# 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 6.60e-11 1yb4A 295 7.64e-11 2i76A 276 2.32e-10 1vpdA 299 4.02e-10 a.100.1.1,c.2.1.6 113951,113952 2rcyA 262 4.04e-10 2ahrA 259 7.80e-10 a.100.1.10,c.2.1.6 126775,126776 2izzA 322 1.21e-09 2pgdA 482 1.83e-09 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 3.06e-09 2f1kA 279 3.48e-09 a.100.1.12,c.2.1.6 132772,132773 1yqgA 263 3.60e-09 2cvzA 289 6.18e-09 a.100.1.1,c.2.1.6 130890,130891 2g5cA 281 8.77e-09 a.100.1.12,c.2.1.6 134646,134647 2graA 277 9.57e-09 2pv7A 298 1.02e-08 1np3A 338 3.24e-08 a.100.1.2,c.2.1.6 85946,85947 1pgjA 478 5.76e-08 a.100.1.1,c.2.1.6 18783,30195 2pgd 482 7.38e-08 3c24A 286 2.34e-07 1i36A 264 6.16e-07 a.100.1.8,c.2.1.6 71108,71109 1ks9A 291 8.43e-07 a.100.1.7,c.2.1.6 68857,68858 1bg6 359 8.52e-07 1txgA 335 1.76e-06 a.100.1.6,c.2.1.6 112775,112776 1yrlA 491 1.77e-06 1qmgA 524 1.96e-06 a.100.1.2,c.2.1.6 18785,30182 2ew2A 316 2.75e-06 1zejA 293 5.70e-06 1evyA 366 6.17e-06 a.100.1.6,c.2.1.6 18811,30215 2o3jA 481 1.07e-05 1mv8A 436 1.65e-05 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1f0yA 302 2.04e-05 a.100.1.3,c.2.1.6 18793,30197 1dljA 402 3.57e-05 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 5.95e-05 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1z82A 335 0.000109 1zcjA 463 0.000208 1jayA 212 0.000265 c.2.1.6 66478 1bg6A 359 0.002731 a.100.1.5,c.2.1.6 18810,30214 2dpoA 319 0.004033 1ff9A 450 0.009824 c.2.1.3,d.81.1.2 30039,39954 1x0vA 354 0.01029 2qytA 317 0.01460 1gdhA 320 0.02298 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.02654 c.2.1.4,c.23.12.1 30088,31348 1tltA 319 0.04585 c.2.1.3,d.81.1.5 107135,107136 1u8xX 472 0.06308 c.2.1.5,d.162.1.2 107741,107742 1t2dA 322 0.06374 c.2.1.5,d.162.1.1 99084,99085 1mx3A 347 0.08927 c.2.1.4,c.23.12.1 79638,79639 1wwkA 307 0.1020 1ldg 316 0.1064 2b0jA 358 0.1251 a.100.1.11,c.2.1.6 127639,127640 1lssA 140 0.1276 c.2.1.9 74246 2fssA 365 0.1341 1xdwA 331 0.1342 1lldA 319 0.1392 c.2.1.5,d.162.1.1 30177,42144 1vllA 334 0.1413 c.2.1.13 108834 1d4fA 431 0.1451 c.2.1.4,c.23.12.3 30110,31370 2g76A 335 0.1456 1j4aA 333 0.1557 c.2.1.4,c.23.12.1 71502,71503 1xwfA 431 0.1578 c.2.1.4,c.23.12.3 122392,122393 2j6iA 364 0.1750 2hk9A 275 0.1966 1ur5A 309 0.1981 c.2.1.5,d.162.1.1 99807,99808 1li4A 432 0.2067 c.2.1.4,c.23.12.3 84616,84617 1omoA 322 0.2266 c.2.1.13 104017 1v8bA 479 0.2354 