# List of top-scoring protein chains for t04-w0.5-1-str2-0.1-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 2.48e-06 1b0aA 288 8.93e-06 c.2.1.7,c.58.1.2 30286,33934 1ygyA 529 1.13e-05 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2eklA 313 1.28e-05 2cukA 311 1.47e-05 2gcgA 330 1.53e-05 1gdhA 320 1.71e-05 c.2.1.4,c.23.12.1 30095,31355 2g76A 335 1.76e-05 1a4iA 301 2.04e-05 c.2.1.7,c.58.1.2 30278,33926 1wwkA 307 2.63e-05 2dbqA 334 2.64e-05 2nacA 393 2.76e-05 c.2.1.4,c.23.12.1 30088,31348 1psdA 409 2.78e-05 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 2pi1A 334 2.86e-05 1j4aA 333 4.26e-05 c.2.1.4,c.23.12.1 71502,71503 1mx3A 347 4.90e-05 c.2.1.4,c.23.12.1 79638,79639 2vojA 371 5.56e-05 1sc6A 404 6.49e-05 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1dxyA 333 6.58e-05 c.2.1.4,c.23.12.1 30094,31354 1xdwA 331 6.58e-05 2j6iA 364 7.17e-05 1qp8A 303 7.21e-05 c.2.1.4,c.23.12.1 30092,31352 2fssA 365 7.31e-05 1dxy 333 7.80e-05 2d0iA 333 8.41e-05 1li4A 432 0.000126 c.2.1.4,c.23.12.3 84616,84617 1edzA 320 0.000134 c.2.1.7,c.58.1.2 30287,33935 2o4cA 380 0.000158 2vhxA 377 0.000159 1v8bA 479 0.000182 c.2.1.4,c.23.12.3 113564,113565 1xwfA 431 0.000260 c.2.1.4,c.23.12.3 122392,122393 1d4fA 431 0.000310 c.2.1.4,c.23.12.3 30110,31370 2qrlA 394 0.000418 1pjcA 361 0.003039 c.2.1.4,c.23.12.2 30101,31361 1l7dA 384 0.03612 c.2.1.4,c.23.12.2 77774,77775 1gpjA 404 0.04298 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1lehA 364 0.04550 c.2.1.7,c.58.1.1 30268,33916 1x13A 401 0.07312 1x7dA 350 0.08950 c.2.1.13 114927 2hk9A 275 0.1682 1vllA 334 0.1927 c.2.1.13 108834 1nytA 271 0.1961 c.2.1.7,c.58.1.5 86417,86418 1p77A 272 0.2312 c.2.1.7,c.58.1.5 94214,94215 1np3A 338 0.3998 a.100.1.2,c.2.1.6 85946,85947 1vpdA 299 0.4033 a.100.1.1,c.2.1.6 113951,113952 2nloA 302 0.4161 1c1dA 355 0.4371 c.2.1.7,c.58.1.1 30270,33918 1omoA 322 0.5013 c.2.1.13 104017 2d5cA 263 0.6555 2eggA 297 0.6645 1yrlA 491 0.6952 2f1kA 279 0.7925 a.100.1.12,c.2.1.6 132772,132773 2ahrA 259 1.068 a.100.1.10,c.2.1.6 126775,126776 1e3jA 352 1.210 b.35.1.2,c.2.1.1 24765,29781 1uufA 369 1.305 b.35.1.2,c.2.1.1 100006,100007 1bg6 359 1.340 2cdcA 366 1.414 2cf5A 357 1.437 1npyA 271 1.470 c.2.1.7,c.58.1.5 85995,85996 1nvtA 287 1.500 c.2.1.7,c.58.1.5 86270,86271 3c24A 286 1.611 2ew2A 316 1.723 1luaA 287 2.021 c.2.1.7,c.58.1.4 78216,78217 1f8fA 371 2.238 b.35.1.2,c.2.1.1 83246,83247 2g5cA 281 2.282 a.100.1.12,c.2.1.6 134646,134647 2izzA 322 2.497 1vi2A 300 2.541 c.2.1.7,c.58.1.5 100726,100727 1bg6A 359 2.610 a.100.1.5,c.2.1.6 18810,30214 2dvmA 439 2.633 1lluA 342 2.728 b.35.1.2,c.2.1.1 91064,91065 1vj0A 380 2.753 b.35.1.2,c.2.1.1 100786,100787 1yqgA 263 2.816 1yqdA 366 2.910 1y9aA 360 2.947 2h78A 302 2.973 1u3wA 374 