# List of top-scoring protein chains for t04-w0.5-1-str2-0.1-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 1.73e-05 2f1kA 279 1.74e-05 a.100.1.12,c.2.1.6 132772,132773 1yb4A 295 2.00e-05 1vpdA 299 2.22e-05 a.100.1.1,c.2.1.6 113951,113952 2ahrA 259 2.24e-05 a.100.1.10,c.2.1.6 126775,126776 2g5cA 281 2.39e-05 a.100.1.12,c.2.1.6 134646,134647 2izzA 322 3.00e-05 1np3A 338 3.66e-05 a.100.1.2,c.2.1.6 85946,85947 2pgdA 482 5.03e-05 a.100.1.1,c.2.1.6 18778,30190 1yqgA 263 5.77e-05 2p4qA 497 5.99e-05 2pv7A 298 7.35e-05 1bg6 359 7.78e-05 2graA 277 8.64e-05 2cvzA 289 8.82e-05 a.100.1.1,c.2.1.6 130890,130891 1qmgA 524 9.66e-05 a.100.1.2,c.2.1.6 18785,30182 1pgjA 478 0.000106 a.100.1.1,c.2.1.6 18783,30195 3c24A 286 0.000126 1yrlA 491 0.000213 2pgd 482 0.000221 1ks9A 291 0.000271 a.100.1.7,c.2.1.6 68857,68858 2rcyA 262 0.000282 2ew2A 316 0.000310 2i76A 276 0.000446 1zejA 293 0.000508 1evyA 366 0.000589 a.100.1.6,c.2.1.6 18811,30215 1txgA 335 0.000647 a.100.1.6,c.2.1.6 112775,112776 1f0yA 302 0.000661 a.100.1.3,c.2.1.6 18793,30197 1i36A 264 0.001226 a.100.1.8,c.2.1.6 71108,71109 1jayA 212 0.001742 c.2.1.6 66478 1zcjA 463 0.001958 1z82A 335 0.002125 1mv8A 436 0.004057 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1bg6A 359 0.004950 a.100.1.5,c.2.1.6 18810,30214 1dljA 402 0.008515 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2o3jA 481 0.01253 2dpoA 319 0.01448 1dliA 402 0.01761 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2qytA 317 0.02927 1ff9A 450 0.02987 c.2.1.3,d.81.1.2 30039,39954 1x0vA 354 0.03285 1gdhA 320 0.05775 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.05783 c.2.1.4,c.23.12.1 30088,31348 2fssA 365 0.08332 1u8xX 472 0.08477 c.2.1.5,d.162.1.2 107741,107742 1ldg 316 0.1178 2j6iA 364 0.1210 1psdA 409 0.1360 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1s6yA 450 0.1481 c.2.1.5,d.162.1.2 105314,105315 1vllA 334 0.1498 c.2.1.13 108834 1uxjA 309 0.1595 c.2.1.5,d.162.1.1 108112,108113 1tltA 319 0.1602 c.2.1.3,d.81.1.5 107135,107136 1t2dA 322 0.1839 c.2.1.5,d.162.1.1 99084,99085 1wwkA 307 0.1945 1gpjA 404 0.1956 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2hk9A 275 0.2189 1pzgA 331 0.2199 c.2.1.5,d.162.1.1 95425,95426 2g76A 335 0.2221 1ur5A 309 0.2353 c.2.1.5,d.162.1.1 99807,99808 1j4aA 333 0.2368 c.2.1.4,c.23.12.1 71502,71503 1mx3A 347 0.2384 c.2.1.4,c.23.12.1 79638,79639 1xdwA 331 0.2552 2o4cA 380 0.2681 1x7dA 350 0.2720 c.2.1.13 114927 1omoA 322 0.2806 c.2.1.13 104017 1lldA 319 0.3337 c.2.1.5,d.162.1.1 30177,42144 1qv9A 283 0.3352 c.127.1.1 96356 1xwfA 431 0.3361 c.2.1.4,c.23.12.3 122392,122393 1lssA 140 0.3799 c.2.1.9 74246 1d4fA 431 0.3814 c.2.1.4,c.23.12.3 30110,31370 1dxy 