# List of top-scoring protein chains for t04-w0.5-1-o_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 1yb4A 295 1.74e-12 2h78A 302 2.05e-12 1vpdA 299 1.44e-11 a.100.1.1,c.2.1.6 113951,113952 2i76A 276 1.47e-11 2rcyA 262 1.58e-11 2ahrA 259 1.86e-11 a.100.1.10,c.2.1.6 126775,126776 2izzA 322 4.41e-11 1yqgA 263 9.31e-11 2f1kA 279 9.44e-11 a.100.1.12,c.2.1.6 132772,132773 2pgdA 482 1.45e-10 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 2.30e-10 2cvzA 289 2.63e-10 a.100.1.1,c.2.1.6 130890,130891 2g5cA 281 3.51e-10 a.100.1.12,c.2.1.6 134646,134647 2graA 277 4.46e-10 2pv7A 298 7.21e-10 1np3A 338 1.79e-09 a.100.1.2,c.2.1.6 85946,85947 1pgjA 478 3.19e-09 a.100.1.1,c.2.1.6 18783,30195 2pgd 482 5.31e-09 3c24A 286 1.59e-08 1i36A 264 5.09e-08 a.100.1.8,c.2.1.6 71108,71109 1bg6 359 9.00e-08 1txgA 335 1.19e-07 a.100.1.6,c.2.1.6 112775,112776 1ks9A 291 1.26e-07 a.100.1.7,c.2.1.6 68857,68858 1yrlA 491 3.26e-07 2ew2A 316 3.76e-07 1qmgA 524 5.29e-07 a.100.1.2,c.2.1.6 18785,30182 1evyA 366 5.32e-07 a.100.1.6,c.2.1.6 18811,30215 1zejA 293 5.72e-07 2o3jA 481 2.15e-06 1dljA 402 3.41e-06 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1f0yA 302 3.81e-06 a.100.1.3,c.2.1.6 18793,30197 1mv8A 436 4.40e-06 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1z82A 335 8.13e-06 1dliA 402 1.25e-05 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1zcjA 463 6.21e-05 1jayA 212 7.41e-05 c.2.1.6 66478 1bg6A 359 0.000727 a.100.1.5,c.2.1.6 18810,30214 2dpoA 319 0.001937 1ff9A 450 0.002599 c.2.1.3,d.81.1.2 30039,39954 1x0vA 354 0.004698 2qytA 317 0.008587 1gdhA 320 0.01180 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.01563 c.2.1.4,c.23.12.1 30088,31348 1u8xX 472 0.02623 c.2.1.5,d.162.1.2 107741,107742 1tltA 319 0.02945 c.2.1.3,d.81.1.5 107135,107136 1mx3A 347 0.03211 c.2.1.4,c.23.12.1 79638,79639 1t2dA 322 0.03801 c.2.1.5,d.162.1.1 99084,99085 2b0jA 358 0.04172 a.100.1.11,c.2.1.6 127639,127640 1gpjA 404 0.04731 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1li4A 432 0.05151 c.2.1.4,c.23.12.3 84616,84617 2fssA 365 0.05288 1wwkA 307 0.05326 1ldg 316 0.05995 1uxjA 309 0.06946 c.2.1.5,d.162.1.1 108112,108113 1j4aA 333 0.07270 c.2.1.4,c.23.12.1 71502,71503 1d4fA 431 0.07435 c.2.1.4,c.23.12.3 30110,31370 1up6A 416 0.07442 c.2.1.5,d.162.1.2 107976,107977 1ur5A 309 0.07586 c.2.1.5,d.162.1.1 99807,99808 