3.025 b.35.1.2,c.2.1.1 113013,113014 1ks9A 291 3.175 a.100.1.7,c.2.1.6 68857,68858 2pgd 482 3.190 2hcyA 347 3.240 1evyA 366 3.274 a.100.1.6,c.2.1.6 18811,30215 1h2bA 359 3.327 b.35.1.2,c.2.1.1 90543,90544 2pv7A 298 3.605 1jqbA 351 3.629 b.35.1.2,c.2.1.1 77151,77152 1pl8A 356 3.661 b.35.1.2,c.2.1.1 94878,94879 2b5wA 357 3.866 2p4qA 497 4.153 2d8aA 348 4.277 1jayA 212 4.619 c.2.1.6 66478 1kevA 351 4.723 b.35.1.2,c.2.1.1 24749,29765 1iz0A 302 4.905 b.35.1.2,c.2.1.1 83821,83822 1ff9A 450 4.985 c.2.1.3,d.81.1.2 30039,39954 1p0fA 373 5.049 b.35.1.2,c.2.1.1 87642,87643 2graA 277 5.144 2cvzA 289 5.155 a.100.1.1,c.2.1.6 130890,130891 2h6eA 344 5.230 1kyqA 274 6.583 c.2.1.11,e.37.1.1 73281,73282 1qmgA 524 6.871 a.100.1.2,c.2.1.6 18785,30182 1qorA 327 7.049 b.35.1.2,c.2.1.1 24766,29782 1i36A 264 7.186 a.100.1.8,c.2.1.6 71108,71109 1zmdA 474 7.445 1z82A 335 7.542 2eihA 343 7.730 2gptA 523 8.099 1pgjA 478 8.157 a.100.1.1,c.2.1.6 18783,30195 3ladA 476 8.244 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1n8kA 374 8.331 b.35.1.2,c.2.1.1 80298,80299 1hyuA 521 8.502 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1txgA 335 9.136 a.100.1.6,c.2.1.6 112775,112776 2a4kA 263 9.174 c.2.1.2 126156 1f0yA 302 9.288 a.100.1.3,c.2.1.6 18793,30197 1zcjA 463 9.306 1kolA 398 9.438 b.35.1.2,c.2.1.1 77474,77475 2o3jA 481 9.487 2pgdA 482 9.733 a.100.1.1,c.2.1.6 18778,30190 1jvbA 347 9.757 b.35.1.2,c.2.1.1 77181,77182 1dljA 402 9.926 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2o7sA 523 10.27 1mv8A 436 10.30 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1othA 321 10.53 c.78.1.1,c.78.1.1 35260,35261 1dliA 402 10.67 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1gesA 450 10.75 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1d7yA 408 10.76 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 2ohxA 374 10.82 b.35.1.2,c.2.1.1 24669,29685 1enp 312 11.04 3grs 478 11.12 1lsuA 147 11.55 c.2.1.9 74250 1b3bA 415 11.62 c.2.1.7,c.58.1.1 30244,33892 1pvvA 315 11.71 c.78.1.1,c.78.1.1 95190,95191 1g0oA 283 11.95 c.2.1.2 60181 1fl2A 310 11.97 c.3.1.5,c.3.1.5 59869,59870 2hmvA 144 12.41 c.2.1.9 136615 2ouiA 360 13.24 1mo9A 523 13.34 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1vl6A 388 14.01 c.2.1.7,c.58.1.3 108724,108725 1lssA 140 14.81 c.2.1.9 74246 2gqwA 408 16.66 1hwxA 501 17.14 c.2.1.7,c.58.1.1 30250,33898 1zejA 293 17.20 1ps9A 671 17.27 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 2dpoA 319 17.30 1b26A 416 17.60 c.2.1.7,c.58.1.1 30232,33880 1d7oA 297 17.61 c.2.1.2 29907 1xhcA 367 17.98 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1gu7A 364 18.27 b.35.1.2,c.2.1.1 83321,83322 2yquA 455 18.70 1tt7A 330 18.80 b.35.1.2,c.2.1.1 112623,112624 1cjcA 460 19.31 c.3.1.1,c.4.1.1 