# List of top-scoring protein chains for t04-w0.5-1-o_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 1.33e-06 2ahrA 259 1.52e-06 a.100.1.10,c.2.1.6 126775,126776 1yb4A 295 1.92e-06 1vpdA 299 2.00e-06 a.100.1.1,c.2.1.6 113951,113952 2f1kA 279 2.26e-06 a.100.1.12,c.2.1.6 132772,132773 2g5cA 281 2.95e-06 a.100.1.12,c.2.1.6 134646,134647 2izzA 322 3.60e-06 1np3A 338 4.58e-06 a.100.1.2,c.2.1.6 85946,85947 1yqgA 263 4.79e-06 2pgdA 482 5.59e-06 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 5.59e-06 2cvzA 289 8.06e-06 a.100.1.1,c.2.1.6 130890,130891 1bg6 359 1.09e-05 1pgjA 478 1.22e-05 a.100.1.1,c.2.1.6 18783,30195 2pv7A 298 1.50e-05 1qmgA 524 1.98e-05 a.100.1.2,c.2.1.6 18785,30182 2graA 277 2.16e-05 3c24A 286 2.44e-05 2rcyA 262 2.49e-05 2pgd 482 2.83e-05 2ew2A 316 3.23e-05 1yrlA 491 3.50e-05 1ks9A 291 3.99e-05 a.100.1.7,c.2.1.6 68857,68858 1zejA 293 5.93e-05 2i76A 276 0.000106 1txgA 335 0.000129 a.100.1.6,c.2.1.6 112775,112776 1evyA 366 0.000137 a.100.1.6,c.2.1.6 18811,30215 1f0yA 302 0.000161 a.100.1.3,c.2.1.6 18793,30197 1i36A 264 0.000280 a.100.1.8,c.2.1.6 71108,71109 1jayA 212 0.000371 c.2.1.6 66478 1z82A 335 0.000429 1zcjA 463 0.000621 1bg6A 359 0.001461 a.100.1.5,c.2.1.6 18810,30214 1mv8A 436 0.002022 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2o3jA 481 0.005137 1dljA 402 0.005727 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2dpoA 319 0.007096 1dliA 402 0.01143 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1x0vA 354 0.01280 2qytA 317 0.01436 1ff9A 450 0.01663 c.2.1.3,d.81.1.2 30039,39954 1gdhA 320 0.02325 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.02590 c.2.1.4,c.23.12.1 30088,31348 1u8xX 472 0.04444 c.2.1.5,d.162.1.2 107741,107742 1s6yA 450 0.05322 c.2.1.5,d.162.1.2 105314,105315 2fssA 365 0.05376 1mx3A 347 0.06877 c.2.1.4,c.23.12.1 79638,79639 1wwkA 307 0.07482 1qv9A 283 0.07554 c.127.1.1 96356 1gpjA 404 0.07904 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1pzgA 331 0.08935 c.2.1.5,d.162.1.1 95425,95426 1tltA 319 0.08987 c.2.1.3,d.81.1.5 107135,107136 2j6iA 364 0.09026 1t2dA 322 0.1000 c.2.1.5,d.162.1.1 99084,99085 1j4aA 333 0.1004 c.2.1.4,c.23.12.1 71502,71503 1psdA 409 0.1031 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1ldg 316 0.1080 1lssA 140 0.1128 c.2.1.9 74246 1uxjA 309 0.1216 c.2.1.5,d.162.1.1 108112,108113 1xdwA 331 0.1249 1vllA 334 0.1333 c.2.1.13 108834 1xwfA 431 0.1440 c.2.1.4,c.23.12.3 122392,122393 1li4A 432 0.1491 c.2.1.4,c.23.12.3 84616,84617 1d4fA 431 0.1528 c.2.1.4,c.23.12.3 30110,31370 2g76A 335 0.1648 1ur5A 309 0.1674 c.2.1.5,d.162.1.1 99807,99808 1x7dA 350 0.1831 c.2.1.13 114927 1up6A 416 0.1896 c.2.1.5,d.162.1.2 107976,107977 2hk9A 275 0.2133 1omoA 322 0.2275 c.2.1.13 104017 1v8bA 479 0.2357 