# List of top-scoring protein chains for t04-w0.5-1-near-backbone-11-0.3-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 1yb4A 295 8.78e-09 2h78A 302 1.34e-08 2ahrA 259 4.21e-08 a.100.1.10,c.2.1.6 126775,126776 2pgdA 482 4.82e-08 a.100.1.1,c.2.1.6 18778,30190 2i76A 276 5.34e-08 1vpdA 299 5.48e-08 a.100.1.1,c.2.1.6 113951,113952 2p4qA 497 5.71e-08 2rcyA 262 7.01e-08 2izzA 322 1.36e-07 2graA 277 2.28e-07 1yqgA 263 2.37e-07 2cvzA 289 2.45e-07 a.100.1.1,c.2.1.6 130890,130891 2f1kA 279 2.52e-07 a.100.1.12,c.2.1.6 132772,132773 2g5cA 281 6.23e-07 a.100.1.12,c.2.1.6 134646,134647 1pgjA 478 8.38e-07 a.100.1.1,c.2.1.6 18783,30195 2pgd 482 8.89e-07 2pv7A 298 2.59e-06 1np3A 338 5.48e-06 a.100.1.2,c.2.1.6 85946,85947 3c24A 286 1.59e-05 1yrlA 491 1.70e-05 1i36A 264 2.58e-05 a.100.1.8,c.2.1.6 71108,71109 1bg6 359 3.10e-05 1ks9A 291 4.65e-05 a.100.1.7,c.2.1.6 68857,68858 1qmgA 524 4.77e-05 a.100.1.2,c.2.1.6 18785,30182 2ew2A 316 5.10e-05 1txgA 335 8.55e-05 a.100.1.6,c.2.1.6 112775,112776 1evyA 366 0.000116 a.100.1.6,c.2.1.6 18811,30215 1zejA 293 0.000252 2o3jA 481 0.000333 1f0yA 302 0.000370 a.100.1.3,c.2.1.6 18793,30197 1z82A 335 0.000663 1dljA 402 0.000920 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 0.001035 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1mv8A 436 0.001439 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1jayA 212 0.002260 c.2.1.6 66478 1zcjA 463 0.002393 1bg6A 359 0.009446 a.100.1.5,c.2.1.6 18810,30214 1ff9A 450 0.01292 c.2.1.3,d.81.1.2 30039,39954 1x0vA 354 0.01540 2nacA 393 0.03969 c.2.1.4,c.23.12.1 30088,31348 1gdhA 320 0.05071 c.2.1.4,c.23.12.1 30095,31355 2dpoA 319 0.05921 1tltA 319 0.06199 c.2.1.3,d.81.1.5 107135,107136 1d4fA 431 0.07681 c.2.1.4,c.23.12.3 30110,31370 1mx3A 347 0.1089 c.2.1.4,c.23.12.1 79638,79639 2qytA 317 0.1174 1li4A 432 0.1244 c.2.1.4,c.23.12.3 84616,84617 1wwkA 307 0.1288 1lldA 319 0.1300 c.2.1.5,d.162.1.1 30177,42144 2b0jA 358 0.1323 a.100.1.11,c.2.1.6 127639,127640 1vllA 334 0.1523 c.2.1.13 108834 1xwfA 431 0.1556 c.2.1.4,c.23.12.3 122392,122393 1v8bA 479 0.1563 c.2.1.4,c.23.12.3 113564,113565 1xeaA 323 0.1646 c.2.1.3,d.81.1.5 109572,109573 1gpjA 404 0.1767 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2g76A 335 0.1771 2fssA 365 0.2036 