30319,30604 1hrdA 449 19.46 c.2.1.7,c.58.1.1 30219,33867 1q1rA 431 19.59 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1yb1A 272 19.72 c.2.1.2 116599 1h7wA 1025 19.79 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 1yb5A 351 20.40 b.35.1.2,c.2.1.1 116601,116602 1uluA 261 22.07 c.2.1.2 113292 2q0lA 311 22.38 2jahA 247 22.46 1xa0A 328 22.61 b.35.1.2,c.2.1.1 115021,115022 1yb4A 295 22.81 1o89A 345 23.47 b.35.1.2,c.2.1.1 92644,92645 1o5iA 249 23.62 c.2.1.2 92499 1tltA 319 24.30 c.2.1.3,d.81.1.5 107135,107136 1ml4A 308 24.82 c.78.1.1,c.78.1.1 79255,79256 1o94A 729 25.15 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1yxmA 303 25.48 c.2.1.2 124192 1xseA 295 25.70 c.2.1.2 115925 2g1uA 155 25.76 1yqzA 438 25.88 1y5mA 276 25.90 c.2.1.2 122645 2c0cA 362 26.23 2axqA 467 26.37 1k2wA 256 27.00 c.2.1.2 90927 1vl8A 267 27.02 c.2.1.2 108733 1bgvA 449 27.40 c.2.1.7,c.58.1.1 30217,33865 1ydeA 270 27.88 c.2.1.2 122980 1xu9A 286 28.16 c.2.1.2 116052 2tmdA 729 28.65 c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 1zk7A 467 28.73 2h7mA 269 28.90 c.2.1.2 136219 2ae2A 260 29.02 c.2.1.2 29945 2rcyA 262 29.35 2ew8A 249 29.36 c.2.1.2 132447 2qytA 317 29.43 2p91A 285 30.22 1trb 320 30.77 1fecA 490 30.94 c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 3c85A 183 31.07 1ja9A 274 31.89 c.2.1.2 62817 2ekpA 239 32.25 1zbqA 327 32.76 c.2.1.2 124862 1bdbA 277 32.89 c.2.1.2 29874 1dhr 241 32.92 1w6uA 302 33.25 c.2.1.2 114288 2zbwA 335 33.81 1gteA 1025 34.19 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 1wmaA 276 34.84 c.2.1.2 121042 2gdzA 267 35.01 c.2.1.2 135043 2j3hA 345 35.05 2ag5A 246 35.22 c.2.1.2 126719 1zemA 262 35.26 c.2.1.2 124984 1xdzA 240 35.39 c.66.1.20 115196 2aefA 234 35.43 1wlyA 333 35.63 1cydA 244 35.74 c.2.1.2 29825 1pjqA 457 35.78 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1nffA 260 36.06 c.2.1.2 80457 1vjtA 483 36.09 c.2.1.5,d.162.1.2 100833,100834 1uzmA 247 36.14 c.2.1.2 119811 2v3aA 384 36.21 2pnfA 248 36.69 1xeaA 323 37.12 c.2.1.3,d.81.1.5 109572,109573 2jfgA 445 37.32 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1e6wA 260 37.75 c.2.1.2 59326 1zsyA 357 37.78 1x7gA 261 37.95 c.2.1.2 114929 2hq1A 247 38.21 1trbA 320 38.44 c.3.1.5,c.3.1.5 30529,30530 1up7A 417 38.83 c.2.1.5,d.162.1.2 113374,113375 2pd6A 264 38.84 1yb2A 275 38.88 c.66.1.13 122868 2nm0A 253 38.91 1up6A 416 39.40 c.2.1.5,d.162.1.2 107976,107977 1nhpA 447 39.84 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1hdcA 253 39.97 c.2.1.2 29862 2bgkA 278 40.99 c.2.1.2 128480 1hdoA 206 41.20 c.2.1.2 60965 1nvmB 312 41.38 c.2.1.3,d.81.1.1 86251,86252 1x1eA 239 41.39 2cduA 452 41.94 1h6vA 499 42.05 c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 1hxhA 253 42.18 c.2.1.2 