1lldA 319 0.08753 c.2.1.5,d.162.1.1 30177,42144 1xwfA 431 0.08783 c.2.1.4,c.23.12.3 122392,122393 1v8bA 479 0.09602 c.2.1.4,c.23.12.3 113564,113565 1lssA 140 0.09684 c.2.1.9 74246 1xdwA 331 0.1008 2j6iA 364 0.1032 2hk9A 275 0.1155 1pzgA 331 0.1157 c.2.1.5,d.162.1.1 95425,95426 2g76A 335 0.1163 1psdA 409 0.1217 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1omoA 322 0.1300 c.2.1.13 104017 1vllA 334 0.1478 c.2.1.13 108834 1sc6A 404 0.1832 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1x7dA 350 0.1944 c.2.1.13 114927 1dxy 333 0.2002 1xeaA 323 0.2036 c.2.1.3,d.81.1.5 109572,109573 2dbqA 334 0.2506 1up7A 417 0.3036 c.2.1.5,d.162.1.2 113374,113375 2d0iA 333 0.3301 2o4cA 380 0.4238 2pi1A 334 0.4799 2ewdA 317 0.5028 1nytA 271 0.5610 c.2.1.7,c.58.1.5 86417,86418 1s6yA 450 0.5684 c.2.1.5,d.162.1.2 105314,105315 1hyhA 309 0.6142 c.2.1.5,d.162.1.1 30150,42117 2d5cA 263 0.6622 1obbA 480 0.7715 c.2.1.5,d.162.1.2 86760,86761 1ygyA 529 0.8099 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1guzA 310 0.8511 c.2.1.5,d.162.1.1 65586,65587 1vjtA 483 0.8737 c.2.1.5,d.162.1.2 100833,100834 2vhxA 377 0.9168 1qv9A 283 0.9543 c.127.1.1 96356 2axqA 467 1.002 6ldhA 329 1.005 c.2.1.5,d.162.1.1 30161,42128 2nvwA 479 1.057 c.2.1.3,d.81.1.5 138665,138666 2i6tA 303 1.192 1f06A 320 1.192 c.2.1.3,d.81.1.3 59556,59557 2hmvA 144 1.221 c.2.1.9 136615 2eggA 297 1.242 2aefA 234 1.436 1qp8A 303 1.447 c.2.1.4,c.23.12.1 30092,31352 1dxyA 333 1.474 c.2.1.4,c.23.12.1 30094,31354 1npyA 271 1.476 c.2.1.7,c.58.1.5 85995,85996 2nloA 302 1.588 1a5zA 319 1.616 c.2.1.5,d.162.1.1 30181,42148 2gcgA 330 1.688 3c85A 183 1.827 2v7pA 310 1.898 1pjcA 361 1.914 c.2.1.4,c.23.12.2 30101,31361 2d59A 144 1.918 c.2.1.8 131266 1gcuA 295 2.020 c.2.1.3,d.81.1.4 30063,39978 1lehA 364 2.107 c.2.1.7,c.58.1.1 30268,33916 1nvtA 287 2.231 c.2.1.7,c.58.1.5 86270,86271 1c1dA 355 2.408 c.2.1.7,c.58.1.1 30270,33918 1p77A 272 2.564 c.2.1.7,c.58.1.5 94214,94215 2vojA 371 2.577 2g1uA 155 2.611 1lsuA 147 3.273 c.2.1.9 74250 2dc1A 236 3.519 2ho3A 325 3.654 2glxA 332 3.916 2gptA 523 3.923 1hdoA 206 4.346 c.2.1.2 60965 1ez4A 318 4.535 c.2.1.5,d.162.1.1 64917,64918 2cukA 311 4.648 1y81A 138 5.055 c.2.1.8 122731 2o7sA 523 5.214 1ofgA 381 5.690 c.2.1.3,d.81.1.5 30064,39979 3ceaA 346 6.338 1a4iA 301 6.431 c.2.1.7,c.58.1.2 30278,33926 1iukA 140 6.481 c.2.1.8 83712 2csuA 