# List of top-scoring protein chains for t04-w0.5-1-n_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 4.65e-06 1yb4A 295 8.23e-06 2ahrA 259 8.36e-06 a.100.1.10,c.2.1.6 126775,126776 1vpdA 299 9.43e-06 a.100.1.1,c.2.1.6 113951,113952 2g5cA 281 1.07e-05 a.100.1.12,c.2.1.6 134646,134647 1np3A 338 1.23e-05 a.100.1.2,c.2.1.6 85946,85947 2f1kA 279 1.25e-05 a.100.1.12,c.2.1.6 132772,132773 2izzA 322 1.76e-05 2pgdA 482 1.86e-05 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 2.01e-05 2pv7A 298 2.94e-05 1yqgA 263 2.97e-05 2cvzA 289 3.52e-05 a.100.1.1,c.2.1.6 130890,130891 1bg6 359 3.57e-05 1qmgA 524 3.85e-05 a.100.1.2,c.2.1.6 18785,30182 1pgjA 478 6.69e-05 a.100.1.1,c.2.1.6 18783,30195 3c24A 286 6.88e-05 2rcyA 262 7.18e-05 1yrlA 491 7.41e-05 2graA 277 7.66e-05 2pgd 482 7.70e-05 2ew2A 316 0.000114 1ks9A 291 0.000135 a.100.1.7,c.2.1.6 68857,68858 2i76A 276 0.000205 1zejA 293 0.000239 1evyA 366 0.000284 a.100.1.6,c.2.1.6 18811,30215 1f0yA 302 0.000461 a.100.1.3,c.2.1.6 18793,30197 1txgA 335 0.000695 a.100.1.6,c.2.1.6 112775,112776 1jayA 212 0.000816 c.2.1.6 66478 1i36A 264 0.000896 a.100.1.8,c.2.1.6 71108,71109 1z82A 335 0.001291 1zcjA 463 0.001519 1mv8A 436 0.003762 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1bg6A 359 0.004432 a.100.1.5,c.2.1.6 18810,30214 2o3jA 481 0.007263 2dpoA 319 0.01093 1dljA 402 0.01178 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2qytA 317 0.02105 1dliA 402 0.02564 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1ff9A 450 0.02831 c.2.1.3,d.81.1.2 30039,39954 1gdhA 320 0.03244 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.04681 c.2.1.4,c.23.12.1 30088,31348 1u8xX 472 0.08532 c.2.1.5,d.162.1.2 107741,107742 2fssA 365 0.1069 1wwkA 307 0.1205 1tltA 319 0.1221 c.2.1.3,d.81.1.5 107135,107136 1lssA 140 0.1251 c.2.1.9 74246 2j6iA 364 0.1300 1x0vA 354 0.1325 2g76A 335 0.1408 1gpjA 404 0.1434 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1s6yA 450 0.1521 c.2.1.5,d.162.1.2 105314,105315 1xdwA 331 0.1566 1vllA 334 0.1601 c.2.1.13 108834 1mx3A 347 0.1659 c.2.1.4,c.23.12.1 79638,79639 1pzgA 331 0.1685 c.2.1.5,d.162.1.1 95425,95426 1psdA 409 0.1799 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1t2dA 322 0.1844 c.2.1.5,d.162.1.1 99084,99085 1xwfA 431 0.1847 c.2.1.4,c.23.12.3 122392,122393 1ldg 316 0.2225 1j4aA 333 0.2283 c.2.1.4,c.23.12.1 71502,71503 1qv9A 283 0.2420 c.127.1.1 96356 1d4fA 431 0.2510 c.2.1.4,c.23.12.3 30110,31370 1uxjA 309 0.2780 c.2.1.5,d.162.1.1 108112,108113 2hk9A 275 0.3040 1li4A 432 0.3042 c.2.1.4,c.23.12.3 84616,84617 1x7dA 350 0.3093 c.2.1.13 114927 1omoA 322 0.3406 c.2.1.13 104017 1dxy 333 0.3408 1ur5A 309 0.3441 c.2.1.5,d.162.1.1 99807,99808 1v8bA 479 0.3682 c.2.1.4,c.23.12.3 113564,113565 1xeaA 323 0.3713 c.2.1.3,d.81.1.5 109572,109573 1lldA 319 0.4078 