# 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 2h78A 302 3.50e-06 2ahrA 259 3.64e-06 a.100.1.10,c.2.1.6 126775,126776 1yb4A 295 4.63e-06 1vpdA 299 4.88e-06 a.100.1.1,c.2.1.6 113951,113952 2f1kA 279 5.17e-06 a.100.1.12,c.2.1.6 132772,132773 2g5cA 281 6.72e-06 a.100.1.12,c.2.1.6 134646,134647 2izzA 322 7.47e-06 1np3A 338 8.86e-06 a.100.1.2,c.2.1.6 85946,85947 1yqgA 263 1.06e-05 2pgdA 482 1.16e-05 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 1.39e-05 2cvzA 289 1.87e-05 a.100.1.1,c.2.1.6 130890,130891 1pgjA 478 2.34e-05 a.100.1.1,c.2.1.6 18783,30195 1bg6 359 2.45e-05 2pv7A 298 3.00e-05 1qmgA 524 3.35e-05 a.100.1.2,c.2.1.6 18785,30182 3c24A 286 3.88e-05 2graA 277 3.89e-05 2pgd 482 5.04e-05 2ew2A 316 5.84e-05 2rcyA 262 6.04e-05 1yrlA 491 6.47e-05 1ks9A 291 7.14e-05 a.100.1.7,c.2.1.6 68857,68858 1zejA 293 0.000123 2i76A 276 0.000189 1txgA 335 0.000193 a.100.1.6,c.2.1.6 112775,112776 1evyA 366 0.000203 a.100.1.6,c.2.1.6 18811,30215 1f0yA 302 0.000296 a.100.1.3,c.2.1.6 18793,30197 1i36A 264 0.000504 a.100.1.8,c.2.1.6 71108,71109 1jayA 212 0.000654 c.2.1.6 66478 1z82A 335 0.000745 1zcjA 463 0.001016 1bg6A 359 0.002564 a.100.1.5,c.2.1.6 18810,30214 1mv8A 436 0.003057 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2o3jA 481 0.007055 1dljA 402 0.009105 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2dpoA 319 0.01019 2qytA 317 0.01382 1dliA 402 0.01547 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1x0vA 354 0.01661 1ff9A 450 0.02137 c.2.1.3,d.81.1.2 30039,39954 1gdhA 320 0.03299 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.03762 c.2.1.4,c.23.12.1 30088,31348 1u8xX 472 0.05770 c.2.1.5,d.162.1.2 107741,107742 1s6yA 450 0.06127 c.2.1.5,d.162.1.2 105314,105315 2fssA 365 0.06990 1mx3A 347 0.09446 c.2.1.4,c.23.12.1 79638,79639 1gpjA 404 0.09942 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1wwkA 307 0.1067 1pzgA 331 0.1068 c.2.1.5,d.162.1.1 95425,95426 1qv9A 283 0.1080 c.127.1.1 96356 1psdA 409 0.1166 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1tltA 319 0.1173 c.2.1.3,d.81.1.5 107135,107136 1j4aA 333 0.1180 c.2.1.4,c.23.12.1 71502,71503 1ldg 316 0.1215 2j6iA 364 0.1242 1t2dA 322 0.1359 c.2.1.5,d.162.1.1 99084,99085 1uxjA 309 0.1361 c.2.1.5,d.162.1.1 108112,108113 1vllA 334 0.1575 c.2.1.13 108834 1xdwA 331 0.1787 1xwfA 431 0.1806 c.2.1.4,c.23.12.3 122392,122393 1lssA 140 0.1926 c.2.1.9 74246 1d4fA 431 0.1977 c.2.1.4,c.23.12.3 30110,31370 1li4A 432 0.1997 c.2.1.4,c.23.12.3 84616,84617 1ur5A 309 0.2034 c.2.1.5,d.162.1.1 99807,99808 1up6A 416 0.2048 c.2.1.5,d.162.1.2 107976,107977 2g76A 335 0.2158 1omoA 322 0.2323 c.2.1.13 104017 1x7dA 350 0.2394 c.2.1.13 114927 2hk9A 275 0.2588 1dxy 333 0.2769 2o4cA 380 0.2903 1v8bA 479 0.3190 c.2.1.4,c.23.12.3 113564,113565 2b0jA 358 0.3392 a.100.1.11,c.2.1.6 127639,127640 2d0iA 333 0.3718 2pi1A 334 