333 0.4226 2b0jA 358 0.4305 a.100.1.11,c.2.1.6 127639,127640 2d0iA 333 0.4821 1up6A 416 0.4915 c.2.1.5,d.162.1.2 107976,107977 1xeaA 323 0.4991 c.2.1.3,d.81.1.5 109572,109573 1qp8A 303 0.5000 c.2.1.4,c.23.12.1 30092,31352 1obbA 480 0.5017 c.2.1.5,d.162.1.2 86760,86761 2dbqA 334 0.5249 1li4A 432 0.5260 c.2.1.4,c.23.12.3 84616,84617 2i6tA 303 0.6049 1v8bA 479 0.6759 c.2.1.4,c.23.12.3 113564,113565 2pi1A 334 0.7060 1guzA 310 0.7123 c.2.1.5,d.162.1.1 65586,65587 1ygyA 529 0.8072 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2eggA 297 0.8174 2ewdA 317 0.8645 6ldhA 329 0.8667 c.2.1.5,d.162.1.1 30161,42128 2d5cA 263 0.8722 1hyhA 309 0.8917 c.2.1.5,d.162.1.1 30150,42117 1up7A 417 0.8939 c.2.1.5,d.162.1.2 113374,113375 1sc6A 404 0.9011 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2cukA 311 0.9317 1nytA 271 0.9508 c.2.1.7,c.58.1.5 86417,86418 2gcgA 330 0.9805 2vhxA 377 0.9886 1vjtA 483 0.997 c.2.1.5,d.162.1.2 100833,100834 2eklA 313 1.026 1dxyA 333 1.095 c.2.1.4,c.23.12.1 30094,31354 1f06A 320 1.201 c.2.1.3,d.81.1.3 59556,59557 2nvwA 479 1.580 c.2.1.3,d.81.1.5 138665,138666 2nloA 302 1.746 1p77A 272 1.762 c.2.1.7,c.58.1.5 94214,94215 1pjcA 361 1.881 c.2.1.4,c.23.12.2 30101,31361 1npyA 271 1.933 c.2.1.7,c.58.1.5 85995,85996 3ceaA 346 2.109 1lehA 364 2.158 c.2.1.7,c.58.1.1 30268,33916 1vknA 351 2.165 c.2.1.3,d.81.1.1 108676,108677 1nvtA 287 2.194 c.2.1.7,c.58.1.5 86270,86271 1ez4A 318 2.358 c.2.1.5,d.162.1.1 64917,64918 1a5zA 319 2.434 c.2.1.5,d.162.1.1 30181,42148 1gcuA 295 2.492 c.2.1.3,d.81.1.4 30063,39978 2axqA 467 2.509 2ho3A 325 2.584 2v7pA 310 2.629 2glxA 332 2.665 2d59A 144 2.846 c.2.1.8 131266 1iukA 140 3.516 c.2.1.8 83712 2q4eA 362 3.660 2vojA 371 3.976 1lsuA 147 3.978 c.2.1.9 74250 1hdoA 206 4.141 c.2.1.2 60965 2aefA 234 4.341 1ofgA 381 4.357 c.2.1.3,d.81.1.5 30064,39979 1y81A 138 4.492 c.2.1.8 122731 2g17A 337 4.566 c.2.1.3,d.81.1.1 134512,134513 1qydA 313 4.577 c.2.1.2 96583 2dc1A 236 4.683 3bioA 304 4.798 2p2sA 336 5.249 2hjsA 340 5.271 c.2.1.3,d.81.1.1 136547,136548 1a4iA 301 5.312 c.2.1.7,c.58.1.2 30278,33926 2hmvA 144 5.360 c.2.1.9 136615 1c1dA 355 5.421 c.2.1.7,c.58.1.1 30270,33918 1nvmB 312 5.457 c.2.1.3,d.81.1.1 86251,86252 1h6dA 433 5.644 c.2.1.3,d.81.1.5 65656,65657 2nqtA 352 5.656 1l7dA 384 5.984 c.2.1.4,c.23.12.2 77774,77775 1vi2A 300 6.365 c.2.1.7,c.58.1.5 100726,100727 1j5pA 253 6.417 d.81.1.3,c.2.1.3 71577,83092 2cmdA 312 6.494 c.2.1.5,d.162.1.1 30135,42102 3c1aA 315 6.517 1k6xA 352 7.007 c.2.1.2 68238 1cf2O 337 7.117 c.2.1.3,d.81.1.1 29994,39909 2gptA 523 7.272 2g1uA 155 7.309 3c85A 183 7.333 1xq6A 253 7.665 c.2.1.2 115829 1scuA 288 7.981 c.2.1.8,c.23.4.1 30307,31135 1zh8A 340 8.025 c.2.1.3,d.81.1.5 