c.2.1.4,c.23.12.3 113564,113565 1xeaA 323 0.2561 c.2.1.3,d.81.1.5 109572,109573 1uxjA 309 0.2746 c.2.1.5,d.162.1.1 108112,108113 1psdA 409 0.2955 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1up6A 416 0.3044 c.2.1.5,d.162.1.2 107976,107977 1dxy 333 0.3275 1x7dA 350 0.3438 c.2.1.13 114927 1pzgA 331 0.3518 c.2.1.5,d.162.1.1 95425,95426 1sc6A 404 0.3936 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2dbqA 334 0.4105 1up7A 417 0.4883 c.2.1.5,d.162.1.2 113374,113375 1gpjA 404 0.5416 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2hmvA 144 0.6136 c.2.1.9 136615 2d0iA 333 0.6337 2ewdA 317 0.9235 1guzA 310 0.9286 c.2.1.5,d.162.1.1 65586,65587 1lsuA 147 0.9457 c.2.1.9 74250 2o4cA 380 0.9524 1obbA 480 0.9796 c.2.1.5,d.162.1.2 86760,86761 2d5cA 263 1.025 1qp8A 303 1.081 c.2.1.4,c.23.12.1 30092,31352 1s6yA 450 1.126 c.2.1.5,d.162.1.2 105314,105315 1hyhA 309 1.219 c.2.1.5,d.162.1.1 30150,42117 2pi1A 334 1.264 1nytA 271 1.266 c.2.1.7,c.58.1.5 86417,86418 6ldhA 329 1.424 c.2.1.5,d.162.1.1 30161,42128 2glxA 332 1.453 2nvwA 479 1.504 c.2.1.3,d.81.1.5 138665,138666 2ho3A 325 1.601 2nloA 302 1.637 1ygyA 529 1.685 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1npyA 271 1.688 c.2.1.7,c.58.1.5 85995,85996 2axqA 467 1.700 2eggA 297 1.706 1gcuA 295 1.716 c.2.1.3,d.81.1.4 30063,39978 1f06A 320 1.786 c.2.1.3,d.81.1.3 59556,59557 2i6tA 303 1.835 2d59A 144 1.908 c.2.1.8 131266 2g1uA 155 1.937 1nvtA 287 2.124 c.2.1.7,c.58.1.5 86270,86271 1vjtA 483 2.142 c.2.1.5,d.162.1.2 100833,100834 2aefA 234 2.322 2dc1A 236 2.332 2gcgA 330 2.398 1qv9A 283 2.701 c.127.1.1 96356 2v7pA 310 2.718 1pjcA 361 2.723 c.2.1.4,c.23.12.2 30101,31361 3ceaA 346 3.030 2vhxA 377 3.065 1iukA 140 3.133 c.2.1.8 83712 1c1dA 355 3.305 c.2.1.7,c.58.1.1 30270,33918 1p77A 272 3.391 c.2.1.7,c.58.1.5 94214,94215 1a5zA 319 3.429 c.2.1.5,d.162.1.1 30181,42148 2q4eA 362 3.449 2cukA 311 3.669 3c85A 183 3.714 1y81A 138 3.737 c.2.1.8 122731 1ofgA 381 3.912 c.2.1.3,d.81.1.5 30064,39979 3c1aA 315 4.157 1h6dA 433 4.982 c.2.1.3,d.81.1.5 65656,65657 1luaA 287 5.497 c.2.1.7,c.58.1.4 78216,78217 1ez4A 318 5.629 c.2.1.5,d.162.1.1 64917,64918 2vojA 371 5.761 2csuA 457 6.091 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 2o4uX 334 6.137 2gptA 523 6.186 2p2sA 336 6.328 1zh8A 340 6.774 c.2.1.3,d.81.1.5 125077,125078 1hdoA 206 7.440 c.2.1.2 60965 2o7sA 523 7.494 1j5pA 253 7.597 