0.4179 1lldA 319 0.4388 c.2.1.5,d.162.1.1 30177,42144 2dbqA 334 0.4597 1qp8A 303 0.4769 c.2.1.4,c.23.12.1 30092,31352 2vhxA 377 0.4973 1xeaA 323 0.5212 c.2.1.3,d.81.1.5 109572,109573 1obbA 480 0.5468 c.2.1.5,d.162.1.2 86760,86761 1ygyA 529 0.5988 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1sc6A 404 0.6182 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2i6tA 303 0.6307 1up7A 417 0.6343 c.2.1.5,d.162.1.2 113374,113375 1guzA 310 0.6940 c.2.1.5,d.162.1.1 65586,65587 2d5cA 263 0.6955 2eggA 297 0.7487 2gcgA 330 0.7649 1hyhA 309 0.8054 c.2.1.5,d.162.1.1 30150,42117 1nytA 271 0.8738 c.2.1.7,c.58.1.5 86417,86418 1dxyA 333 0.9228 c.2.1.4,c.23.12.1 30094,31354 1p77A 272 0.9480 c.2.1.7,c.58.1.5 94214,94215 1vjtA 483 0.9797 c.2.1.5,d.162.1.2 100833,100834 6ldhA 329 1.013 c.2.1.5,d.162.1.1 30161,42128 2cukA 311 1.126 2ewdA 317 1.156 2v7pA 310 1.289 1f06A 320 1.501 c.2.1.3,d.81.1.3 59556,59557 1npyA 271 1.510 c.2.1.7,c.58.1.5 85995,85996 3ceaA 346 1.596 2aefA 234 1.641 2axqA 467 1.695 2nloA 302 1.822 1gcuA 295 1.888 c.2.1.3,d.81.1.4 30063,39978 2nvwA 479 1.972 c.2.1.3,d.81.1.5 138665,138666 1lehA 364 2.108 c.2.1.7,c.58.1.1 30268,33916 1hdoA 206 2.334 c.2.1.2 60965 1a5zA 319 2.373 c.2.1.5,d.162.1.1 30181,42148 1pjcA 361 2.417 c.2.1.4,c.23.12.2 30101,31361 2dc1A 236 2.512 1ez4A 318 2.524 c.2.1.5,d.162.1.1 64917,64918 2vojA 371 2.617 2d59A 144 2.661 c.2.1.8 131266 2glxA 332 2.692 2gptA 523 3.114 2ho3A 325 3.175 3c85A 183 3.415 2hmvA 144 3.855 c.2.1.9 136615 1y81A 138 3.861 c.2.1.8 122731 1nvtA 287 3.912 c.2.1.7,c.58.1.5 86270,86271 1ofgA 381 3.937 c.2.1.3,d.81.1.5 30064,39979 2o7sA 523 4.002 1k6xA 352 4.320 c.2.1.2 68238 2hjsA 340 4.382 c.2.1.3,d.81.1.1 136547,136548 1vknA 351 4.529 c.2.1.3,d.81.1.1 108676,108677 1a4iA 301 4.556 c.2.1.7,c.58.1.2 30278,33926 2cmdA 312 4.852 c.2.1.5,d.162.1.1 30135,42102 2eklA 313 4.880 1nvmB 312 4.887 c.2.1.3,d.81.1.1 86251,86252 1qydA 313 5.175 c.2.1.2 96583 1j5pA 253 5.395 d.81.1.3,c.2.1.3 71577,83092 1c1dA 355 5.406 c.2.1.7,c.58.1.1 30270,33918 3c1aA 315 5.406 1luaA 287 5.487 c.2.1.7,c.58.1.4 78216,78217 1lsuA 147 5.559 c.2.1.9 74250 1h6dA 433 5.717 c.2.1.3,d.81.1.5 65656,65657 1iukA 140 5.806 c.2.1.8 83712 3bioA 304 6.145 2a4kA 263 7.056 c.2.1.2 126156 2p2sA 336 7.302 1l7dA 384 7.658 c.2.1.4,c.23.12.2 77774,77775 1cf2O 337 7.663 c.2.1.3,d.81.1.1 29994,39909 1zh8A 340 7.778 c.2.1.3,d.81.1.5 125077,125078 2g1uA 155 7.920 2exxA 306 8.367 1xq6A 253 8.477 c.2.1.2 115829 2o4uX 334 8.532 2nqtA 352 8.659 1xgkA 352 8.873 c.2.1.2 115286 1scuA 288 8.982 c.2.1.8,c.23.4.1 30307,31135 2gz1A 366 9.597 c.2.1.3,d.81.1.1 135887,135888 2r00A 336 9.770 1vi2A 300 10.00 c.2.1.7,c.58.1.5 100726,100727 2csuA 457 10.55 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1lc0A 294 10.59 c.2.1.3,d.81.1.4 73823,73824 1drwA 273 10.87 c.2.1.3,d.81.1.3 30057,39972 