125077,125078 2gz1A 366 8.150 c.2.1.3,d.81.1.1 135887,135888 2r00A 336 8.689 1drwA 273 9.106 c.2.1.3,d.81.1.3 30057,39972 2o7sA 523 9.173 1yqdA 366 9.804 2exxA 306 10.55 1xgkA 352 10.63 c.2.1.2 115286 2o4uX 334 10.76 1lc0A 294 12.04 c.2.1.3,d.81.1.4 73823,73824 1rydA 387 12.86 c.2.1.3,d.81.1.5 118801,118802 2ozpA 345 12.92 1x13A 401 12.96 1ys4A 354 13.10 1drw 273 13.96 2ph5A 480 14.34 2csuA 457 14.97 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 2q49A 359 15.43 c.2.1.3,d.81.1.1 139831,139832 1uufA 369 15.48 b.35.1.2,c.2.1.1 100006,100007 2ixaA 444 15.72 2czcA 334 15.79 d.81.1.1 131044 2a4kA 263 15.82 c.2.1.2 126156 1hwxA 501 17.39 c.2.1.7,c.58.1.1 30250,33898 2r6jA 318 17.59 2cf5A 357 17.87 2cdcA 366 18.80 2z1nA 260 21.17 1luaA 287 21.26 c.2.1.7,c.58.1.4 78216,78217 1k2wA 256 21.56 c.2.1.2 90927 1othA 321 22.07 c.78.1.1,c.78.1.1 35260,35261 1qycA 308 22.20 c.2.1.2 96581 2bryA 497 24.09 1b0aA 288 24.55 c.2.1.7,c.58.1.2 30286,33934 2gasA 307 25.08 1pl8A 356 25.21 b.35.1.2,c.2.1.1 94878,94879 1o6zA 303 26.21 c.2.1.5,d.162.1.1 81107,81108 1xhlA 297 27.54 c.2.1.2 109591 1x7gA 261 28.00 c.2.1.2 114929 1b7gO 340 28.36 c.2.1.3,d.81.1.1 29992,39907 1e7wA 291 28.41 c.2.1.2 59373 1ydeA 270 29.32 c.2.1.2 122980 1orrA 347 31.58 c.2.1.2 93460 1e3jA 352 31.74 b.35.1.2,c.2.1.1 24765,29781 2jfgA 445 31.97 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 2h6eA 344 32.95 1sb8A 352 33.29 c.2.1.2 105410 1zq9A 285 34.42 c.66.1.24 125505 2jahA 247 34.95 1xseA 295 36.32 c.2.1.2 115925 2b5wA 357 37.47 2h1rA 299 38.03 1yxmA 303 38.25 c.2.1.2 124192 1q7gA 359 38.44 c.2.1.3,d.81.1.2 96038,96039 1bdbA 277 38.83 c.2.1.2 29874 1yb1A 272 39.64 c.2.1.2 116599 1xkqA 280 40.33 c.2.1.2 115417 2nxcA 254 40.50 c.66.1.39 138739 1y1pA 342 40.56 c.2.1.2 122550 1cydA 244 40.81 c.2.1.2 29825 2pd6A 264 40.98 1pvvA 315 41.44 c.78.1.1,c.78.1.1 95190,95191 1n7hA 381 41.45 c.2.1.2 80250 1w6uA 302 41.62 c.2.1.2 114288 2v3aA 384 42.09 1vl6A 388 42.27 c.2.1.7,c.58.1.3 108724,108725 2qa1A 500 42.47 2c29D 337 42.65 1pbeA 394 42.85 c.3.1.2,d.16.1.2 30338,37869 1y5mA 276 43.20 c.2.1.2 122645 2nwqA 272 43.90 1gegA 256 44.01 c.2.1.2 29888 1spxA 278 44.27 c.2.1.2 98958 1fmcA 255 44.32 c.2.1.2 29856 1zmtA 254 44.85 c.2.1.2 125363 1vj0A 380 45.20 b.35.1.2,c.2.1.1 100786,100787 1vl8A 267 46.11 c.2.1.2 108733 1fl2A 310 46.22 c.3.1.5,c.3.1.5 59869,59870 2ejwA 332 46.81 1zk4A 251 46.98 c.2.1.2 125176 2q46A 253 47.00 c.2.1.2 139825 1qyrA 252 47.38 c.66.1.24 104657 1y56B 382 47.82 1b16A 254 48.54 c.2.1.2 29875 1eudA 311 48.76 c.2.1.8,c.23.4.1 30312,31140 1pwxA 254 48.78 c.2.1.2 95262 1lluA 342 49.29 b.35.1.2,c.2.1.1 91064,91065 2yyyA 343 50.08 2bkaA 242 50.38 c.2.1.2 