# List of top-scoring protein chains for t04-w0.5-1-pb-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 1.29e-13 1yb4A 295 1.69e-13 1vpdA 299 6.19e-13 a.100.1.1,c.2.1.6 113951,113952 2rcyA 262 1.57e-12 2i76A 276 1.63e-12 2ahrA 259 1.80e-12 a.100.1.10,c.2.1.6 126775,126776 2izzA 322 4.59e-12 2pgdA 482 7.29e-12 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 1.72e-11 1yqgA 263 1.85e-11 2graA 277 2.30e-11 2cvzA 289 2.57e-11 a.100.1.1,c.2.1.6 130890,130891 2f1kA 279 2.64e-11 a.100.1.12,c.2.1.6 132772,132773 2pv7A 298 8.97e-11 2g5cA 281 1.04e-10 a.100.1.12,c.2.1.6 134646,134647 2pgd 482 3.64e-10 1np3A 338 4.68e-10 a.100.1.2,c.2.1.6 85946,85947 1pgjA 478 5.69e-10 a.100.1.1,c.2.1.6 18783,30195 3c24A 286 6.02e-09 1bg6 359 1.42e-08 1i36A 264 2.15e-08 a.100.1.8,c.2.1.6 71108,71109 1ks9A 291 3.18e-08 a.100.1.7,c.2.1.6 68857,68858 1yrlA 491 6.21e-08 1qmgA 524 7.92e-08 a.100.1.2,c.2.1.6 18785,30182 1txgA 335 1.14e-07 a.100.1.6,c.2.1.6 112775,112776 1evyA 366 3.07e-07 a.100.1.6,c.2.1.6 18811,30215 2ew2A 316 3.77e-07 1zejA 293 4.35e-07 2o3jA 481 4.70e-07 1mv8A 436 6.52e-07 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1dljA 402 1.27e-06 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1f0yA 302 1.30e-06 a.100.1.3,c.2.1.6 18793,30197 1z82A 335 3.22e-06 1dliA 402 3.74e-06 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1jayA 212 2.50e-05 c.2.1.6 66478 1zcjA 463 3.35e-05 1bg6A 359 8.69e-05 a.100.1.5,c.2.1.6 18810,30214 2dpoA 319 0.000617 1ff9A 450 0.001498 c.2.1.3,d.81.1.2 30039,39954 1x0vA 354 0.001772 2nacA 393 0.003656 c.2.1.4,c.23.12.1 30088,31348 1tltA 319 0.003715 c.2.1.3,d.81.1.5 107135,107136 1gdhA 320 0.004307 c.2.1.4,c.23.12.1 30095,31355 2qytA 317 0.006723 1mx3A 347 0.007430 c.2.1.4,c.23.12.1 79638,79639 2b0jA 358 0.01068 a.100.1.11,c.2.1.6 127639,127640 2fssA 365 0.01260 1wwkA 307 0.01375 1d4fA 431 0.01987 c.2.1.4,c.23.12.3 30110,31370 1xwfA 431 0.02099 c.2.1.4,c.23.12.3 122392,122393 2g76A 335 0.02330 2j6iA 364 0.02432 1u8xX 472 0.02737 c.2.1.5,d.162.1.2 107741,107742 1xeaA 323 0.02788 c.2.1.3,d.81.1.5 109572,109573 1j4aA 333 0.02799 c.2.1.4,c.23.12.1 71502,71503 1lssA 140 0.03336 c.2.1.9 74246 1li4A 432 0.03397 c.2.1.4,c.23.12.3 84616,84617 1xdwA 331 0.03745 2hk9A 275 0.03845 1v8bA 479 0.04262 c.2.1.4,c.23.12.3 113564,113565 1sc6A 404 0.04340 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1lldA 319 0.05987 c.2.1.5,d.162.1.1 30177,42144 2dbqA 334 0.06346 1psdA 409 0.06512 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1t2dA 322 0.07313 c.2.1.5,d.162.1.1 99084,99085 1ldg 316 0.07668 2d0iA 333 0.09539 1dxy 333 0.0999 1vllA 334 0.1144 c.2.1.13 108834 1uxjA 309 0.1180 c.2.1.5,d.162.1.1 108112,108113 1omoA 322 0.1449 c.2.1.13 104017 1ur5A 309 0.1463 c.2.1.5,d.162.1.1 99807,99808 2o4cA 380 0.1468 1pzgA 331 0.1575 c.2.1.5,d.162.1.1 95425,95426 1gpjA 