c.2.1.5,d.162.1.1 30177,42144 2o4cA 380 0.4633 2dbqA 334 0.4812 2d0iA 333 0.4973 1qp8A 303 0.4989 c.2.1.4,c.23.12.1 30092,31352 2b0jA 358 0.5166 a.100.1.11,c.2.1.6 127639,127640 2pi1A 334 0.6108 1up6A 416 0.6507 c.2.1.5,d.162.1.2 107976,107977 1obbA 480 0.7260 c.2.1.5,d.162.1.2 86760,86761 1nytA 271 0.8025 c.2.1.7,c.58.1.5 86417,86418 1sc6A 404 0.8485 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1up7A 417 0.9122 c.2.1.5,d.162.1.2 113374,113375 1guzA 310 0.9371 c.2.1.5,d.162.1.1 65586,65587 2eggA 297 0.9419 1ygyA 529 0.9681 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2d5cA 263 1.082 2vhxA 377 1.088 6ldhA 329 1.174 c.2.1.5,d.162.1.1 30161,42128 1lsuA 147 1.180 c.2.1.9 74250 1p77A 272 1.356 c.2.1.7,c.58.1.5 94214,94215 1gcuA 295 1.359 c.2.1.3,d.81.1.4 30063,39978 1hyhA 309 1.364 c.2.1.5,d.162.1.1 30150,42117 2hmvA 144 1.369 c.2.1.9 136615 2nloA 302 1.383 2glxA 332 1.398 3ceaA 346 1.424 2cukA 311 1.455 2i6tA 303 1.495 2ewdA 317 1.572 2gcgA 330 1.590 1f06A 320 1.701 c.2.1.3,d.81.1.3 59556,59557 2ho3A 325 1.766 1npyA 271 1.828 c.2.1.7,c.58.1.5 85995,85996 1pjcA 361 1.858 c.2.1.4,c.23.12.2 30101,31361 2aefA 234 1.982 2dc1A 236 1.983 1vjtA 483 2.250 c.2.1.5,d.162.1.2 100833,100834 2axqA 467 2.329 1nvtA 287 2.428 c.2.1.7,c.58.1.5 86270,86271 2g1uA 155 2.520 2v7pA 310 2.528 2d59A 144 2.566 c.2.1.8 131266 1vknA 351 2.798 c.2.1.3,d.81.1.1 108676,108677 2nvwA 479 3.118 c.2.1.3,d.81.1.5 138665,138666 2q4eA 362 3.202 1hdoA 206 3.801 c.2.1.2 60965 1dxyA 333 3.836 c.2.1.4,c.23.12.1 30094,31354 1y81A 138 3.837 c.2.1.8 122731 2p2sA 336 4.108 3c1aA 315 4.217 1iukA 140 4.319 c.2.1.8 83712 1luaA 287 4.371 c.2.1.7,c.58.1.4 78216,78217 1c1dA 355 4.397 c.2.1.7,c.58.1.1 30270,33918 1j5pA 253 4.724 d.81.1.3,c.2.1.3 71577,83092 1zh8A 340 4.812 c.2.1.3,d.81.1.5 125077,125078 2o4uX 334 4.969 1ofgA 381 5.060 c.2.1.3,d.81.1.5 30064,39979 1a4iA 301 5.060 c.2.1.7,c.58.1.2 30278,33926 2gptA 523 5.449 2eklA 313 5.815 1a5zA 319 6.159 c.2.1.5,d.162.1.1 30181,42148 1lehA 364 6.325 c.2.1.7,c.58.1.1 30268,33916 2r6jA 318 6.348 2hjsA 340 6.365 c.2.1.3,d.81.1.1 136547,136548 2o7sA 523 6.421 1h6dA 433 6.504 c.2.1.3,d.81.1.5 65656,65657 2vojA 371 6.762 1ez4A 318 6.975 c.2.1.5,d.162.1.1 64917,64918 1vi2A 300 7.111 c.2.1.7,c.58.1.5 100726,100727 1l7dA 384 7.471 c.2.1.4,c.23.12.2 77774,77775 1qydA 313 7.526 c.2.1.2 96583 1nvmB 312 7.562 c.2.1.3,d.81.1.1 86251,86252 3c85A 183 7.831 1k6xA 352 8.808 c.2.1.2 68238 1scuA 288 9.291 c.2.1.8,c.23.4.1 30307,31135 3bioA 304 9.869 2g17A 337 9.900 c.2.1.3,d.81.1.1 134512,134513 2gz1A 366 10.09 c.2.1.3,d.81.1.1 135887,135888 2czcA 334 10.34 d.81.1.1 131044 2nqtA 352 11.18 1b0aA 288 11.20 c.2.1.7,c.58.1.2 30286,33934 2a4kA 263 11.59 c.2.1.2 126156 1k2wA 256 11.71 c.2.1.2 90927 1rydA 387 11.82 c.2.1.3,d.81.1.5 118801,118802 1lc0A 294 12.23 