# 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 1yb4A 295 8.75e-13 2h78A 302 1.45e-12 2i76A 276 6.66e-12 1vpdA 299 7.43e-12 a.100.1.1,c.2.1.6 113951,113952 2ahrA 259 1.25e-11 a.100.1.10,c.2.1.6 126775,126776 2rcyA 262 1.43e-11 2izzA 322 3.15e-11 2f1kA 279 5.83e-11 a.100.1.12,c.2.1.6 132772,132773 2pgdA 482 5.93e-11 a.100.1.1,c.2.1.6 18778,30190 2graA 277 8.93e-11 1yqgA 263 1.12e-10 2p4qA 497 1.17e-10 2cvzA 289 1.68e-10 a.100.1.1,c.2.1.6 130890,130891 2pv7A 298 3.40e-10 2g5cA 281 4.72e-10 a.100.1.12,c.2.1.6 134646,134647 1np3A 338 1.35e-09 a.100.1.2,c.2.1.6 85946,85947 2pgd 482 1.85e-09 1pgjA 478 4.20e-09 a.100.1.1,c.2.1.6 18783,30195 3c24A 286 1.13e-08 1i36A 264 2.93e-08 a.100.1.8,c.2.1.6 71108,71109 1bg6 359 5.78e-08 1ks9A 291 5.99e-08 a.100.1.7,c.2.1.6 68857,68858 1yrlA 491 1.14e-07 1txgA 335 1.19e-07 a.100.1.6,c.2.1.6 112775,112776 1qmgA 524 1.82e-07 a.100.1.2,c.2.1.6 18785,30182 2ew2A 316 4.22e-07 1evyA 366 4.96e-07 a.100.1.6,c.2.1.6 18811,30215 1zejA 293 6.38e-07 2o3jA 481 1.10e-06 1dljA 402 2.22e-06 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1mv8A 436 2.76e-06 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1f0yA 302 3.13e-06 a.100.1.3,c.2.1.6 18793,30197 1dliA 402 5.00e-06 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1z82A 335 1.10e-05 1zcjA 463 3.94e-05 1jayA 212 4.73e-05 c.2.1.6 66478 1bg6A 359 0.000645 a.100.1.5,c.2.1.6 18810,30214 1ff9A 450 0.001251 c.2.1.3,d.81.1.2 30039,39954 2dpoA 319 0.001733 1x0vA 354 0.002812 2nacA 393 0.006074 c.2.1.4,c.23.12.1 30088,31348 1gdhA 320 0.006696 c.2.1.4,c.23.12.1 30095,31355 1mx3A 347 0.01802 c.2.1.4,c.23.12.1 79638,79639 1tltA 319 0.01899 c.2.1.3,d.81.1.5 107135,107136 2qytA 317 0.02058 2b0jA 358 0.02271 a.100.1.11,c.2.1.6 127639,127640 1u8xX 472 0.02525 c.2.1.5,d.162.1.2 107741,107742 2fssA 365 0.02555 1wwkA 307 0.03359 1t2dA 322 0.04277 c.2.1.5,d.162.1.1 99084,99085 2hk9A 275 0.04441 2j6iA 364 0.04455 1j4aA 333 0.04497 c.2.1.4,c.23.12.1 71502,71503 1ldg 316 0.05069 1d4fA 431 0.05728 c.2.1.4,c.23.12.3 30110,31370 1xwfA 431 0.05753 c.2.1.4,c.23.12.3 122392,122393 2g76A 335 0.06016 1xdwA 331 0.06352 1psdA 409 0.06524 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1lldA 319 0.06623 c.2.1.5,d.162.1.1 30177,42144 1vllA 334 0.06790 c.2.1.13 108834 1lssA 140 0.07256 c.2.1.9 74246 1gpjA 404 0.07266 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1up6A 416 0.08296 c.2.1.5,d.162.1.2 107976,107977 1omoA 322 0.08465 c.2.1.13 104017 1li4A 432 0.08660 c.2.1.4,c.23.12.3 84616,84617 1sc6A 404 0.08787 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1uxjA 309 0.09121 c.2.1.5,d.162.1.1 108112,108113 1dxy 333 0.1088 1ur5A 309 0.1107 c.2.1.5,d.162.1.1 99807,99808 1pzgA 331 0.1264 c.2.1.5,d.162.1.1 95425,95426 1x7dA 350 0.1349 c.2.1.13 114927 2d0iA 333 0.1396 2dbqA 334 0.1399 1xeaA 323 0.1602 c.2.1.3,d.81.1.5 109572,109573 1v8bA 479 0.1731 c.2.1.4,c.23.12.3 113564,113565 2o4cA 380 0.2234 1up7A 417 0.2728 c.2.1.5,d.162.1.2 