457 6.738 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1luaA 287 6.739 c.2.1.7,c.58.1.4 78216,78217 2cmdA 312 7.887 c.2.1.5,d.162.1.1 30135,42102 3c1aA 315 8.466 1j5pA 253 9.923 d.81.1.3,c.2.1.3 71577,83092 1vknA 351 10.34 c.2.1.3,d.81.1.1 108676,108677 1lc0A 294 10.80 c.2.1.3,d.81.1.4 73823,73824 1h6dA 433 10.99 c.2.1.3,d.81.1.5 65656,65657 2p2sA 336 10.99 1n7hA 381 11.12 c.2.1.2 80250 1nvmB 312 11.21 c.2.1.3,d.81.1.1 86251,86252 2z1nA 260 12.06 2czcA 334 12.94 d.81.1.1 131044 2ph5A 480 12.98 1qydA 313 13.13 c.2.1.2 96583 2exxA 306 14.84 1l7dA 384 14.92 c.2.1.4,c.23.12.2 77774,77775 2hjsA 340 14.97 c.2.1.3,d.81.1.1 136547,136548 2yx0A 342 14.99 1id1A 153 15.04 c.2.1.9 62286 1db3A 372 15.15 c.2.1.2 29813 1rydA 387 15.35 c.2.1.3,d.81.1.5 118801,118802 2a4kA 263 15.39 c.2.1.2 126156 1vi2A 300 15.40 c.2.1.7,c.58.1.5 100726,100727 1k2wA 256 15.63 c.2.1.2 90927 1orrA 347 16.54 c.2.1.2 93460 1gegA 256 17.02 c.2.1.2 29888 1scuA 288 17.43 c.2.1.8,c.23.4.1 30307,31135 1zh8A 340 17.97 c.2.1.3,d.81.1.5 125077,125078 1xseA 295 18.03 c.2.1.2 115925 1xq6A 253 18.26 c.2.1.2 115829 1k6xA 352 18.71 c.2.1.2 68238 1e3jA 352 18.76 b.35.1.2,c.2.1.1 24765,29781 1xhlA 297 19.00 c.2.1.2 109591 2nqtA 352 19.61 2v3aA 384 19.99 1xkqA 280 20.25 c.2.1.2 115417 1t2aA 375 20.57 c.2.1.2 99078 1xcbA 211 22.16 a.4.5.38,c.2.1.12 109552,109553 2o23A 265 22.25 c.2.1.2 138884 2pd6A 264 22.66 1q7bA 244 22.95 c.2.1.2 96026 1hxhA 253 23.00 c.2.1.2 76725 1drw 273 23.17 2q4eA 362 23.49 1x7gA 261 23.70 c.2.1.2 114929 1b0aA 288 24.07 c.2.1.7,c.58.1.2 30286,33934 2gz1A 366 24.29 c.2.1.3,d.81.1.1 135887,135888 1nffA 260 25.43 c.2.1.2 80457 2o4uX 334 25.80 2dt5A 211 25.94 a.4.5.38,c.2.1.12 131708,131709 1ydeA 270 26.75 c.2.1.2 122980 1w6uA 302 28.00 c.2.1.2 114288 2g17A 337 28.68 c.2.1.3,d.81.1.1 134512,134513 1e6wA 260 29.04 c.2.1.2 59326 1fmcA 255 29.59 c.2.1.2 29856 2r6jA 318 30.74 1jw9B 249 30.84 c.111.1.1 67377 1b16A 254 31.14 c.2.1.2 29875 2jahA 247 31.24 1xgkA 352 31.77 c.2.1.2 115286 1l1eA 287 32.06 c.66.1.18 73454 1hdcA 253 32.24 c.2.1.2 29862 1bxkA 355 32.70 c.2.1.2 29803 1pl8A 356 33.10 b.35.1.2,c.2.1.1 94878,94879 1ja9A 274 34.17 c.2.1.2 62817 1rkxA 357 34.40 c.2.1.2 97631 2gasA 307 34.52 1spxA 278 34.86 c.2.1.2 98958 1zk4A 251 35.01 c.2.1.2 125176 1vl8A 267 35.20 c.2.1.2 108733 2ixaA 444 36.11 2gdzA 267 36.78 c.2.1.2 135043 