1sc6A 404 0.2048 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2hk9A 275 0.2049 1omoA 322 0.2139 c.2.1.13 104017 1x7dA 350 0.2185 c.2.1.13 114927 1j4aA 333 0.2206 c.2.1.4,c.23.12.1 71502,71503 1pzgA 331 0.2289 c.2.1.5,d.162.1.1 95425,95426 1psdA 409 0.2733 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1t2dA 322 0.2742 c.2.1.5,d.162.1.1 99084,99085 1xdwA 331 0.3288 2j6iA 364 0.3861 2dbqA 334 0.4793 1dxy 333 0.5667 2d0iA 333 0.5753 1u8xX 472 0.5801 c.2.1.5,d.162.1.2 107741,107742 1lssA 140 0.5901 c.2.1.9 74246 2ewdA 317 0.7222 1ygyA 529 1.000 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2nvwA 479 1.050 c.2.1.3,d.81.1.5 138665,138666 2axqA 467 1.066 1ldg 316 1.090 6ldhA 329 1.125 c.2.1.5,d.162.1.1 30161,42128 2vhxA 377 1.192 2eggA 297 1.232 1gcuA 295 1.272 c.2.1.3,d.81.1.4 30063,39978 2dc1A 236 1.291 1nytA 271 1.291 c.2.1.7,c.58.1.5 86417,86418 2glxA 332 1.318 1ur5A 309 1.350 c.2.1.5,d.162.1.1 99807,99808 1up7A 417 1.395 c.2.1.5,d.162.1.2 113374,113375 1uxjA 309 1.407 c.2.1.5,d.162.1.1 108112,108113 2ho3A 325 1.559 2gcgA 330 1.601 2pi1A 334 1.641 2q4eA 362 1.677 2o4cA 380 1.706 2v7pA 310 1.717 3ceaA 346 1.862 2hmvA 144 1.988 c.2.1.9 136615 1f06A 320 2.039 c.2.1.3,d.81.1.3 59556,59557 2d5cA 263 2.093 1a5zA 319 2.103 c.2.1.5,d.162.1.1 30181,42148 1pjcA 361 2.113 c.2.1.4,c.23.12.2 30101,31361 1hyhA 309 2.190 c.2.1.5,d.162.1.1 30150,42117 1guzA 310 2.196 c.2.1.5,d.162.1.1 65586,65587 1ofgA 381 2.233 c.2.1.3,d.81.1.5 30064,39979 2p2sA 336 2.286 1h6dA 433 2.373 c.2.1.3,d.81.1.5 65656,65657 1up6A 416 2.438 c.2.1.5,d.162.1.2 107976,107977 2vojA 371 2.580 2o4uX 334 2.771 1p77A 272 2.801 c.2.1.7,c.58.1.5 94214,94215 1s6yA 450 2.840 c.2.1.5,d.162.1.2 105314,105315 1zh8A 340 3.034 c.2.1.3,d.81.1.5 125077,125078 2nloA 302 3.128 1lsuA 147 3.319 c.2.1.9 74250 1obbA 480 3.443 c.2.1.5,d.162.1.2 86760,86761 1rydA 387 3.489 c.2.1.3,d.81.1.5 118801,118802 1lehA 364 3.543 c.2.1.7,c.58.1.1 30268,33916 2cukA 311 3.576 3c1aA 315 3.743 1j5pA 253 3.851 d.81.1.3,c.2.1.3 71577,83092 2aefA 234 3.871 1vjtA 483 3.881 c.2.1.5,d.162.1.2 100833,100834 3c85A 183 3.954 1npyA 271 4.162 c.2.1.7,c.58.1.5 85995,85996 1c1dA 355 4.168 c.2.1.7,c.58.1.1 30270,33918 1dxyA 333 4.224 c.2.1.4,c.23.12.1 30094,31354 2d59A 144 