113374,113375 1ygyA 529 0.3671 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2pi1A 334 0.3946 2ewdA 317 0.4003 1nytA 271 0.4132 c.2.1.7,c.58.1.5 86417,86418 1obbA 480 0.5542 c.2.1.5,d.162.1.2 86760,86761 1vjtA 483 0.5694 c.2.1.5,d.162.1.2 100833,100834 1qp8A 303 0.5765 c.2.1.4,c.23.12.1 30092,31352 1hyhA 309 0.6460 c.2.1.5,d.162.1.1 30150,42117 2vhxA 377 0.6481 2nvwA 479 0.6680 c.2.1.3,d.81.1.5 138665,138666 2gcgA 330 0.6851 2d5cA 263 0.6970 2eggA 297 0.7202 1f06A 320 0.7303 c.2.1.3,d.81.1.3 59556,59557 2nloA 302 0.7393 1dxyA 333 0.7593 c.2.1.4,c.23.12.1 30094,31354 2eklA 313 0.7912 2cukA 311 0.9086 6ldhA 329 0.9226 c.2.1.5,d.162.1.1 30161,42128 1qv9A 283 0.9494 c.127.1.1 96356 1guzA 310 1.050 c.2.1.5,d.162.1.1 65586,65587 1lehA 364 1.062 c.2.1.7,c.58.1.1 30268,33916 2axqA 467 1.190 2d59A 144 1.271 c.2.1.8 131266 2i6tA 303 1.300 1nvtA 287 1.334 c.2.1.7,c.58.1.5 86270,86271 1lsuA 147 1.372 c.2.1.9 74250 2hmvA 144 1.409 c.2.1.9 136615 1pjcA 361 1.457 c.2.1.4,c.23.12.2 30101,31361 1c1dA 355 1.531 c.2.1.7,c.58.1.1 30270,33918 1iukA 140 1.551 c.2.1.8 83712 1a5zA 319 1.608 c.2.1.5,d.162.1.1 30181,42148 1p77A 272 1.841 c.2.1.7,c.58.1.5 94214,94215 1gcuA 295 1.925 c.2.1.3,d.81.1.4 30063,39978 2g1uA 155 1.977 3c85A 183 1.992 2vojA 371 2.000 2v7pA 310 2.047 2aefA 234 2.166 1s6yA 450 2.803 c.2.1.5,d.162.1.2 105314,105315 2glxA 332 2.836 2ho3A 325 2.907 1npyA 271 2.983 c.2.1.7,c.58.1.5 85995,85996 2gptA 523 3.054 1j5pA 253 3.550 d.81.1.3,c.2.1.3 71577,83092 1a4iA 301 3.950 c.2.1.7,c.58.1.2 30278,33926 1ez4A 318 4.168 c.2.1.5,d.162.1.1 64917,64918 1ofgA 381 4.244 c.2.1.3,d.81.1.5 30064,39979 2dc1A 236 4.502 1y81A 138 4.797 c.2.1.8 122731 2csuA 457 5.078 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 2o7sA 523 5.702 2p2sA 336 5.753 1scuA 288 5.758 c.2.1.8,c.23.4.1 30307,31135 1h6dA 433 5.870 c.2.1.3,d.81.1.5 65656,65657 1vknA 351 5.879 c.2.1.3,d.81.1.1 108676,108677 2q4eA 362 6.246 1luaA 287 6.485 c.2.1.7,c.58.1.4 78216,78217 3ceaA 346 6.971 1hdoA 206 7.189 c.2.1.2 60965 2cmdA 312 7.428 c.2.1.5,d.162.1.1 30135,42102 3c1aA 315 7.765 2czcA 334 8.523 d.81.1.1 131044 1l7dA 384 8.895 c.2.1.4,c.23.12.2 77774,77775 2ph5A 480 8.961 1vi2A 300 9.695 c.2.1.7,c.58.1.5 100726,100727 2nqtA 352 11.10 2z1nA 260 11.61 1nvmB 312 11.68 c.2.1.3,d.81.1.1 86251,86252 1drw 273 11.89 1lc0A 294 12.02 c.2.1.3,d.81.1.4 73823,73824 1b0aA 288 12.38 c.2.1.7,c.58.1.2 30286,33934 1rydA 387 12.80 c.2.1.3,d.81.1.5 118801,118802 1xcbA 211 12.85 a.4.5.38,c.2.1.12 109552,109553 1k2wA 256 13.41 c.2.1.2 90927 1drwA 273 16.11 c.2.1.3,d.81.1.3 30057,39972 1qydA 313 16.72 c.2.1.2 96583 2g17A 337 17.13 c.2.1.3,d.81.1.1 134512,134513 2v3aA 384 17.96 1jw9B 249 18.40 c.111.1.1 67377 2exxA 306 18.97 2gz1A 366 19.11 c.2.1.3,d.81.1.1 135887,135888 1zud1 251 20.82 2hjsA 340 21.81 c.2.1.3,d.81.1.1 136547,136548 2ozpA 345 22.59 2o4uX 334 23.50 1xhlA 297 23.56 c.2.1.2 109591 1x7gA 261 24.81 c.2.1.2 114929 2q49A 359 25.74 c.2.1.3,d.81.1.1 139831,139832 