# 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 2c2xA 281 7.59e-07 1ygyA 529 3.25e-06 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1b0aA 288 3.63e-06 c.2.1.7,c.58.1.2 30286,33934 2cukA 311 4.81e-06 1wwkA 307 4.89e-06 2g76A 335 5.20e-06 2gcgA 330 5.69e-06 1gdhA 320 6.02e-06 c.2.1.4,c.23.12.1 30095,31355 1psdA 409 6.41e-06 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 2pi1A 334 6.80e-06 1a4iA 301 7.24e-06 c.2.1.7,c.58.1.2 30278,33926 2nacA 393 7.91e-06 c.2.1.4,c.23.12.1 30088,31348 2dbqA 334 9.22e-06 1j4aA 333 1.06e-05 c.2.1.4,c.23.12.1 71502,71503 2eklA 313 1.21e-05 1dxyA 333 1.64e-05 c.2.1.4,c.23.12.1 30094,31354 1xdwA 331 1.81e-05 1sc6A 404 1.84e-05 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2vojA 371 1.94e-05 1mx3A 347 2.16e-05 c.2.1.4,c.23.12.1 79638,79639 1dxy 333 2.43e-05 2j6iA 364 2.52e-05 2fssA 365 2.53e-05 2d0iA 333 3.08e-05 1qp8A 303 3.35e-05 c.2.1.4,c.23.12.1 30092,31352 1edzA 320 4.35e-05 c.2.1.7,c.58.1.2 30287,33935 1li4A 432 4.54e-05 c.2.1.4,c.23.12.3 84616,84617 2o4cA 380 4.67e-05 2vhxA 377 4.69e-05 1v8bA 479 5.63e-05 c.2.1.4,c.23.12.3 113564,113565 1xwfA 431 8.48e-05 c.2.1.4,c.23.12.3 122392,122393 2qrlA 394 0.000103 1d4fA 431 0.000114 c.2.1.4,c.23.12.3 30110,31370 1pjcA 361 0.001662 c.2.1.4,c.23.12.2 30101,31361 1l7dA 384 0.01907 c.2.1.4,c.23.12.2 77774,77775 1lehA 364 0.02624 c.2.1.7,c.58.1.1 30268,33916 1gpjA 404 0.03846 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1x7dA 350 0.04322 c.2.1.13 114927 1x13A 401 0.05118 2hk9A 275 0.1263 1p77A 272 0.1442 c.2.1.7,c.58.1.5 94214,94215 1vllA 334 0.1550 c.2.1.13 108834 1nytA 271 0.1642 c.2.1.7,c.58.1.5 86417,86418 1vpdA 299 0.2095 a.100.1.1,c.2.1.6 113951,113952 1c1dA 355 0.2221 c.2.1.7,c.58.1.1 30270,33918 2nloA 302 0.3303 1np3A 338 0.3507 a.100.1.2,c.2.1.6 85946,85947 2d5cA 263 0.4478 2eggA 297 0.5731 1omoA 322 0.5951 c.2.1.13 104017 1e3jA 352 0.5991 b.35.1.2,c.2.1.1 24765,29781 2ahrA 259 0.6181 a.100.1.10,c.2.1.6 126775,126776 2f1kA 279 0.6641 a.100.1.12,c.2.1.6 132772,132773 1yrlA 491 0.7284 1uufA 369 0.8227 b.35.1.2,c.2.1.1 100006,100007 1f8fA 371 0.8502 b.35.1.2,c.2.1.1 83246,83247 2h78A 302 0.9375 3c24A 286 1.128 1nvtA 287 1.135 c.2.1.7,c.58.1.5 86270,86271 1bg6 359 1.253 2cdcA 366 1.332 1npyA 271 1.380 c.2.1.7,c.58.1.5 85995,85996 1vj0A 380 1.498 b.35.1.2,c.2.1.1 100786,100787 2ew2A 316 1.595 1u3wA 374 1.626 b.35.1.2,c.2.1.1 113013,113014 1pl8A 356 1.638 b.35.1.2,c.2.1.1 94878,94879 1vi2A 300 1.664 c.2.1.7,c.58.1.5 100726,100727 2cf5A 357 1.687 2dvmA 439 1.751 1p0fA 373 1.771 b.35.1.2,c.2.1.1 87642,87643 1lluA 342 1.786 b.35.1.2,c.2.1.1 91064,91065 1jqbA 351 1.834 b.35.1.2,c.2.1.1 77151,77152 1yqgA 263 1.857 1luaA 287 1.963 c.2.1.7,c.58.1.4 78216,78217 2g5cA 281 1.979 a.100.1.12,c.2.1.6 134646,134647 1h2bA 359 2.013 b.35.1.2,c.2.1.1 90543,90544 1y9aA 360 2.022 