404 0.1622 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1x7dA 350 0.1666 c.2.1.13 114927 1lsuA 147 0.2171 c.2.1.9 74250 2glxA 332 0.2199 1up6A 416 0.2365 c.2.1.5,d.162.1.2 107976,107977 2ho3A 325 0.2426 2pi1A 334 0.2528 2axqA 467 0.2540 1lehA 364 0.2870 c.2.1.7,c.58.1.1 30268,33916 1ygyA 529 0.2945 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2nvwA 479 0.2954 c.2.1.3,d.81.1.5 138665,138666 1gcuA 295 0.2989 c.2.1.3,d.81.1.4 30063,39978 1y81A 138 0.3112 c.2.1.8 122731 2d59A 144 0.3186 c.2.1.8 131266 1qp8A 303 0.3187 c.2.1.4,c.23.12.1 30092,31352 2hmvA 144 0.3251 c.2.1.9 136615 2gcgA 330 0.3485 1iukA 140 0.3910 c.2.1.8 83712 1nytA 271 0.4119 c.2.1.7,c.58.1.5 86417,86418 2d5cA 263 0.4604 1s6yA 450 0.4931 c.2.1.5,d.162.1.2 105314,105315 2aefA 234 0.4972 2vhxA 377 0.4982 2dc1A 236 0.5006 1c1dA 355 0.5007 c.2.1.7,c.58.1.1 30270,33918 1dxyA 333 0.5445 c.2.1.4,c.23.12.1 30094,31354 2g1uA 155 0.6030 3c1aA 315 0.6147 3ceaA 346 0.6579 2eklA 313 0.6663 2ewdA 317 0.6791 1ofgA 381 0.6834 c.2.1.3,d.81.1.5 30064,39979 3c85A 183 0.7021 1up7A 417 0.7047 c.2.1.5,d.162.1.2 113374,113375 2p2sA 336 0.7121 1guzA 310 0.7343 c.2.1.5,d.162.1.1 65586,65587 1obbA 480 0.7766 c.2.1.5,d.162.1.2 86760,86761 6ldhA 329 0.8226 c.2.1.5,d.162.1.1 30161,42128 1vjtA 483 0.8521 c.2.1.5,d.162.1.2 100833,100834 2q4eA 362 1.078 1hyhA 309 1.085 c.2.1.5,d.162.1.1 30150,42117 2nloA 302 1.140 1f06A 320 1.166 c.2.1.3,d.81.1.3 59556,59557 2cukA 311 1.211 1h6dA 433 1.242 c.2.1.3,d.81.1.5 65656,65657 2i6tA 303 1.312 1npyA 271 1.339 c.2.1.7,c.58.1.5 85995,85996 1zh8A 340 1.422 c.2.1.3,d.81.1.5 125077,125078 2o4uX 334 1.498 2eggA 297 1.515 1nvtA 287 1.542 c.2.1.7,c.58.1.5 86270,86271 2vojA 371 1.932 1pjcA 361 1.935 c.2.1.4,c.23.12.2 30101,31361 1rydA 387 2.170 c.2.1.3,d.81.1.5 118801,118802 1a5zA 319 2.232 c.2.1.5,d.162.1.1 30181,42148 2csuA 457 2.272 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1p77A 272 2.464 c.2.1.7,c.58.1.5 94214,94215 1vknA 351 2.604 c.2.1.3,d.81.1.1 108676,108677 1qv9A 283 2.711 c.127.1.1 96356 1scuA 288 2.835 c.2.1.8,c.23.4.1 30307,31135 1a4iA 301 3.244 c.2.1.7,c.58.1.2 30278,33926 2v7pA 310 3.328 2ph5A 480 3.737 1ez4A 318 3.935 c.2.1.5,d.162.1.1 64917,64918 1drwA 273 4.445 c.2.1.3,d.81.1.3 30057,39972 1lc0A 294 4.950 c.2.1.3,d.81.1.4 73823,73824 1b0aA 288 5.377 c.2.1.7,c.58.1.2 30286,33934 1drw 273 5.600 2gptA 523 5.732 1xcbA 211 5.990 a.4.5.38,c.2.1.12 109552,109553 1j5pA 253 6.382 d.81.1.3,c.2.1.3 71577,83092 1id1A 153 6.609 c.2.1.9 62286 2o7sA 523 6.635 1hdoA 206 7.706 c.2.1.2 60965 2ixaA 444 8.044 1luaA 287 9.663 c.2.1.7,c.58.1.4 78216,78217 1nvmB 312 9.95 c.2.1.3,d.81.1.1 86251,86252 1uufA 369 10.07 b.35.1.2,c.2.1.1 100006,100007 1l7dA 384 10.23 c.2.1.4,c.23.12.2 77774,77775 2czcA 334 10.40 d.81.1.1 131044 2cmdA 312 10.54 c.2.1.5,d.162.1.1 30135,42102 2v3aA 384 11.78 1qydA 313 