c.2.1.4,c.23.12.3 113564,113565 1dxy 333 0.2593 2o4cA 380 0.2807 2d0iA 333 0.3160 2b0jA 358 0.3170 a.100.1.11,c.2.1.6 127639,127640 2pi1A 334 0.3338 2dbqA 334 0.3383 1qp8A 303 0.3738 c.2.1.4,c.23.12.1 30092,31352 2vhxA 377 0.4446 1xeaA 323 0.4453 c.2.1.3,d.81.1.5 109572,109573 1lldA 319 0.4482 c.2.1.5,d.162.1.1 30177,42144 1sc6A 404 0.4582 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1ygyA 529 0.5701 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1up7A 417 0.5748 c.2.1.5,d.162.1.2 113374,113375 1obbA 480 0.6359 c.2.1.5,d.162.1.2 86760,86761 2i6tA 303 0.6620 1guzA 310 0.6695 c.2.1.5,d.162.1.1 65586,65587 2gcgA 330 0.6975 1hyhA 309 0.7454 c.2.1.5,d.162.1.1 30150,42117 2eggA 297 0.7505 2d5cA 263 0.8168 1nytA 271 0.8178 c.2.1.7,c.58.1.5 86417,86418 1dxyA 333 0.9098 c.2.1.4,c.23.12.1 30094,31354 1p77A 272 1.008 c.2.1.7,c.58.1.5 94214,94215 2cukA 311 1.024 1vjtA 483 1.048 c.2.1.5,d.162.1.2 100833,100834 2v7pA 310 1.085 2aefA 234 1.169 6ldhA 329 1.181 c.2.1.5,d.162.1.1 30161,42128 2ewdA 317 1.206 1f06A 320 1.612 c.2.1.3,d.81.1.3 59556,59557 2nloA 302 1.620 2axqA 467 1.671 3ceaA 346 1.687 1npyA 271 1.828 c.2.1.7,c.58.1.5 85995,85996 1a5zA 319 1.935 c.2.1.5,d.162.1.1 30181,42148 1lehA 364 1.942 c.2.1.7,c.58.1.1 30268,33916 2nvwA 479 1.952 c.2.1.3,d.81.1.5 138665,138666 1pjcA 361 2.301 c.2.1.4,c.23.12.2 30101,31361 2dc1A 236 2.325 1gcuA 295 2.332 c.2.1.3,d.81.1.4 30063,39978 3c85A 183 2.350 1hdoA 206 2.353 c.2.1.2 60965 2d59A 144 2.470 c.2.1.8 131266 1ez4A 318 2.767 c.2.1.5,d.162.1.1 64917,64918 2vojA 371 2.837 2hmvA 144 3.000 c.2.1.9 136615 1y81A 138 3.052 c.2.1.8 122731 2gptA 523 3.219 2glxA 332 3.499 1nvtA 287 3.598 c.2.1.7,c.58.1.5 86270,86271 1ofgA 381 3.697 c.2.1.3,d.81.1.5 30064,39979 2ho3A 325 3.724 2o7sA 523 4.101 1lsuA 147 4.155 c.2.1.9 74250 2eklA 313 4.194 1luaA 287 4.455 c.2.1.7,c.58.1.4 78216,78217 1vknA 351 4.502 c.2.1.3,d.81.1.1 108676,108677 1qydA 313 4.546 c.2.1.2 96583 2hjsA 340 4.935 c.2.1.3,d.81.1.1 136547,136548 1k6xA 352 5.011 c.2.1.2 68238 1a4iA 301 5.081 c.2.1.7,c.58.1.2 30278,33926 1j5pA 253 5.147 d.81.1.3,c.2.1.3 71577,83092 2g1uA 155 5.230 1nvmB 312 5.474 c.2.1.3,d.81.1.1 86251,86252 2cmdA 312 5.739 c.2.1.5,d.162.1.1 30135,42102 2a4kA 263 5.762 c.2.1.2 126156 1c1dA 355 6.073 c.2.1.7,c.58.1.1 30270,33918 1iukA 140 6.382 c.2.1.8 83712 1h6dA 433 6.534 c.2.1.3,d.81.1.5 65656,65657 3bioA 304 7.077 3c1aA 315 7.264 1vi2A 300 7.456 c.2.1.7,c.58.1.5 100726,100727 1zh8A 340 8.393 c.2.1.3,d.81.1.5 125077,125078 1xq6A 253 8.586 c.2.1.2 115829 2p2sA 336 8.606 1l7dA 384 9.411 c.2.1.4,c.23.12.2 77774,77775 1cf2O 337 9.616 c.2.1.3,d.81.1.1 29994,39909 2nqtA 352 9.709 2o4uX 334 9.725 1lc0A 294 9.95 c.2.1.3,d.81.1.4 73823,73824 1xgkA 352 10.00 c.2.1.2 115286 2exxA 