2izzA 322 2.165 1n8kA 374 2.168 b.35.1.2,c.2.1.1 80298,80299 1kevA 351 2.315 b.35.1.2,c.2.1.1 24749,29765 1yqdA 366 2.343 2h6eA 344 2.357 2pgd 482 2.467 2b5wA 357 2.559 1evyA 366 2.599 a.100.1.6,c.2.1.6 18811,30215 1bg6A 359 2.690 a.100.1.5,c.2.1.6 18810,30214 2hcyA 347 2.747 1iz0A 302 2.968 b.35.1.2,c.2.1.1 83821,83822 1pgjA 478 3.214 a.100.1.1,c.2.1.6 18783,30195 2p4qA 497 3.458 2pv7A 298 3.516 1ks9A 291 3.630 a.100.1.7,c.2.1.6 68857,68858 2d8aA 348 3.864 1zmdA 474 4.013 2cvzA 289 4.164 a.100.1.1,c.2.1.6 130890,130891 3grs 478 4.390 1qorA 327 4.689 b.35.1.2,c.2.1.1 24766,29782 1gesA 450 4.977 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 2ohxA 374 5.060 b.35.1.2,c.2.1.1 24669,29685 1jayA 212 5.123 c.2.1.6 66478 1i36A 264 5.140 a.100.1.8,c.2.1.6 71108,71109 2a4kA 263 5.321 c.2.1.2 126156 1z82A 335 5.432 1qmgA 524 5.639 a.100.1.2,c.2.1.6 18785,30182 2jhfA 374 5.641 b.35.1.2,c.2.1.1 138314,138315 3ladA 476 5.670 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 2graA 277 5.730 1mo9A 523 5.842 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1xhcA 367 6.022 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 2eihA 343 6.042 1hyuA 521 6.208 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1kolA 398 6.305 b.35.1.2,c.2.1.1 77474,77475 1kyqA 274 6.345 c.2.1.11,e.37.1.1 73281,73282 1ff9A 450 6.691 c.2.1.3,d.81.1.2 30039,39954 1d7yA 408 6.937 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1jvbA 347 7.041 b.35.1.2,c.2.1.1 77181,77182 1txgA 335 7.351 a.100.1.6,c.2.1.6 112775,112776 2ouiA 360 7.558 1zk7A 467 7.629 2gptA 523 8.222 2pgdA 482 8.262 a.100.1.1,c.2.1.6 18778,30190 1ps9A 671 8.577 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1g0oA 283 8.799 c.2.1.2 60181 1vl6A 388 8.874 c.2.1.7,c.58.1.3 108724,108725 1othA 321 9.530 c.78.1.1,c.78.1.1 35260,35261 2o3jA 481 9.556 1q1rA 431 9.717 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1lsuA 147 9.870 c.2.1.9 74250 1dliA 402 9.97 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1pvvA 315 10.08 c.78.1.1,c.78.1.1 95190,95191 1yb4A 295 10.11 1f0yA 302 10.21 a.100.1.3,c.2.1.6 18793,30197 2hmvA 144 10.69 c.2.1.9 136615 1zcjA 463 11.31 1dljA 402 11.73 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2gqwA 408 12.03 1tt7A 330 12.35 b.35.1.2,c.2.1.1 112623,112624 1cjcA 460 12.70 c.3.1.1,c.4.1.1 30319,30604 1fl2A 310 13.42 c.3.1.5,c.3.1.5 59869,59870 2o7sA 523 13.45 3c85A 183 13.57 1enp 312 14.37 1lssA 140 14.66 c.2.1.9 74246 1hwxA 501 14.98 c.2.1.7,c.58.1.1 30250,33898 1yb5A 351 15.29 b.35.1.2,c.2.1.1 116601,116602 1xa0A 328 15.52 b.35.1.2,c.2.1.1 115021,115022 1zejA 293 15.89 1gu7A 364 16.51 b.35.1.2,c.2.1.1 83321,83322 2tmdA 729 16.67 c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 1wlyA 333 16.76 1o94A 729 16.90 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1mv8A 436 16.94 