76725 1nhsA 447 42.54 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1xg5A 279 42.55 c.2.1.2 115277 2d1yA 256 43.59 c.2.1.2 131151 1ooeA 236 43.61 c.2.1.2 87196 1fmcA 255 44.55 c.2.1.2 29856 3csuA 310 44.64 c.78.1.1,c.78.1.1 35094,35095 1uh5A 329 44.68 c.2.1.2 107840 1h5qA 265 45.10 c.2.1.2 60643 2dtxA 264 45.15 2c07A 285 45.22 c.2.1.2 129577 2a9fA 398 45.59 1q7bA 244 45.84 c.2.1.2 96026 1pzgA 331 45.90 c.2.1.5,d.162.1.1 95425,95426 2fwmX 250 46.76 2i6uA 307 47.06 1obbA 480 47.12 c.2.1.5,d.162.1.2 86760,86761 2jhfA 374 47.37 b.35.1.2,c.2.1.1 138314,138315 2o23A 265 49.09 c.2.1.2 138884 1iy8A 267 49.50 c.2.1.2 83774 1b16A 254 49.62 c.2.1.2 29875 2v6oA 596 50.14 1s6yA 450 50.21 c.2.1.5,d.162.1.2 105314,105315 3ceaA 346 52.04 1xhlA 297 52.43 c.2.1.2 109591 1w4xA 542 53.25 c.3.1.5,c.3.1.5 109171,109172 1qsgA 265 53.54 c.2.1.2 29935 2qfmA 364 53.56 1nhp 447 53.67 1gegA 256 54.76 c.2.1.2 29888 3cc8A 230 56.17 2iidA 498 56.44 c.3.1.2,d.16.1.5 137426,137427 1xtpA 254 56.47 c.66.1.42 116031 1x1tA 260 56.58 c.2.1.2 121597 1gcoA 261 56.71 c.2.1.2 29884 1geeA 261 56.71 c.2.1.2 90509 2dknA 255 56.95 2o2yA 349 57.04 c.2.1.2 138894 2dm6A 333 57.09 b.35.1.2,c.2.1.1 131567,131568 1zk4A 251 58.23 c.2.1.2 125176 1bdb 277 59.79 1qydA 313 60.55 c.2.1.2 96583 1gtmA 419 60.60 c.2.1.7,c.58.1.1 30223,33871 1gz6A 319 61.20 c.2.1.2 76410 2r9zA 463 61.94 1kpgA 287 62.26 c.66.1.18 68735 1i1nA 226 63.06 c.66.1.7 71102 1qo8A 566 63.38 a.138.1.3,c.3.1.4,d.168.1.1 19696,30433,42316 2oosA 338 63.49 2cfcA 250 65.45 2glxA 332 68.07 1djqA 729 68.43 c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1fjhA 257 68.92 c.2.1.2 29870 2i76A 276 69.29 1u8xX 472 69.54 c.2.1.5,d.162.1.2 107741,107742 1kjqA 391 70.31 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1xkqA 280 70.77 c.2.1.2 115417 2i6tA 303 71.03 1cf2O 337 71.43 c.2.1.3,d.81.1.1 29994,39909 1lvlA 458 71.57 c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1h1dA 221 73.69 c.66.1.1 83452 1duvG 333 74.61 c.78.1.1,c.78.1.1 35228,35229 2jaeA 489 76.21 2ef0A 301 76.52 2eq6A 464 77.64 1reoA 486 78.30 c.3.1.2,d.16.1.5 97325,97326 1x0vA 354 78.65 1pwxA 254 78.82 c.2.1.2 95262 1m6iA 493 79.24 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 2bi7A 384 79.71 1vid 221 80.90 3grsA 478 81.08 c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1b4vA 504 82.58 c.3.1.2,d.16.1.1 30334,37865 1jg1A 235 83.12 c.66.1.7 66661 1yovA 537 83.26 c.111.1.2 123785 1spxA 278 83.62 c.2.1.2 98958 1yzhA 214 84.69 c.66.1.53 124277 2gagA 965 85.05 1i9gA 280 85.44 c.66.1.13 62090 2ho3A 325 85.53 1n5dA 288 85.58 c.2.1.2 80030 1vj1A 363 86.34 b.35.1.2,c.2.1.1 100794,100795 1eyzA 392 86.98 b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1zmtA 254 87.71 c.2.1.2 125363