2q4eA 362 11.63 1rydA 387 12.19 c.2.1.3,d.81.1.5 118801,118802 1k2wA 256 12.38 c.2.1.2 90927 2z1nA 260 12.40 2cdcA 366 12.62 2ixaA 444 13.38 1uufA 369 13.52 b.35.1.2,c.2.1.1 100006,100007 2r6jA 318 14.44 1x13A 401 15.69 1x7gA 261 17.06 c.2.1.2 114929 2g17A 337 17.13 c.2.1.3,d.81.1.1 134512,134513 2bryA 497 17.21 1yqdA 366 17.43 1fl2A 310 18.81 c.3.1.5,c.3.1.5 59869,59870 2jahA 247 18.94 1n7hA 381 19.45 c.2.1.2 80250 1xseA 295 19.68 c.2.1.2 115925 1orrA 347 20.19 c.2.1.2 93460 1b0aA 288 20.60 c.2.1.7,c.58.1.2 30286,33934 2nxcA 254 21.57 c.66.1.39 138739 1othA 321 21.76 c.78.1.1,c.78.1.1 35260,35261 2czcA 334 22.12 d.81.1.1 131044 1xhlA 297 22.61 c.2.1.2 109591 2pnfA 248 23.10 1gegA 256 23.62 c.2.1.2 29888 2o23A 265 23.66 c.2.1.2 138884 2ph5A 480 23.68 2p5yA 311 23.69 1ydeA 270 24.20 c.2.1.2 122980 2pd6A 264 24.20 1e3jA 352 24.26 b.35.1.2,c.2.1.1 24765,29781 1vj0A 380 24.42 b.35.1.2,c.2.1.1 100786,100787 1yb1A 272 24.45 c.2.1.2 116599 1hwxA 501 25.12 c.2.1.7,c.58.1.1 30250,33898 1e7wA 291 26.55 c.2.1.2 59373 1w6uA 302 26.61 c.2.1.2 114288 1yqzA 438 27.14 2d8aA 348 27.22 1vl8A 267 27.39 c.2.1.2 108733 1hyuA 521 27.92 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1y1pA 342 29.07 c.2.1.2 122550 1drw 273 29.11 1fmcA 255 29.44 c.2.1.2 29856 1sb8A 352 29.45 c.2.1.2 105410 2b5wA 357 29.55 2qa1A 500 29.89 2b69A 343 30.14 c.2.1.2 127974 1qycA 308 30.24 c.2.1.2 96581 2cf5A 357 30.30 2ph3A 245 30.66 1db3A 372 30.81 c.2.1.2 29813 2v3aA 384 30.93 1spxA 278 31.02 c.2.1.2 98958 1xkqA 280 31.24 c.2.1.2 115417 2h6eA 344 31.32 1q7bA 244 31.50 c.2.1.2 96026 2ozpA 345 32.17 1xg5A 279 32.20 c.2.1.2 115277 1xhcA 367 32.63 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1b16A 254 34.11 c.2.1.2 29875 2r0cA 549 34.50 2c29D 337 34.86 1yxmA 303 34.88 c.2.1.2 124192 1t2aA 375 35.33 c.2.1.2 99078 1rpnA 335 35.78 c.2.1.2 97708 1rkxA 357 35.99 c.2.1.2 97631 1pl8A 356 36.44 b.35.1.2,c.2.1.1 94878,94879 1zq9A 285 36.46 c.66.1.24 125505 2z5lA 511 36.57 1zmdA 474 36.99 1zk4A 251 37.20 c.2.1.2 125176 1zk7A 467 37.45 2nwqA 272 37.57 1lluA 342 37.63 b.35.1.2,c.2.1.1 91064,91065 2bzgA 232 37.95 c.66.1.36 129559 1ja9A 274 38.23 c.2.1.2 62817 2q46A 253 38.25 c.2.1.2 139825 2jfgA 445 38.91 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1b7gO 340 39.11 c.2.1.3,d.81.1.1 29992,39907 2c07A 285 39.45 c.2.1.2 129577 1e6wA 260 39.57 c.2.1.2 59326 1pvvA 315 39.62 c.78.1.1,c.78.1.1 95190,95191 2bkaA 242 39.77 c.2.1.2 128666 1nffA 260 40.04 c.2.1.2 80457 2gasA 307 40.18 2a9fA 398 40.44 1nhp 447 41.09 1oc2A 348 41.30 c.2.1.2 92765 1gesA 450 41.45 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1kyqA 274 41.59 c.2.1.11,e.37.1.1 73281,73282 1hxhA 253 41.64 c.2.1.2 76725 1f8fA 371 41.70 b.35.1.2,c.2.1.1 83246,83247 3grs 478 41.77 1zmtA 254 42.46 c.2.1.2 125363 1vm6A 228 42.71 d.81.1.3,c.2.1.3 108877,118631 