12.79 c.2.1.2 96583 2nxcA 254 13.06 c.66.1.39 138739 2bryA 497 13.10 2q49A 359 13.15 c.2.1.3,d.81.1.1 139831,139832 1vi2A 300 13.80 c.2.1.7,c.58.1.5 100726,100727 1zud1 251 13.92 1vj0A 380 14.59 b.35.1.2,c.2.1.1 100786,100787 2exxA 306 14.72 2r6jA 318 15.33 1orrA 347 16.32 c.2.1.2 93460 2z1nA 260 16.44 2gasA 307 16.60 1e3jA 352 16.75 b.35.1.2,c.2.1.1 24765,29781 1k6xA 352 16.92 c.2.1.2 68238 1n7hA 381 17.14 c.2.1.2 80250 1l1eA 287 17.23 c.66.1.18 73454 1pl8A 356 17.40 b.35.1.2,c.2.1.1 94878,94879 2dt5A 211 17.77 a.4.5.38,c.2.1.12 131708,131709 2hjsA 340 18.09 c.2.1.3,d.81.1.1 136547,136548 1othA 321 18.27 c.78.1.1,c.78.1.1 35260,35261 1hdcA 253 18.53 c.2.1.2 29862 1pvvA 315 18.58 c.78.1.1,c.78.1.1 95190,95191 1qycA 308 18.82 c.2.1.2 96581 2g17A 337 19.02 c.2.1.3,d.81.1.1 134512,134513 1gtmA 419 20.07 c.2.1.7,c.58.1.1 30223,33871 2yx0A 342 20.10 1kjqA 391 20.61 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1jw9B 249 20.80 c.111.1.1 67377 2a4kA 263 20.86 c.2.1.2 126156 1hxhA 253 21.19 c.2.1.2 76725 2cf5A 357 21.65 1q7bA 244 22.05 c.2.1.2 96026 1k2wA 256 22.41 c.2.1.2 90927 1nffA 260 23.23 c.2.1.2 80457 2nqtA 352 24.30 1y9aA 360 24.69 2d8aA 348 25.87 2ouiA 360 26.65 1eyzA 392 26.82 b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 5nul 138 27.55 1db3A 372 27.73 c.2.1.2 29813 2jhfA 374 27.87 b.35.1.2,c.2.1.1 138314,138315 2ag5A 246 27.98 c.2.1.2 126719 1t2aA 375 28.66 c.2.1.2 99078 1n8kA 374 29.01 b.35.1.2,c.2.1.1 80298,80299 2o23A 265 29.84 c.2.1.2 138884 1f6yA 262 31.24 c.1.21.2 29673 2blnA 305 31.33 b.46.1.1,c.65.1.1 128734,128735 1xhlA 297 31.41 c.2.1.2 109591 1p0fA 373 31.61 b.35.1.2,c.2.1.1 87642,87643 2pd6A 264 32.16 1f8fA 371 32.89 b.35.1.2,c.2.1.1 83246,83247 1oi7A 288 33.92 c.2.1.8,c.23.4.1 87049,87050 2r00A 336 33.95 1kevA 351 34.03 b.35.1.2,c.2.1.1 24749,29765 1vl6A 388 34.43 c.2.1.7,c.58.1.3 108724,108725 1jvbA 347 34.61 b.35.1.2,c.2.1.1 77181,77182 2gqwA 408 35.01 1iz0A 302 35.11 b.35.1.2,c.2.1.1 83821,83822 2r0cA 549 35.50 1xseA 295 36.05 c.2.1.2 115925 1cf2O 337 36.08 c.2.1.3,d.81.1.1 29994,39909 1ydeA 270 37.13 c.2.1.2 122980 1gegA 256 37.85 c.2.1.2 29888 1bdbA 277 38.08 c.2.1.2 29874 1eudA 311 38.55 c.2.1.8,c.23.4.1 30312,31140 1rkxA 357 38.65 c.2.1.2 97631 2cduA 452 38.98 1yqzA 438 39.70 1fmcA 255 39.89 c.2.1.2 29856 2dwcA 433 40.23 1yb2A 275 40.37 c.66.1.13 122868 1xq6A 253 40.91 c.2.1.2 115829 6mhtA 327 41.92 c.66.1.26 34226 2ozpA 345 42.36 2fdxA 138 42.52 c.23.5.1 31192 1y1pA 342 42.55 c.2.1.2 122550 1dv2A 452 42.85 b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1in4A 334 42.86 a.4.5.11,c.37.1.20 62597,62598 1zmdA 474 43.42 3bioA 304 43.90 1ja9A 274 44.19 c.2.1.2 62817 1x13A 401 44.72 1kpgA 287 44.92 c.66.1.18 68735 1m1nB 522 45.21 c.92.2.3 78418 1sb8A 352 45.28 c.2.1.2 105410 1yqdA 366 45.61 1e6wA 260 46.00 c.2.1.2 59326 1o54A 277 46.54 c.66.1.13 