2a4kA 263 26.97 c.2.1.2 126156 1xq6A 253 27.69 c.2.1.2 115829 1gegA 256 28.85 c.2.1.2 29888 1uufA 369 28.90 b.35.1.2,c.2.1.1 100006,100007 1n7hA 381 30.17 c.2.1.2 80250 2pd6A 264 31.67 1fmcA 255 32.97 c.2.1.2 29856 1k6xA 352 33.61 c.2.1.2 68238 2dt5A 211 34.22 a.4.5.38,c.2.1.12 131708,131709 1l1eA 287 34.43 c.66.1.18 73454 2yx0A 342 34.69 1xseA 295 35.23 c.2.1.2 115925 1ydeA 270 35.43 c.2.1.2 122980 2ag5A 246 35.47 c.2.1.2 126719 2gasA 307 35.71 1xkqA 280 35.73 c.2.1.2 115417 1qycA 308 36.02 c.2.1.2 96581 2a9fA 398 37.29 2r6jA 318 37.45 1pl8A 356 38.65 b.35.1.2,c.2.1.1 94878,94879 1kpgA 287 41.51 c.66.1.18 68735 1x13A 401 42.01 2bzgA 232 42.29 c.66.1.36 129559 1spxA 278 42.65 c.2.1.2 98958 1zh8A 340 43.37 c.2.1.3,d.81.1.5 125077,125078 1zk4A 251 43.60 c.2.1.2 125176 2cf5A 357 44.88 1e7wA 291 44.97 c.2.1.2 59373 1id1A 153 45.59 c.2.1.9 62286 2qa1A 500 45.59 1yb1A 272 46.32 c.2.1.2 116599 2jahA 247 46.52 1zmtA 254 46.92 c.2.1.2 125363 1w6uA 302 46.96 c.2.1.2 114288 1ja9A 274 47.03 c.2.1.2 62817 1l9cA 389 47.11 c.3.1.2,d.16.1.3 77815,77816 3bioA 304 47.92 1b16A 254 47.99 c.2.1.2 29875 2bryA 497 48.11 1gtmA 419 49.24 c.2.1.7,c.58.1.1 30223,33871 5nul 138 49.52 1cf2O 337 49.53 c.2.1.3,d.81.1.1 29994,39909 1i2cA 404 49.65 c.2.1.2 83666 1pwxA 254 50.45 c.2.1.2 95262 1cydA 244 50.67 c.2.1.2 29825 1e3jA 352 50.73 b.35.1.2,c.2.1.1 24765,29781 2r00A 336 51.44 1yxmA 303 52.06 c.2.1.2 124192 1zd8A 227 52.15 2gdzA 267 52.26 c.2.1.2 135043 1orrA 347 52.32 c.2.1.2 93460 2r0cA 549 52.88 2cduA 452 54.14 2o23A 265 55.08 c.2.1.2 138884 1rkxA 357 55.18 c.2.1.2 97631 2c29D 337 55.23 1o6zA 303 55.85 c.2.1.5,d.162.1.1 81107,81108 2gf3A 389 56.00 c.3.1.2,d.16.1.3 135070,135071 1vl8A 267 56.70 c.2.1.2 108733 1nffA 260 58.03 c.2.1.2 80457 2pnfA 248 58.27 1xg5A 279 58.69 c.2.1.2 115277 2hsjA 214 59.12 2c5aA 379 59.55 c.2.1.2 129894 2ixaA 444 59.56 1zmdA 474 59.60 1y1pA 342 60.23 c.2.1.2 122550 1pjqA 457 60.33 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1xgkA 352 60.58 c.2.1.2 115286 1yqzA 438 63.52 2ph3A 245 63.56 1f4pA 147 67.26 c.23.5.1 59651 2bgkA 278 68.52 c.2.1.2 128480 1hwxA 501 68.68 c.2.1.7,c.58.1.1 30250,33898 1hxhA 253 69.70 c.2.1.2 76725 1pbeA 394 70.02 c.3.1.2,d.16.1.2 30338,37869 2nwqA 272 70.21 1xu9A 286 70.77 c.2.1.2 116052 2fdxA 138 71.83 c.23.5.1 31192 2ekpA 239 72.06 1hyuA 521 74.21 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1kewA 361 75.04 c.2.1.2 68544 1hdcA 253 76.84 c.2.1.2 29862 1sbyA 254 76.89 c.2.1.2 118930 2gqwA 408 76.96 2blnA 305 79.92 b.46.1.1,c.65.1.1 128734,128735 1q7bA 244 80.61 c.2.1.2 96026 5nulA 138 80.80 c.23.5.1 31191 1fl2A 310 81.94 c.3.1.5,c.3.1.5 59869,59870 1bgvA 449 82.18 c.2.1.7,c.58.1.1 30217,33865 1db3A 372 82.30 c.2.1.2 29813 1t2aA 375 82.38 c.2.1.2 99078 1h5qA 265 83.69 c.2.1.2 60643 2b5wA 357 84.16 1othA 321 84.64 c.78.1.1,c.78.1.1 35260,35261 1in4A 334 86.61 a.4.5.11,c.37.1.20 62597,62598 1yzfA 195 86.65 c.23.10.5 124275 2o14A 375 86.75 2cfcA 250 89.59