128666 1zmdA 474 50.89 2r0cA 549 51.36 2cmd 312 51.93 2bgkA 278 51.96 c.2.1.2 128480 1zud1 251 52.17 1ja9A 274 53.38 c.2.1.2 62817 2hcyA 347 54.26 1q7bA 244 54.68 c.2.1.2 96026 1xhcA 367 55.18 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 2b69A 343 55.29 c.2.1.2 127974 2o23A 265 55.79 c.2.1.2 138884 1nffA 260 56.46 c.2.1.2 80457 1d7yA 408 56.47 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 2ph3A 245 56.60 1y9aA 360 57.03 1kyqA 274 57.70 c.2.1.11,e.37.1.1 73281,73282 1xu9A 286 57.84 c.2.1.2 116052 1qrrA 394 58.14 c.2.1.2 29824 1nhp 447 58.32 1n8kA 374 58.42 b.35.1.2,c.2.1.1 80298,80299 1hxhA 253 59.00 c.2.1.2 76725 2a9fA 398 59.60 1gesA 450 59.71 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1t2aA 375 59.75 c.2.1.2 99078 3cc8A 230 60.32 1hdcA 253 60.34 c.2.1.2 29862 2g82A 331 60.65 c.2.1.3,d.81.1.1 134746,134747 1db3A 372 60.97 c.2.1.2 29813 1vm6A 228 61.05 d.81.1.3,c.2.1.3 108877,118631 1yqzA 438 61.32 1gtmA 419 61.73 c.2.1.7,c.58.1.1 30223,33871 2gdzA 267 62.19 c.2.1.2 135043 1f8fA 371 62.71 b.35.1.2,c.2.1.1 83246,83247 1bmdA 327 62.73 c.2.1.5,d.162.1.1 30139,42106 2yutA 207 63.25 3grs 478 63.31 2cduA 452 64.31 2pnfA 248 64.36 1zd8A 227 64.60 2p5yA 311 64.72 1l1eA 287 64.92 c.66.1.18 73454 2ekpA 239 65.17 2z5lA 511 65.42 1q1rA 431 65.84 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 3bxoA 239 66.19 1rkxA 357 66.38 c.2.1.2 97631 2bzgA 232 67.46 c.66.1.36 129559 1i24A 404 68.84 c.2.1.2 83663 1jw9B 249 70.07 c.111.1.1 67377 1e6wA 260 70.41 c.2.1.2 59326 1iz0A 302 71.14 b.35.1.2,c.2.1.1 83821,83822 2d8aA 348 71.72 1zemA 262 71.76 c.2.1.2 124984 1h5qA 265 72.42 c.2.1.2 60643 1x1tA 260 73.25 c.2.1.2 121597 2ag5A 246 74.72 c.2.1.2 126719 1dssG 333 74.74 c.2.1.3,d.81.1.1 30022,39937 1pjqA 457 74.87 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2avnA 260 74.98 c.66.1.41 127380 3c4aA 381 76.28 1dv2A 452 77.54 b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1hyuA 521 77.63 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1y8cA 246 77.96 c.66.1.43 116563 1l9cA 389 78.55 c.3.1.2,d.16.1.3 77815,77816 2gf3A 389 78.66 c.3.1.2,d.16.1.3 135070,135071 1duvG 333 78.94 c.78.1.1,c.78.1.1 35228,35229 1xcbA 211 79.19 a.4.5.38,c.2.1.12 109552,109553 1jqbA 351 79.54 b.35.1.2,c.2.1.1 77151,77152 1wznA 252 79.67 c.66.1.43 121525 2fk8A 318 80.78 c.66.1.18 133648 1zk7A 467 80.86 2jaeA 489 81.20 2gqwA 408 81.40 1mo9A 523 82.16 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1trb 320 83.05 1kevA 351 86.20 b.35.1.2,c.2.1.1 24749,29765 1eny 268 86.28 1ve3A 227 86.39 c.66.1.43 120010 1mldA 314 87.71 c.2.1.5,d.162.1.1 30122,42089 2c5aA 379 88.83 c.2.1.2 129894 2dwcA 433 89.34 2c7pA 327 89.90 c.66.1.26 130080