c.2.1.3,d.81.1.4 73823,73824 2csuA 457 12.25 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 2ixaA 444 12.50 1drwA 273 12.99 c.2.1.3,d.81.1.3 30057,39972 2exxA 306 13.07 1hxhA 253 13.10 c.2.1.2 76725 1xq6A 253 13.16 c.2.1.2 115829 1q7bA 244 13.92 c.2.1.2 96026 1cf2O 337 14.21 c.2.1.3,d.81.1.1 29994,39909 2cdcA 366 15.28 1bdbA 277 17.13 c.2.1.2 29874 1ydeA 270 17.22 c.2.1.2 122980 1xseA 295 17.61 c.2.1.2 115925 1xgkA 352 17.69 c.2.1.2 115286 1fmcA 255 17.75 c.2.1.2 29856 1e6wA 260 18.00 c.2.1.2 59326 1hdcA 253 18.05 c.2.1.2 29862 1yb1A 272 18.29 c.2.1.2 116599 1x13A 401 18.40 2pd6A 264 18.68 1qycA 308 18.97 c.2.1.2 96581 1nffA 260 19.09 c.2.1.2 80457 1uufA 369 19.16 b.35.1.2,c.2.1.1 100006,100007 1gegA 256 19.83 c.2.1.2 29888 1e7wA 291 20.13 c.2.1.2 59373 1xhlA 297 20.21 c.2.1.2 109591 2r00A 336 20.25 1id1A 153 20.37 c.2.1.9 62286 2gasA 307 20.77 1fl2A 310 20.85 c.3.1.5,c.3.1.5 59869,59870 1yxmA 303 21.71 c.2.1.2 124192 1vj0A 380 21.75 b.35.1.2,c.2.1.1 100786,100787 2o23A 265 22.13 c.2.1.2 138884 1orrA 347 22.64 c.2.1.2 93460 1drw 273 22.68 2cmdA 312 22.97 c.2.1.5,d.162.1.1 30135,42102 2jahA 247 23.32 1othA 321 23.50 c.78.1.1,c.78.1.1 35260,35261 1ja9A 274 23.51 c.2.1.2 62817 1zmdA 474 23.55 2bryA 497 23.60 1n7hA 381 23.64 c.2.1.2 80250 1ys4A 354 24.48 1x7gA 261 24.50 c.2.1.2 114929 1xkqA 280 25.10 c.2.1.2 115417 2c5aA 379 25.16 c.2.1.2 129894 2ph3A 245 25.92 2ejwA 332 26.22 2z1nA 260 26.38 1w6uA 302 26.69 c.2.1.2 114288 1nhp 447 26.83 2ph5A 480 26.99 1xhcA 367 27.72 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1zmtA 254 27.83 c.2.1.2 125363 1vl8A 267 27.87 c.2.1.2 108733 2v3aA 384 28.18 1yqdA 366 28.37 2h6eA 344 28.38 2d8aA 348 28.74 1zk7A 467 28.83 1pwxA 254 28.85 c.2.1.2 95262 2q49A 359 29.27 c.2.1.3,d.81.1.1 139831,139832 1gesA 450 30.20 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1pvvA 315 30.34 c.78.1.1,c.78.1.1 95190,95191 2b5wA 357 30.43 1xu9A 286 30.59 c.2.1.2 116052 1bdb 277 30.81 1f8fA 371 31.18 b.35.1.2,c.2.1.1 83246,83247 2cf5A 357 32.09 2gdzA 267 32.10 c.2.1.2 135043 3grs 478 32.32 2ag5A 246 32.59 c.2.1.2 126719 1yqzA 438 33.26 3c8mA 331 33.59 2r0cA 549 33.99 2pnfA 248 34.53 2gqwA 408 34.71 2nwqA 272 34.91 2ozpA 345 34.91 1spxA 278 35.16 c.2.1.2 98958 1iy8A 267 35.44 c.2.1.2 83774 1hwxA 501 35.52 c.2.1.7,c.58.1.1 30250,33898 1zk4A 251 35.68 c.2.1.2 125176 2hcyA 347 36.63 2p5yA 311 36.64 1cydA 244 36.80 c.2.1.2 29825 2ae2A 260 37.51 c.2.1.2 29945 2dt5A 211 37.56 a.4.5.38,c.2.1.12 131708,131709 2q46A 253 37.71 c.2.1.2 139825 1zemA 262 37.85 c.2.1.2 124984 1y5mA 276 38.11 c.2.1.2 122645 2qa1A 500 38.46 1trb 320 39.02 2c07A 285 39.98 c.2.1.2 129577 1pl8A 356 40.19 b.35.1.2,c.2.1.1 94878,94879 2b69A 343 40.73 c.2.1.2 127974 1lluA 342 40.99 b.35.1.2,c.2.1.1 91064,91065 1jw9B 249 43.02 c.111.1.1 67377 1y9aA 360 43.08 