d.81.1.3,c.2.1.3 71577,83092 1a4iA 301 8.193 c.2.1.7,c.58.1.2 30278,33926 1id1A 153 8.721 c.2.1.9 62286 1rydA 387 8.787 c.2.1.3,d.81.1.5 118801,118802 1lehA 364 9.010 c.2.1.7,c.58.1.1 30268,33916 1vi2A 300 11.19 c.2.1.7,c.58.1.5 100726,100727 2czcA 334 11.33 d.81.1.1 131044 1nvmB 312 11.72 c.2.1.3,d.81.1.1 86251,86252 2r6jA 318 12.07 1n7hA 381 12.23 c.2.1.2 80250 1vknA 351 12.58 c.2.1.3,d.81.1.1 108676,108677 1l1eA 287 12.96 c.66.1.18 73454 1orrA 347 14.68 c.2.1.2 93460 1dxyA 333 14.98 c.2.1.4,c.23.12.1 30094,31354 2ph5A 480 16.06 1scuA 288 16.20 c.2.1.8,c.23.4.1 30307,31135 1lc0A 294 16.39 c.2.1.3,d.81.1.4 73823,73824 1q7bA 244 16.43 c.2.1.2 96026 1hxhA 253 16.70 c.2.1.2 76725 1b0aA 288 17.07 c.2.1.7,c.58.1.2 30286,33934 1l7dA 384 17.21 c.2.1.4,c.23.12.2 77774,77775 2yx0A 342 17.36 1k2wA 256 17.98 c.2.1.2 90927 1nffA 260 19.37 c.2.1.2 80457 2hjsA 340 19.41 c.2.1.3,d.81.1.1 136547,136548 1drw 273 19.75 1drwA 273 20.10 c.2.1.3,d.81.1.3 30057,39972 1hdcA 253 20.42 c.2.1.2 29862 2exxA 306 21.33 2z1nA 260 21.53 1xhlA 297 21.64 c.2.1.2 109591 2g17A 337 21.80 c.2.1.3,d.81.1.1 134512,134513 2v3aA 384 22.13 2ixaA 444 23.60 1e6wA 260 23.61 c.2.1.2 59326 1jw9B 249 23.79 c.111.1.1 67377 1bxkA 355 23.89 c.2.1.2 29803 2cmdA 312 24.23 c.2.1.5,d.162.1.1 30135,42102 1fmcA 255 25.03 c.2.1.2 29856 1ydeA 270 25.25 c.2.1.2 122980 2nqtA 352 26.06 2pd6A 264 26.12 1k6xA 352 26.20 c.2.1.2 68238 1rkxA 357 26.20 c.2.1.2 97631 1xseA 295 26.80 c.2.1.2 115925 1t2aA 375 27.32 c.2.1.2 99078 1gegA 256 27.75 c.2.1.2 29888 2a4kA 263 27.79 c.2.1.2 126156 2b5wA 357 28.88 2o23A 265 29.30 c.2.1.2 138884 2gz1A 366 29.81 c.2.1.3,d.81.1.1 135887,135888 1xkqA 280 30.08 c.2.1.2 115417 1qydA 313 30.68 c.2.1.2 96583 1yb1A 272 31.44 c.2.1.2 116599 1yxmA 303 32.09 c.2.1.2 124192 2q49A 359 33.39 c.2.1.3,d.81.1.1 139831,139832 1uufA 369 33.45 b.35.1.2,c.2.1.1 100006,100007 2dt5A 211 33.48 a.4.5.38,c.2.1.12 131708,131709 1xu9A 286 33.64 c.2.1.2 116052 2gasA 307 35.91 1ja9A 274 35.97 c.2.1.2 62817 1xq6A 253 36.49 c.2.1.2 115829 1pl8A 356 36.93 b.35.1.2,c.2.1.1 94878,94879 1zmdA 474 37.17 3grs 478 38.53 1zmtA 254 39.30 c.2.1.2 125363 1db3A 372 39.66 c.2.1.2 29813 2gqwA 408 41.03 2bryA 497 41.92 1w6uA 302 42.00 c.2.1.2 114288 2c5aA 379 42.33 c.2.1.2 129894 1x7gA 261 42.82 c.2.1.2 114929 2h6eA 344 43.78 2eklA 313 44.12 2ag5A 246 44.21 c.2.1.2 126719 2gdzA 267 44.28 c.2.1.2 