# List of top-scoring protein chains for t06-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 1vpdA 299 0.007559 a.100.1.1,c.2.1.6 113951,113952 2ahrA 259 0.01092 a.100.1.10,c.2.1.6 126775,126776 2h78A 302 0.01174 2izzA 322 0.01184 1yqgA 263 0.01222 1np3A 338 0.01417 a.100.1.2,c.2.1.6 85946,85947 2pgd 482 0.01427 1yb4A 295 0.01440 2pgdA 482 0.01508 a.100.1.1,c.2.1.6 18778,30190 2rcyA 262 0.01539 2p4qA 497 0.01554 2dpoA 319 0.01950 2ew2A 316 0.02132 2cvzA 289 0.02548 a.100.1.1,c.2.1.6 130890,130891 3c24A 286 0.02669 1bg6A 359 0.02821 a.100.1.5,c.2.1.6 18810,30214 1ks9A 291 0.03236 a.100.1.7,c.2.1.6 68857,68858 1yrlA 491 0.03508 2g5cA 281 0.03700 a.100.1.12,c.2.1.6 134646,134647 1zcjA 463 0.03783 2f1kA 279 0.04374 a.100.1.12,c.2.1.6 132772,132773 2graA 277 0.04500 1evyA 366 0.04552 a.100.1.6,c.2.1.6 18811,30215 2pv7A 298 0.04616 1qmgA 524 0.04885 a.100.1.2,c.2.1.6 18785,30182 1f0yA 302 0.05292 a.100.1.3,c.2.1.6 18793,30197 2qytA 317 0.06332 1x0vA 354 0.06697 1bg6 359 0.08735 1z82A 335 0.1017 1txgA 335 0.1032 a.100.1.6,c.2.1.6 112775,112776 1zejA 293 0.1078 1i36A 264 0.1182 a.100.1.8,c.2.1.6 71108,71109 2i76A 276 0.1184 1jayA 212 0.1637 c.2.1.6 66478 1mv8A 436 0.1923 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2o3jA 481 0.2258 1qv9A 283 0.3415 c.127.1.1 96356 1dliA 402 0.3512 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1dljA 402 0.3665 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1gdhA 320 0.7068 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.8612 c.2.1.4,c.23.12.1 30088,31348 2axqA 467 0.9303 1j4aA 333 1.185 c.2.1.4,c.23.12.1 71502,71503 2fssA 365 1.198 2dbqA 334 1.284 2j6iA 364 1.310 1xdwA 331 1.335 1wwkA 307 1.369 1dxy 333 1.500 1ygyA 529 1.535 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1li4A 432 1.541 c.2.1.4,c.23.12.3 84616,84617 1mx3A 347 1.559 c.2.1.4,c.23.12.1 79638,79639 1v8bA 479 1.748 c.2.1.4,c.23.12.3 113564,113565 2o4cA 380 1.888 2b0jA 358 1.897 a.100.1.11,c.2.1.6 127639,127640 2pi1A 334 1.935 2cukA 311 2.246 1omoA 322 2.304 c.2.1.13 104017 1dxyA 333 2.317 c.2.1.4,c.23.12.1 30094,31354 1pjcA 361 2.331 c.2.1.4,c.23.12.2 30101,31361 1lssA 140 2.348 c.2.1.9 74246 1gpjA 404 2.353 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2gcgA 330 2.531 2d0iA 333 2.541 1x7dA 350 2.572 c.2.1.13 114927 1qp8A 303 2.585 c.2.1.4,c.23.12.1 30092,31352 1sc6A 404 2.693 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2ewdA 317 2.820 1pzgA 331 3.386 c.2.1.5,d.162.1.1 95425,95426 1guzA 310 3.629 