4.454 c.2.1.8 131266 1qp8A 303 4.504 c.2.1.4,c.23.12.1 30092,31352 1hdoA 206 4.535 c.2.1.2 60965 2i6tA 303 4.725 2g1uA 155 4.978 1nvtA 287 5.177 c.2.1.7,c.58.1.5 86270,86271 1drwA 273 5.401 c.2.1.3,d.81.1.3 30057,39972 1luaA 287 5.952 c.2.1.7,c.58.1.4 78216,78217 1drw 273 6.560 2gptA 523 7.179 2cmdA 312 7.548 c.2.1.5,d.162.1.1 30135,42102 1ez4A 318 7.646 c.2.1.5,d.162.1.1 64917,64918 1a4iA 301 7.686 c.2.1.7,c.58.1.2 30278,33926 1lc0A 294 8.106 c.2.1.3,d.81.1.4 73823,73824 2o7sA 523 8.329 1y81A 138 8.389 c.2.1.8 122731 1vi2A 300 8.958 c.2.1.7,c.58.1.5 100726,100727 1k6xA 352 9.322 c.2.1.2 68238 1qydA 313 9.732 c.2.1.2 96583 2r6jA 318 9.793 1q7bA 244 9.920 c.2.1.2 96026 2exxA 306 9.933 1l7dA 384 10.03 c.2.1.4,c.23.12.2 77774,77775 1qv9A 283 10.75 c.127.1.1 96356 1bdbA 277 10.89 c.2.1.2 29874 1nvmB 312 11.44 c.2.1.3,d.81.1.1 86251,86252 1t2aA 375 11.64 c.2.1.2 99078 1gegA 256 12.22 c.2.1.2 29888 2csuA 457 12.58 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 2eklA 313 13.15 1hxhA 253 13.19 c.2.1.2 76725 1iukA 140 13.36 c.2.1.8 83712 1id1A 153 13.47 c.2.1.9 62286 1n7hA 381 13.64 c.2.1.2 80250 2gasA 307 13.76 1y5mA 276 13.81 c.2.1.2 122645 2ph5A 480 13.84 1ja9A 274 14.24 c.2.1.2 62817 1vknA 351 14.36 c.2.1.3,d.81.1.1 108676,108677 1hdcA 253 14.45 c.2.1.2 29862 1xseA 295 14.60 c.2.1.2 115925 1xq6A 253 15.11 c.2.1.2 115829 1nffA 260 15.32 c.2.1.2 80457 1bdb 277 15.78 1yb1A 272 15.83 c.2.1.2 116599 2ixaA 444 16.22 2gdzA 267 16.41 c.2.1.2 135043 1vl8A 267 16.91 c.2.1.2 108733 1x7gA 261 16.99 c.2.1.2 114929 2a4kA 263 17.00 c.2.1.2 126156 2g17A 337 17.00 c.2.1.3,d.81.1.1 134512,134513 1ydeA 270 17.92 c.2.1.2 122980 1e6wA 260 17.97 c.2.1.2 59326 2q49A 359 18.29 c.2.1.3,d.81.1.1 139831,139832 1xhlA 297 19.18 c.2.1.2 109591 1xu9A 286 19.92 c.2.1.2 116052 2ae2A 260 19.92 c.2.1.2 29945 1spxA 278 20.34 c.2.1.2 98958 1qycA 308 21.83 c.2.1.2 96581 1fmcA 255 21.84 c.2.1.2 29856 2hjsA 340 22.22 c.2.1.3,d.81.1.1 136547,136548 2o23A 265 23.33 c.2.1.2 138884 1b0aA 288 23.54 c.2.1.7,c.58.1.2 30286,33934 2q46A 253 23.56 c.2.1.2 139825 1db3A 372 23.56 c.2.1.2 29813 1xkqA 280 23.71 c.2.1.2 115417 1zemA 262 23.86 c.2.1.2 124984 2nqtA 352 24.26 1w6uA 302 27.19 c.2.1.2 114288 1yxmA 303 27.64 c.2.1.2 124192 1xg5A 279 27.92 