1bdbA 277 43.51 c.2.1.2 29874 1y56B 382 43.92 2yutA 207 44.14 1i2cA 404 44.23 c.2.1.2 83666 2c5aA 379 45.71 c.2.1.2 129894 1ve3A 227 45.88 c.66.1.43 120010 1q7gA 359 46.32 c.2.1.3,d.81.1.2 96038,96039 2avnA 260 46.93 c.66.1.41 127380 1ek6A 348 47.74 c.2.1.2 29800 2z1mA 345 48.08 1pbeA 394 48.52 c.3.1.2,d.16.1.2 30338,37869 2gdzA 267 48.79 c.2.1.2 135043 1trb 320 49.21 1pwxA 254 49.32 c.2.1.2 95262 1o6zA 303 49.42 c.2.1.5,d.162.1.1 81107,81108 2h1rA 299 49.66 1xel 338 50.22 1hdcA 253 50.43 c.2.1.2 29862 2yyyA 343 50.48 1id1A 153 50.60 c.2.1.9 62286 1qyrA 252 51.28 c.66.1.24 104657 1eudA 311 51.82 c.2.1.8,c.23.4.1 30312,31140 1q1rA 431 52.79 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1iz0A 302 52.82 b.35.1.2,c.2.1.1 83821,83822 2cfcA 250 53.25 1y8cA 246 54.99 c.66.1.43 116563 1qrrA 394 55.70 c.2.1.2 29824 3c4aA 381 56.27 1wmaA 276 56.29 c.2.1.2 121042 2yx0A 342 58.07 2hcyA 347 58.89 1wznA 252 59.38 c.66.1.43 121525 1i24A 404 59.55 c.2.1.2 83663 1ebfA 358 59.78 c.2.1.3,d.81.1.2 30033,39948 2ag5A 246 59.93 c.2.1.2 126719 2bgkA 278 60.27 c.2.1.2 128480 2yqzA 263 61.57 2p4hX 322 61.75 1udcA 338 61.92 c.2.1.2 29785 1x1tA 260 61.96 c.2.1.2 121597 1cydA 244 62.95 c.2.1.2 29825 1nhpA 447 63.56 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2dt5A 211 64.73 a.4.5.38,c.2.1.12 131708,131709 2qq5A 260 64.79 2jhfA 374 64.80 b.35.1.2,c.2.1.1 138314,138315 2ouiA 360 65.22 1mo9A 523 65.48 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2gqwA 408 66.16 1zd8A 227 66.21 1jqbA 351 66.29 b.35.1.2,c.2.1.1 77151,77152 2fr1A 486 67.32 c.2.1.2,c.2.1.2 133961,133962 3bkwA 243 67.77 1p0fA 373 68.29 b.35.1.2,c.2.1.1 87642,87643 2pzmA 330 69.35 2gf3A 389 69.76 c.3.1.2,d.16.1.3 135070,135071 1n8kA 374 72.35 b.35.1.2,c.2.1.1 80298,80299 2cmd 312 73.02 2a35A 215 73.03 c.2.1.2 126072 1eny 268 73.21 3ladA 476 73.49 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1z7bA 358 73.79 c.2.1.2 124599 2fk8A 318 74.38 c.66.1.18 133648 1nhsA 447 75.80 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2cduA 452 76.24 1dv2A 452 76.40 b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1bxkA 355 76.85 c.2.1.2 29803 1y9aA 360 77.61 1l9cA 389 78.30 c.3.1.2,d.16.1.3 77815,77816 1d7yA 408 81.92 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1eq2A 310 82.02 c.2.1.2 29814 1r6dA 337 82.09 c.2.1.2 97148 1gy8A 397 82.37 c.2.1.2 83376 1yb2A 275 82.78 c.66.1.13 122868 1xa0A 328 82.84 b.35.1.2,c.2.1.1 115021,115022 1l3iA 192 84.15 c.66.1.22 77676 1eyzA 392 84.30 b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1u3wA 374 84.99 b.35.1.2,c.2.1.1 113013,113014 1xu9A 286 85.16 c.2.1.2 116052 3c8mA 331 85.96 1b6rA 355 86.05 b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1e6uA 321 86.79 c.2.1.2 29805 2fdxA 138 89.12 c.23.5.1 31192 2b9wA 424 89.56 1vl6A 388 89.70 c.2.1.7,c.58.1.3 108724,108725