306 10.44 2gz1A 366 10.79 c.2.1.3,d.81.1.1 135887,135888 2z1nA 260 10.82 2csuA 457 10.83 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1drwA 273 11.72 c.2.1.3,d.81.1.3 30057,39972 1k2wA 256 12.13 c.2.1.2 90927 1scuA 288 12.23 c.2.1.8,c.23.4.1 30307,31135 2r00A 336 13.02 1rydA 387 14.32 c.2.1.3,d.81.1.5 118801,118802 2ixaA 444 14.36 2r6jA 318 14.68 2g17A 337 14.86 c.2.1.3,d.81.1.1 134512,134513 1fl2A 310 16.35 c.3.1.5,c.3.1.5 59869,59870 2q4eA 362 16.80 1uufA 369 16.88 b.35.1.2,c.2.1.1 100006,100007 1x7gA 261 18.27 c.2.1.2 114929 1orrA 347 18.45 c.2.1.2 93460 2jahA 247 18.66 2bryA 497 18.74 1x13A 401 18.82 1yqdA 366 18.95 2pd6A 264 19.06 1xhlA 297 19.51 c.2.1.2 109591 1xseA 295 19.52 c.2.1.2 115925 2nxcA 254 20.36 c.66.1.39 138739 2p5yA 311 21.25 1yb1A 272 21.38 c.2.1.2 116599 1gegA 256 21.48 c.2.1.2 29888 1othA 321 21.58 c.78.1.1,c.78.1.1 35260,35261 1e7wA 291 21.68 c.2.1.2 59373 1hwxA 501 21.96 c.2.1.7,c.58.1.1 30250,33898 1ydeA 270 22.13 c.2.1.2 122980 2ph5A 480 22.13 2pnfA 248 22.30 1n7hA 381 22.81 c.2.1.2 80250 2o23A 265 22.97 c.2.1.2 138884 2czcA 334 23.69 d.81.1.1 131044 1hyuA 521 24.55 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1w6uA 302 25.02 c.2.1.2 114288 1yqzA 438 25.03 2ph3A 245 26.46 1db3A 372 26.67 c.2.1.2 29813 1vl8A 267 26.80 c.2.1.2 108733 2b69A 343 26.92 c.2.1.2 127974 1fmcA 255 27.11 c.2.1.2 29856 1xhcA 367 27.70 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1kyqA 274 27.93 c.2.1.11,e.37.1.1 73281,73282 2cdcA 366 28.11 1sb8A 352 28.14 c.2.1.2 105410 1xkqA 280 28.33 c.2.1.2 115417 1q7bA 244 28.41 c.2.1.2 96026 1spxA 278 28.53 c.2.1.2 98958 1vj0A 380 28.78 b.35.1.2,c.2.1.1 100786,100787 2ozpA 345 29.23 1y1pA 342 29.47 c.2.1.2 122550 1b0aA 288 29.48 c.2.1.7,c.58.1.2 30286,33934 2bzgA 232 31.00 c.66.1.36 129559 1zk7A 467 31.54 1qycA 308 31.70 c.2.1.2 96581 1xg5A 279 31.92 c.2.1.2 115277 1e3jA 352 32.01 b.35.1.2,c.2.1.1 24765,29781 2v3aA 384 32.06 1nffA 260 32.53 c.2.1.2 80457 1b16A 254 32.71 c.2.1.2 29875 1e6wA 260 32.73 c.2.1.2 59326 2c29D 337 33.10 2qa1A 500 33.69 2cf5A 357 33.74 2h6eA 344 34.02 1zq9A 285 34.25 c.66.1.24 125505 1trb 320 34.25 1drw 273 34.51 1bdbA 277 35.02 c.2.1.2 29874 2nwqA 272 35.13 1zmdA 474 35.16 2z5lA 511 35.42 1zk4A 251 35.51 c.2.1.2 125176 1ja9A 274 35.90 c.2.1.2 62817 2c07A 285 36.09 c.2.1.2 129577 2d8aA 348 36.29 2q46A 253 37.08 c.2.1.2 139825 2gasA 307 37.28 1zmtA 254 37.58 c.2.1.2 125363 2r0cA 549 37.74 1yxmA 303 38.08 c.2.1.2 124192 1id1A 153 38.28 c.2.1.9 62286 1q7gA 359 38.32 c.2.1.3,d.81.1.2 96038,96039 1t2aA 375 39.31 c.2.1.2 99078 2c5aA 379 39.41 c.2.1.2 129894 1hxhA 253 39.43 c.2.1.2 76725 2b5wA 357 39.92 1pvvA 315 40.66 c.78.1.1,c.78.1.1 95190,95191 1gesA 450 41.21 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1rpnA 