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2dpoA 319 17.02 2rcyA 262 17.03 2v6oA 596 17.26 1uluA 261 17.39 c.2.1.2 113292 2q0lA 311 17.43 1o89A 345 18.59 b.35.1.2,c.2.1.1 92644,92645 1trb 320 18.63 2v3aA 384 19.30 1b26A 416 20.36 c.2.1.7,c.58.1.1 30232,33880 1d7oA 297 20.37 c.2.1.2 29907 1ja9A 274 20.57 c.2.1.2 62817 1h7wA 1025 20.99 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 2r9zA 463 21.21 1hrdA 449 21.31 c.2.1.7,c.58.1.1 30219,33867 1yqzA 438 22.04 2axqA 467 23.53 1yb1A 272 23.84 c.2.1.2 116599 2aefA 234 23.92 2c0cA 362 23.92 2d1yA 256 24.68 c.2.1.2 131151 1b3bA 415 25.23 c.2.1.7,c.58.1.1 30244,33892 1xeaA 323 25.84 c.2.1.3,d.81.1.5 109572,109573 2jahA 247 25.89 1tltA 319 25.93 c.2.1.3,d.81.1.5 107135,107136 2iidA 498 26.03 c.3.1.2,d.16.1.5 137426,137427 1nhsA 447 26.12 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2qytA 317 26.15 2cduA 452 26.21 2j3hA 345 26.48 1qo8A 566 26.69 a.138.1.3,c.3.1.4,d.168.1.1 19696,30433,42316 1fecA 490 27.19 c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 2h7mA 269 27.92 c.2.1.2 136219 2zbwA 335 28.17 1xdzA 240 28.88 c.66.1.20 115196 1s6yA 450 29.23 c.2.1.5,d.162.1.2 105314,105315 1up6A 416 29.40 c.2.1.5,d.162.1.2 107976,107977 1nhp 447 29.41 1vl8A 267 30.40 c.2.1.2 108733 1xseA 295 30.60 c.2.1.2 115925 1yxmA 303 31.42 c.2.1.2 124192 1bdbA 277 31.55 c.2.1.2 29874 1nhpA 447 31.64 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1bgvA 449 31.69 c.2.1.7,c.58.1.1 30217,33865 1gteA 1025 31.75 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 1vqwA 457 31.96 c.3.1.5,c.3.1.5 114028,114029 1hdoA 206 32.02 c.2.1.2 60965 1w4xA 542 33.04 c.3.1.5,c.3.1.5 109171,109172 3grsA 478 33.10 c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1y5mA 276 33.69 c.2.1.2 122645 2ew8A 249 34.26 c.2.1.2 132447 1o5iA 249 34.31 c.2.1.2 92499 1uh5A 329 34.40 c.2.1.2 107840 1xdiA 499 34.69 c.3.1.5,d.87.1.1 115160,115161 1lvlA 458 34.70 c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 3cox 507 34.73 1h6vA 499 35.08 c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 2g1uA 155 35.71 1ydeA 270 35.90 c.2.1.2 122980 2p91A 285 36.01 2a9fA 398 36.04 2gdzA 267 36.15 c.2.1.2 135043 2dm6A 333 36.27 b.35.1.2,c.2.1.1 131567,131568 2qfmA 364 36.32 1xu9A 286 37.38 c.2.1.2 116052 1qsgA 265 37.74 c.2.1.2 29935 1djqA 729 37.90 c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 2pnfA 248 38.32 1dhr 241 38.58 1reoA 486 38.63 c.3.1.2,d.16.1.5 97325,97326 1trbA 320 39.09 c.3.1.5,c.3.1.5 30529,30530 1up7A 417 39.19 c.2.1.5,d.162.1.2 113374,113375 1zsyA 357 39.60 1uzmA 247 39.87 c.2.1.2 119811 1hxhA 253 40.47 c.2.1.2 76725 2nm0A 253 40.99 1yb2A 275 42.51 c.66.1.13 122868 2pd6A 264 42.73 2gagA 965 42.86 1m6iA 493 43.08 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1k2wA 256 43.23 c.2.1.2 90927 2i76A 276 44.39 1e6wA 260 44.46 