92482 1pwxA 254 47.08 c.2.1.2 95262 1x7gA 261 47.16 c.2.1.2 114929 1u3wA 374 47.34 b.35.1.2,c.2.1.1 113013,113014 2yv1A 294 47.47 1cydA 244 47.91 c.2.1.2 29825 1jqbA 351 49.25 b.35.1.2,c.2.1.1 77151,77152 1duvG 333 49.63 c.78.1.1,c.78.1.1 35228,35229 2gdzA 267 49.66 c.2.1.2 135043 2qa1A 500 49.89 2c29D 337 49.93 1z15A 344 50.15 1yb1A 272 50.40 c.2.1.2 116599 1yxmA 303 51.11 c.2.1.2 124192 1ve3A 227 51.21 c.66.1.43 120010 1xu9A 286 51.51 c.2.1.2 116052 2gz1A 366 51.79 c.2.1.3,d.81.1.1 135887,135888 1f4pA 147 52.46 c.23.5.1 59651 1zk4A 251 54.98 c.2.1.2 125176 1vl8A 267 55.33 c.2.1.2 108733 1q1rA 431 55.59 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 3c8mA 331 55.59 2pnfA 248 55.79 1b16A 254 55.91 c.2.1.2 29875 1l9cA 389 56.91 c.3.1.2,d.16.1.3 77815,77816 2ekpA 239 57.46 1nhp 447 57.67 2bzgA 232 57.83 c.66.1.36 129559 1nhpA 447 58.09 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1zd8A 227 58.22 2ef0A 301 58.41 1xkqA 280 58.52 c.2.1.2 115417 1y56B 382 59.27 2yxdA 183 59.36 1i2cA 404 59.38 c.2.1.2 83666 1w6uA 302 62.02 c.2.1.2 114288 3ladA 476 62.91 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 2a9fA 398 63.46 2pn1A 331 63.90 1bgvA 449 64.33 c.2.1.7,c.58.1.1 30217,33865 2cdcA 366 65.07 2c7pA 327 65.16 c.66.1.26 130080 1gteA 1025 65.17 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 2eihA 343 65.54 2qgvA 140 66.30 5nulA 138 66.34 c.23.5.1 31191 1pbeA 394 66.48 c.3.1.2,d.16.1.2 30338,37869 2ae2A 260 67.04 c.2.1.2 29945 2b69A 343 67.34 c.2.1.2 127974 1wyuB 474 68.92 c.67.1.7 121453 1nhsA 447 69.00 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2jahA 247 69.54 2bgkA 278 69.72 c.2.1.2 128480 1e7wA 291 70.33 c.2.1.2 59373 1zmtA 254 71.06 c.2.1.2 125363 1xg5A 279 71.64 c.2.1.2 115277 2jdxA 385 73.28 d.126.1.2 41139 2gf3A 389 73.52 c.3.1.2,d.16.1.3 135070,135071 1d7yA 408 73.84 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1spxA 278 75.00 c.2.1.2 98958 1zk7A 467 76.08 1bdb 277 76.87 2h6eA 344 77.23 2yutA 207 79.14 1y5mA 276 79.22 c.2.1.2 122645 1rpnA 335 79.36 c.2.1.2 97708 2p91A 285 79.86 1b7gO 340 80.13 c.2.1.3,d.81.1.1 29992,39907 2fk8A 318 80.34 c.66.1.18 133648 1h7wA 1025 80.56 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 2q46A 253 80.94 c.2.1.2 139825 1udcA 338 82.13 c.2.1.2 29785 1pjqA 457 82.45 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2ph3A 245 82.58 2ffiA 288 82.66 c.1.9.15 133385 1hwxA 501 84.75 c.2.1.7,c.58.1.1 30250,33898 1zemA 262 85.38 c.2.1.2 124984 2nwqA 272 87.11 2c5aA 379 87.29 c.2.1.2 129894 2olnA 397 87.32 1xgkA 352 87.64 c.2.1.2 115286 1hyuA 521 88.26 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1sbyA 254 88.40 c.2.1.2 118930 1ebfA 358 89.39 c.2.1.3,d.81.1.2 30033,39948 1h5qA 265 89.46 c.2.1.2 60643 1ps9A 671 89.67 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1iy8A 267 89.84 c.2.1.2 83774