135043 1pwxA 254 44.55 c.2.1.2 95262 2a9fA 398 45.12 1vl8A 267 45.54 c.2.1.2 108733 1xcbA 211 46.14 a.4.5.38,c.2.1.12 109552,109553 2jahA 247 46.56 1x13A 401 48.91 1b16A 254 49.11 c.2.1.2 29875 1y5mA 276 49.17 c.2.1.2 122645 1qycA 308 49.41 c.2.1.2 96581 1e7wA 291 50.97 c.2.1.2 59373 1oi7A 288 51.51 c.2.1.8,c.23.4.1 87049,87050 1zk4A 251 51.63 c.2.1.2 125176 2ozpA 345 51.95 1bdb 277 53.32 1sb8A 352 54.52 c.2.1.2 105410 2cdcA 366 57.31 1bdbA 277 57.58 c.2.1.2 29874 2ae2A 260 57.67 c.2.1.2 29945 1iy8A 267 58.51 c.2.1.2 83774 1nhpA 447 58.65 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2q46A 253 59.04 c.2.1.2 139825 1zud1 251 60.10 2r00A 336 60.44 1cydA 244 60.63 c.2.1.2 29825 1nhp 447 60.81 2nwqA 272 61.09 1fl2A 310 61.27 c.3.1.5,c.3.1.5 59869,59870 1e3jA 352 62.00 b.35.1.2,c.2.1.1 24765,29781 2ph3A 245 62.67 1vj0A 380 62.95 b.35.1.2,c.2.1.1 100786,100787 1kewA 361 62.95 c.2.1.2 68544 1spxA 278 64.54 c.2.1.2 98958 2pnfA 248 65.38 1hyuA 521 66.33 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2qa1A 500 66.58 2cduA 452 66.87 2cfcA 250 68.10 1xg5A 279 68.16 c.2.1.2 115277 2r0cA 549 68.18 2c07A 285 68.27 c.2.1.2 129577 1i2cA 404 69.23 c.2.1.2 83666 1kwgA 645 69.62 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1zemA 262 69.91 c.2.1.2 124984 1l9cA 389 71.64 c.3.1.2,d.16.1.3 77815,77816 1cf2O 337 71.67 c.2.1.3,d.81.1.1 29994,39909 2ew8A 249 71.79 c.2.1.2 132447 1yqzA 438 71.82 1f6yA 262 73.59 c.1.21.2 29673 2bzgA 232 73.85 c.66.1.36 129559 1xhcA 367 74.12 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1rpnA 335 74.34 c.2.1.2 97708 1h5qA 265 74.90 c.2.1.2 60643 3c8mA 331 76.54 2jhfA 374 77.20 b.35.1.2,c.2.1.1 138314,138315 3ladA 476 77.27 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1y1pA 342 79.09 c.2.1.2 122550 2cf5A 357 80.05 1vqwA 457 81.07 c.3.1.5,c.3.1.5 114028,114029 3bofA 566 81.86 1q1rA 431 82.94 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 2p91A 285 83.14 1tx2A 297 83.28 c.1.21.1 107420 1x1eA 239 83.83 2b69A 343 85.77 c.2.1.2 127974 1n8kA 374 86.06 b.35.1.2,c.2.1.1 80298,80299 1kjqA 391 86.20 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1othA 321 86.84 c.78.1.1,c.78.1.1 35260,35261 5nul 138 87.21 1sbyA 254 87.59 c.2.1.2 118930 1o6zA 303 88.53 c.2.1.5,d.162.1.1 81107,81108 1nhsA 447 89.23 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1aj2A 282 89.96 c.1.21.1 29665