335 42.09 c.2.1.2 97708 2gdzA 267 42.17 c.2.1.2 135043 1oc2A 348 42.69 c.2.1.2 92765 1ek6A 348 44.57 c.2.1.2 29800 1y56B 382 44.76 1nhp 447 45.15 1rkxA 357 45.76 c.2.1.2 97631 2bkaA 242 45.77 c.2.1.2 128666 2yutA 207 45.91 1i2cA 404 46.74 c.2.1.2 83666 1wmaA 276 47.67 c.2.1.2 121042 2cfcA 250 47.90 2h1rA 299 48.45 1lluA 342 48.51 b.35.1.2,c.2.1.1 91064,91065 1hdcA 253 48.81 c.2.1.2 29862 2a9fA 398 50.14 1vm6A 228 50.27 d.81.1.3,c.2.1.3 108877,118631 2z1mA 345 51.87 1ve3A 227 51.92 c.66.1.43 120010 1pl8A 356 53.65 b.35.1.2,c.2.1.1 94878,94879 1pwxA 254 53.83 c.2.1.2 95262 1xel 338 53.87 1q1rA 431 54.44 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 2q49A 359 55.56 c.2.1.3,d.81.1.1 139831,139832 2avnA 260 56.02 c.66.1.41 127380 2jfgA 445 56.97 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1b7gO 340 58.16 c.2.1.3,d.81.1.1 29992,39907 3c4aA 381 59.75 1f8fA 371 59.76 b.35.1.2,c.2.1.1 83246,83247 2bgkA 278 59.83 c.2.1.2 128480 1pbeA 394 59.89 c.3.1.2,d.16.1.2 30338,37869 2qq5A 260 60.06 2pzmA 330 61.10 1i24A 404 61.99 c.2.1.2 83663 2dt5A 211 62.50 a.4.5.38,c.2.1.12 131708,131709 1x1tA 260 62.84 c.2.1.2 121597 1qyrA 252 63.61 c.66.1.24 104657 3grs 478 63.68 1qrrA 394 63.77 c.2.1.2 29824 2ag5A 246 64.12 c.2.1.2 126719 1nhpA 447 64.30 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2p4hX 322 64.31 2yyyA 343 65.92 1wznA 252 66.29 c.66.1.43 121525 1iz0A 302 66.60 b.35.1.2,c.2.1.1 83821,83822 3ladA 476 67.46 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1mo9A 523 67.49 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2gqwA 408 68.34 1yb2A 275 70.28 c.66.1.13 122868 1m1nB 522 71.08 c.92.2.3 78418 1zd8A 227 71.13 1ebfA 358 71.34 c.2.1.3,d.81.1.2 30033,39948 2yqzA 263 71.92 1nhsA 447 73.23 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1cydA 244 73.37 c.2.1.2 29825 3bkwA 243 73.95 1d7yA 408 74.48 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 2hcyA 347 74.97 1y8cA 246 75.85 c.66.1.43 116563 2cduA 452 77.05 1jqbA 351 79.68 b.35.1.2,c.2.1.1 77151,77152 1p0fA 373 80.05 b.35.1.2,c.2.1.1 87642,87643 2jhfA 374 80.24 b.35.1.2,c.2.1.1 138314,138315 1zemA 262 80.44 c.2.1.2 124984 1o6zA 303 80.63 c.2.1.5,d.162.1.1 81107,81108 2ouiA 360 80.75 2yx0A 342 80.88 1eudA 311 81.02 c.2.1.8,c.23.4.1 30312,31140 1eq2A 310 83.71 c.2.1.2 29814 1xa0A 328 83.90 b.35.1.2,c.2.1.1 115021,115022 2fdxA 138 84.03 c.23.5.1 31192 3c8mA 331 84.24 1udcA 338 84.96 c.2.1.2 29785 1eyzA 392 84.99 b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1n8kA 374 85.52 b.35.1.2,c.2.1.1 80298,80299 2fr1A 486 85.52 c.2.1.2,c.2.1.2 133961,133962 1z7bA 358 86.17 c.2.1.2 124599 1xu9A 286 86.30 c.2.1.2 116052 1r6dA 337 87.66 c.2.1.2 97148 2zbwA 335 88.87 1e6uA 321 89.71 c.2.1.2 29805