1uufA 369 36.86 b.35.1.2,c.2.1.1 100006,100007 1xg5A 279 36.90 c.2.1.2 115277 2eklA 313 36.96 1drwA 273 37.17 c.2.1.3,d.81.1.3 30057,39972 2pnfA 248 37.34 1zmtA 254 37.50 c.2.1.2 125363 2ozpA 345 37.73 2r00A 336 38.11 1hyuA 521 39.44 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2hsjA 214 40.27 1e7wA 291 41.08 c.2.1.2 59373 2c5aA 379 41.29 c.2.1.2 129894 5nul 138 41.31 2cfcA 250 43.63 2a9fA 398 44.89 1sb8A 352 46.42 c.2.1.2 105410 1kewA 361 48.46 c.2.1.2 68544 2q46A 253 49.27 c.2.1.2 139825 1rpnA 335 49.38 c.2.1.2 97708 2p4hX 322 49.46 2bryA 497 49.60 1bdbA 277 50.42 c.2.1.2 29874 2ph3A 245 50.89 1fl2A 310 51.00 c.3.1.5,c.3.1.5 59869,59870 1yxmA 303 51.29 c.2.1.2 124192 1zd8A 227 51.65 3bioA 304 52.60 1m1nB 522 52.88 c.92.2.3 78418 1pwxA 254 53.79 c.2.1.2 95262 2ag5A 246 55.05 c.2.1.2 126719 1hwxA 501 55.14 c.2.1.7,c.58.1.1 30250,33898 1qycA 308 55.35 c.2.1.2 96581 1k7cA 233 55.83 c.23.10.4 68267 1zud1 251 55.86 2nwqA 272 55.89 1sbyA 254 55.92 c.2.1.2 118930 2b69A 343 57.38 c.2.1.2 127974 1zmdA 474 57.39 2fdxA 138 58.10 c.23.5.1 31192 1yqzA 438 58.92 1l9cA 389 59.30 c.3.1.2,d.16.1.3 77815,77816 2jhfA 374 59.74 b.35.1.2,c.2.1.1 138314,138315 1nhp 447 61.01 2qa1A 500 62.13 1cf2O 337 64.05 c.2.1.3,d.81.1.1 29994,39909 1in4A 334 64.51 a.4.5.11,c.37.1.20 62597,62598 1xhcA 367 65.56 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 2q49A 359 66.11 c.2.1.3,d.81.1.1 139831,139832 2c07A 285 66.99 c.2.1.2 129577 2blnA 305 67.20 b.46.1.1,c.65.1.1 128734,128735 1yovA 537 67.79 c.111.1.2 123785 1y1pA 342 68.45 c.2.1.2 122550 2nqrA 411 69.30 b.85.6.1,b.103.1.1,c.57.1.2 138490,138491,138492 1x13A 401 69.52 1yb2A 275 69.62 c.66.1.13 122868 1vj0A 380 70.77 b.35.1.2,c.2.1.1 100786,100787 1xu9A 286 71.35 c.2.1.2 116052 2bzgA 232 72.25 c.66.1.36 129559 1i2cA 404 72.96 c.2.1.2 83666 2p91A 285 74.64 1kpgA 287 75.75 c.66.1.18 68735 2yutA 207 77.19 1cydA 244 78.24 c.2.1.2 29825 1oi7A 288 78.96 c.2.1.8,c.23.4.1 87049,87050 2bgkA 278 79.08 c.2.1.2 128480 2c29D 337 79.71 2pwyA 258 79.99 2cmgA 262 80.14 1vqwA 457 80.78 c.3.1.5,c.3.1.5 114028,114029 1x1eA 239 81.10 2r0cA 549 82.14 2gf3A 389 82.67 c.3.1.2,d.16.1.3 135070,135071 2gqwA 408 84.00 3grs 478 84.84 1oc2A 348 85.78 c.2.1.2 92765 1xviA 275 86.41 c.108.1.10 116088 1zq9A 285 88.61 c.66.1.24 125505 2nxcA 254 89.04 c.66.1.39 138739 1eq2A 310 89.22 c.2.1.2 29814