c.2.1.2 115277 1k2wA 256 28.09 c.2.1.2 90927 2jahA 247 28.92 3c8mA 331 28.99 2czcA 334 29.83 d.81.1.1 131044 2bmaA 470 30.00 2c07A 285 30.36 c.2.1.2 129577 2z1nA 260 30.59 2pnfA 248 31.52 1wmaA 276 33.59 c.2.1.2 121042 2ph3A 245 34.90 3bioA 304 35.32 1h5qA 265 36.98 c.2.1.2 60643 1zud1 251 37.47 2ag5A 246 37.65 c.2.1.2 126719 1g0oA 283 37.67 c.2.1.2 60181 1n5dA 288 37.94 c.2.1.2 80030 1x1tA 260 38.65 c.2.1.2 121597 1fl2A 310 39.63 c.3.1.5,c.3.1.5 59869,59870 2nxcA 254 40.14 c.66.1.39 138739 1rpnA 335 40.23 c.2.1.2 97708 1iy8A 267 40.81 c.2.1.2 83774 2bgkA 278 40.89 c.2.1.2 128480 2r00A 336 41.66 1uluA 261 42.89 c.2.1.2 113292 1rkxA 357 44.25 c.2.1.2 97631 2pd6A 264 45.69 1scuA 288 46.16 c.2.1.8,c.23.4.1 30307,31135 2bllA 345 46.80 c.2.1.2 128733 1x13A 401 47.04 2gz1A 366 47.85 c.2.1.3,d.81.1.1 135887,135888 1othA 321 48.87 c.78.1.1,c.78.1.1 35260,35261 2bd0A 244 49.69 c.2.1.2 128321 1uufA 369 51.66 b.35.1.2,c.2.1.1 100006,100007 2p4hX 322 51.96 1qsgA 265 52.16 c.2.1.2 29935 2qq5A 260 52.18 1zq9A 285 52.53 c.66.1.24 125505 1sb8A 352 52.65 c.2.1.2 105410 1y1pA 342 52.77 c.2.1.2 122550 2yutA 207 53.89 2ejwA 332 53.96 1q7gA 359 56.13 c.2.1.3,d.81.1.2 96038,96039 1l1eA 287 56.68 c.66.1.18 73454 1zk4A 251 57.69 c.2.1.2 125176 1pvvA 315 58.37 c.78.1.1,c.78.1.1 95190,95191 2cduA 452 59.43 1ve3A 227 60.57 c.66.1.43 120010 1hyuA 521 61.71 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 3cjpA 272 62.78 2nwqA 272 62.81 2bryA 497 63.91 2c29D 337 66.20 2c5aA 379 66.81 c.2.1.2 129894 1e7wA 291 68.10 c.2.1.2 59373 1yqzA 438 68.98 2ew8A 249 69.51 c.2.1.2 132447 1iz0A 302 69.52 b.35.1.2,c.2.1.1 83821,83822 2hq1A 247 69.61 2r0cA 549 70.16 2p91A 285 70.43 1o6zA 303 71.79 c.2.1.5,d.162.1.1 81107,81108 1ys4A 354 74.68 1eny 268 74.75 2bkaA 242 75.23 c.2.1.2 128666 1brmA 367 76.41 c.2.1.3,d.81.1.1 30030,39945 2dt5A 211 76.79 a.4.5.38,c.2.1.12 131708,131709 1xel 338 76.89 1bmdA 327 77.46 c.2.1.5,d.162.1.1 30139,42106 2d1yA 256 78.50 c.2.1.2 131151 2v3aA 384 80.96 2ozpA 345 82.22 2cf5A 357 82.28 1eudA 311 82.77 c.2.1.8,c.23.4.1 30312,31140 5nul 138 83.72 2bzgA 232 84.13 c.66.1.36 129559 1eq2A 310 85.08 c.2.1.2 29814 1pjzA 203 85.93 c.66.1.36 94794 1jtvA 327 88.88 c.2.1.2 84230 2blnA 305 88.99 b.46.1.1,c.65.1.1 128734,128735