2bkaA 242 43.12 c.2.1.2 128666 1t2aA 375 43.74 c.2.1.2 99078 1rkxA 357 44.31 c.2.1.2 97631 2bgkA 278 44.73 c.2.1.2 128480 1kyqA 274 44.88 c.2.1.11,e.37.1.1 73281,73282 1mo9A 523 45.09 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1xg5A 279 46.12 c.2.1.2 115277 1nhpA 447 46.57 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1y1pA 342 48.00 c.2.1.2 122550 1d7yA 408 48.15 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 2cfcA 250 49.09 1x1tA 260 49.15 c.2.1.2 121597 1q1rA 431 49.17 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 2bzgA 232 49.88 c.66.1.36 129559 2avnA 260 50.07 c.66.1.41 127380 2yqzA 263 50.20 1hyuA 521 50.43 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1zud1 251 50.52 2z5lA 511 50.84 1y8cA 246 51.17 c.66.1.43 116563 1zq9A 285 51.54 c.66.1.24 125505 1q7gA 359 52.56 c.2.1.3,d.81.1.2 96038,96039 1db3A 372 53.52 c.2.1.2 29813 1nhsA 447 54.46 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2jfgA 445 54.64 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 2cduA 452 55.20 1h5qA 265 55.26 c.2.1.2 60643 3ladA 476 55.28 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 2p91A 285 55.79 1b16A 254 56.94 c.2.1.2 29875 1wmaA 276 58.14 c.2.1.2 121042 2qq5A 260 58.22 1i2cA 404 58.53 c.2.1.2 83666 2ew8A 249 59.07 c.2.1.2 132447 1kolA 398 60.16 b.35.1.2,c.2.1.1 77474,77475 2yyyA 343 60.50 2dwcA 433 60.76 1ve3A 227 60.82 c.66.1.43 120010 1x1eA 239 60.88 1b7gO 340 62.04 c.2.1.3,d.81.1.1 29992,39907 1vm6A 228 62.53 d.81.1.3,c.2.1.3 108877,118631 1sb8A 352 63.60 c.2.1.2 105410 1n5dA 288 64.22 c.2.1.2 80030 1iz0A 302 64.61 b.35.1.2,c.2.1.1 83821,83822 1bxkA 355 65.31 c.2.1.2 29803 2ouiA 360 65.33 1mb4A 370 67.34 c.2.1.3,d.81.1.1 78908,78909 1pbeA 394 67.82 c.3.1.2,d.16.1.2 30338,37869 1wznA 252 68.70 c.66.1.43 121525 1rpnA 335 69.53 c.2.1.2 97708 1o6zA 303 72.33 c.2.1.5,d.162.1.1 81107,81108 1duvG 333 72.36 c.78.1.1,c.78.1.1 35228,35229 1p0fA 373 72.58 b.35.1.2,c.2.1.1 87642,87643 1n8kA 374 73.37 b.35.1.2,c.2.1.1 80298,80299 1xel 338 75.79 3c4aA 381 75.91 2d1yA 256 76.41 c.2.1.2 131151 1cs1A 386 78.17 c.67.1.3 34399 1e3jA 352 80.79 b.35.1.2,c.2.1.1 24765,29781 2h1rA 299 81.04 3bkwA 243 81.23 1l9cA 389 81.83 c.3.1.2,d.16.1.3 77815,77816 1eny 268 83.02 1mldA 314 83.55 c.2.1.5,d.162.1.1 30122,42089 1pjqA 457 83.63 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2a9fA 398 84.79 2gf3A 389 85.20 c.3.1.2,d.16.1.3 135070,135071 2olnA 397 85.24 1kevA 351 86.12 b.35.1.2,c.2.1.1 24749,29765 2nxcA 254 86.14 c.66.1.39 138739 1jqbA 351 86.84 b.35.1.2,c.2.1.1 77151,77152 2p4hX 322 87.07 2fk8A 318 87.81 c.66.1.18 133648 1gcoA 261 88.73 c.2.1.2 29884 1xa0A 328 88.82 b.35.1.2,c.2.1.1 115021,115022 2dtxA 264 89.06 1xcbA 211 89.11 a.4.5.38,c.2.1.12 109552,109553 1geeA 261 89.67 c.2.1.2 90509 1oc2A 348 89.79 c.2.1.2 92765