29862 1fmcA 255 43.10 c.2.1.2 29856 1uzmA 247 44.17 c.2.1.2 119811 1q7bA 244 44.30 c.2.1.2 96026 2dtxA 264 45.15 2ekpA 239 45.97 1pjqA 457 46.07 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2pjdA 343 46.28 1djqA 729 47.01 c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1hdoA 206 47.06 c.2.1.2 60965 1yovA 537 47.64 c.111.1.2 123785 1up7A 417 47.89 c.2.1.5,d.162.1.2 113374,113375 1iy8A 267 48.12 c.2.1.2 83774 2o23A 265 50.02 c.2.1.2 138884 1bdb 277 50.09 1w4xA 542 50.49 c.3.1.5,c.3.1.5 109171,109172 3cox 507 50.57 1reoA 486 51.30 c.3.1.2,d.16.1.5 97325,97326 1ml4A 308 51.39 c.78.1.1,c.78.1.1 79255,79256 1xhlA 297 51.54 c.2.1.2 109591 1xtpA 254 51.97 c.66.1.42 116031 2r9zA 463 52.23 2bi7A 384 52.67 1f8rA 498 52.81 c.3.1.2,d.16.1.5 30410,37974 1i1nA 226 53.78 c.66.1.7 71102 1x1tA 260 54.31 c.2.1.2 121597 1h6vA 499 54.52 c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 2dm6A 333 54.68 b.35.1.2,c.2.1.1 131567,131568 1hxhA 253 55.07 c.2.1.2 76725 1x7gA 261 55.57 c.2.1.2 114929 1vjtA 483 55.64 c.2.1.5,d.162.1.2 100833,100834 2pd6A 264 55.76 1x1eA 239 56.11 2fwmX 250 56.46 1up6A 416 56.59 c.2.1.5,d.162.1.2 107976,107977 1gtmA 419 57.94 c.2.1.7,c.58.1.1 30223,33871 3grsA 478 58.04 c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1b4vA 504 58.20 c.3.1.2,d.16.1.1 30334,37865 1kpgA 287 59.73 c.66.1.18 68735 2o2yA 349 60.00 c.2.1.2 138894 3cc8A 230 61.04 1geeA 261 61.95 c.2.1.2 90509 1gcoA 261 62.53 c.2.1.2 29884 2gagA 965 62.57 1b16A 254 62.75 c.2.1.2 29875 1gegA 256 63.27 c.2.1.2 29888 1zk4A 251 64.80 c.2.1.2 125176 1vj1A 363 65.85 b.35.1.2,c.2.1.1 100794,100795 2qfmA 364 67.32 1b5qA 472 67.63 c.3.1.2,d.16.1.5 30404,37968 1obbA 480 69.22 c.2.1.5,d.162.1.2 86760,86761 1lc0A 294 69.86 c.2.1.3,d.81.1.4 73823,73824 2dknA 255 70.32 1vid 221 70.75 3ceaA 346 70.82 2cfcA 250 70.87 2a9fA 398 71.27 1h1dA 221 72.65 c.66.1.1 83452 1uxjA 309 73.16 c.2.1.5,d.162.1.1 108112,108113 1jg1A 235 73.52 c.66.1.7 66661 1d5tA 433 73.90 c.3.1.3,d.16.1.6 30422,37986 1gz6A 319 74.29 c.2.1.2 76410 1eny 268 75.07 1gcuA 295 76.11 c.2.1.3,d.81.1.4 30063,39978 2i6uA 307 76.42 1xg5A 279 76.56 c.2.1.2 115277 1fjhA 257 77.04 c.2.1.2 29870 1xkqA 280 78.32 c.2.1.2 115417 2i6tA 303 78.63 1cf2O 337 80.57 c.2.1.3,d.81.1.1 29994,39909 1hyhA 309 81.45 c.2.1.5,d.162.1.1 30150,42117 1f06A 320 85.03 c.2.1.3,d.81.1.3 59556,59557 2glxA 332 86.19 1sqgA 429 88.47 a.79.1.3,c.66.1.38 105912,105913 1n5dA 288 88.79 c.2.1.2 80030 1kjqA 391 89.22 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618