c.2.1.2 59326 1w6uA 302 45.42 c.2.1.2 114288 2pjdA 343 46.61 1ml4A 308 46.65 c.78.1.1,c.78.1.1 79255,79256 1nffA 260 47.92 c.2.1.2 80457 1bdb 277 48.15 1hyhA 309 49.23 c.2.1.5,d.162.1.1 30150,42117 1ooeA 236 49.83 c.2.1.2 87196 1pzgA 331 51.26 c.2.1.5,d.162.1.1 95425,95426 1hdcA 253 51.79 c.2.1.2 29862 2c07A 285 52.54 c.2.1.2 129577 1zbqA 327 52.72 c.2.1.2 124862 1uxjA 309 53.16 c.2.1.5,d.162.1.1 108112,108113 2bgkA 278 53.72 c.2.1.2 128480 1u8xX 472 54.08 c.2.1.5,d.162.1.2 107741,107742 2hq1A 247 54.76 1ykjA 394 55.40 1b4vA 504 56.13 c.3.1.2,d.16.1.1 30334,37865 1vjtA 483 56.77 c.2.1.5,d.162.1.2 100833,100834 1nvmB 312 56.92 c.2.1.3,d.81.1.1 86251,86252 3c6kA 381 56.93 1iy8A 267 57.06 c.2.1.2 83774 2v7pA 310 58.32 2ae2A 260 58.66 c.2.1.2 29945 1xtpA 254 59.15 c.66.1.42 116031 2cvjA 180 59.63 1x7gA 261 59.81 c.2.1.2 114929 1zk4A 251 59.84 c.2.1.2 125176 2fwmX 250 59.96 1b16A 254 59.98 c.2.1.2 29875 1k0iA 394 60.34 c.3.1.2,d.16.1.2 67942,67943 1eny 268 61.34 2jfgA 445 62.39 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1f06A 320 62.48 c.2.1.3,d.81.1.3 59556,59557 2ag5A 246 62.83 c.2.1.2 126719 1h5qA 265 63.14 c.2.1.2 60643 1i1nA 226 63.17 c.66.1.7 71102 1wmaA 276 63.74 c.2.1.2 121042 3cc8A 230 63.78 1yvvA 336 63.94 1pjqA 457 64.14 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1lc0A 294 64.60 c.2.1.3,d.81.1.4 73823,73824 1qydA 313 64.82 c.2.1.2 96583 1yovA 537 64.86 c.111.1.2 123785 1cydA 244 65.73 c.2.1.2 29825 2yquA 455 66.28 1zud1 251 66.53 1f8rA 498 66.54 c.3.1.2,d.16.1.5 30410,37974 1zemA 262 66.74 c.2.1.2 124984 2glxA 332 67.01 1q7bA 244 68.04 c.2.1.2 96026 2cfcA 250 68.54 1gz6A 319 68.60 c.2.1.2 76410 1jsxA 207 69.75 c.66.1.20 71846 1d5tA 433 70.34 c.3.1.3,d.16.1.6 30422,37986 1gtmA 419 70.35 c.2.1.7,c.58.1.1 30223,33871 2ho3A 325 70.52 1x1eA 239 71.02 1fjhA 257 73.58 c.2.1.2 29870 2ywlA 180 73.85 2o23A 265 75.24 c.2.1.2 138884 2ef0A 301 75.94 2bi7A 384 76.00 1gegA 256 76.51 c.2.1.2 29888 2dknA 255 76.64 1x1tA 260 77.16 c.2.1.2 121597 2qq5A 260 77.35 1pbe 394 77.93 1vid 221 79.08 1ur5A 309 79.22 c.2.1.5,d.162.1.1 99807,99808 1uirA 314 79.46 c.66.1.17 99429 2dtxA 264 80.08 1fmcA 255 80.21 c.2.1.2 29856 1cf2O 337 80.31 c.2.1.3,d.81.1.1 29994,39909 2bryA 497 80.82 2i6tA 303 80.99 1vj1A 363 81.73 b.35.1.2,c.2.1.1 100794,100795 1xhlA 297 83.46 c.2.1.2 109591 2z3yA 662 83.75 1y8qA 346 85.27 1i9gA 280 85.88 c.66.1.13 62090 1geeA 261 86.25 c.2.1.2 90509 2exxA 306 87.01 6ldhA 329 87.27 c.2.1.5,d.162.1.1 30161,42128 1gcoA 261 87.51 c.2.1.2 29884 3ceaA 346 88.01 1duvG 333 88.01 c.78.1.1,c.78.1.1 35228,35229 1xg5A 279 88.42 c.2.1.2 115277 2jaeA 489 88.59 1b5qA 472 88.72 c.3.1.2,d.16.1.5 30404,37968 1t2dA 322 89.45 c.2.1.5,d.162.1.1 99084,99085 4uagA 437 89.79 c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 3csuA 310 89.92 c.78.1.1,c.78.1.1 35094,35095