c.2.1.5,d.162.1.1 65586,65587 2g76A 335 3.892 2eklA 313 4.080 1lldA 319 4.187 c.2.1.5,d.162.1.1 30177,42144 2ho3A 325 4.206 1ff9A 450 4.373 c.2.1.3,d.81.1.2 30039,39954 2o4uX 334 4.427 2v7pA 310 4.548 1hyhA 309 4.627 c.2.1.5,d.162.1.1 30150,42117 2vhxA 377 4.674 2q4eA 362 4.717 2vojA 371 4.860 1f06A 320 4.888 c.2.1.3,d.81.1.3 59556,59557 2nvwA 479 5.023 c.2.1.3,d.81.1.5 138665,138666 3ceaA 346 5.048 2dc1A 236 5.075 1uxjA 309 5.275 c.2.1.5,d.162.1.1 108112,108113 2p2sA 336 5.490 1t2dA 322 5.561 c.2.1.5,d.162.1.1 99084,99085 1lsuA 147 5.686 c.2.1.9 74250 1p77A 272 5.739 c.2.1.7,c.58.1.5 94214,94215 2eggA 297 5.891 1xeaA 323 5.939 c.2.1.3,d.81.1.5 109572,109573 2hmvA 144 6.485 c.2.1.9 136615 2i6tA 303 6.638 2hk9A 275 6.677 6ldhA 329 6.722 c.2.1.5,d.162.1.1 30161,42128 1tltA 319 6.898 c.2.1.3,d.81.1.5 107135,107136 2glxA 332 7.080 3bioA 304 7.290 1h6dA 433 8.134 c.2.1.3,d.81.1.5 65656,65657 3c1aA 315 8.271 2nloA 302 8.288 2g17A 337 9.383 c.2.1.3,d.81.1.1 134512,134513 1a5zA 319 9.554 c.2.1.5,d.162.1.1 30181,42148 1x13A 401 9.603 1l7dA 384 9.700 c.2.1.4,c.23.12.2 77774,77775 1nytA 271 9.752 c.2.1.7,c.58.1.5 86417,86418 1u8xX 472 9.815 c.2.1.5,d.162.1.2 107741,107742 1lehA 364 9.837 c.2.1.7,c.58.1.1 30268,33916 2d5cA 263 10.04 1obbA 480 10.32 c.2.1.5,d.162.1.2 86760,86761 1nvmB 312 10.71 c.2.1.3,d.81.1.1 86251,86252 1ez4A 318 10.74 c.2.1.5,d.162.1.1 64917,64918 1rydA 387 11.52 c.2.1.3,d.81.1.5 118801,118802 2r6jA 318 11.82 2aefA 234 12.14 1id1A 153 12.63 c.2.1.9 62286 1zh8A 340 12.69 c.2.1.3,d.81.1.5 125077,125078 1nvtA 287 12.80 c.2.1.7,c.58.1.5 86270,86271 2ejwA 332 13.17 1y1pA 342 13.80 c.2.1.2 122550 1luaA 287 14.30 c.2.1.7,c.58.1.4 78216,78217 1drw 273 14.33 2g1uA 155 15.64 1y81A 138 16.06 c.2.1.8 122731 1vjtA 483 16.19 c.2.1.5,d.162.1.2 100833,100834 1j5pA 253 16.47 d.81.1.3,c.2.1.3 71577,83092 1npyA 271 16.66 c.2.1.7,c.58.1.5 85995,85996 1sb8A 352 16.71 c.2.1.2 105410 1vknA 351 17.18 c.2.1.3,d.81.1.1 108676,108677 1up7A 417 19.30 c.2.1.5,d.162.1.2 113374,113375 1drwA 273 19.73 c.2.1.3,d.81.1.3 30057,39972 2d59A 144 19.89 c.2.1.8 131266 2hjsA 340 20.17 c.2.1.3,d.81.1.1 136547,136548 1fl2A 310 21.06 c.3.1.5,c.3.1.5 59869,59870 1xgkA 352 21.76 c.2.1.2 115286 2q49A 359 22.53 c.2.1.3,d.81.1.1 139831,139832 1yqdA 366 22.69 1nhpA 447 22.73 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1s6yA 450 23.41 c.2.1.5,d.162.1.2 105314,105315 2r00A 336 23.44 1nhsA 447 23.76 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2ixaA 444 23.88 1iukA 140 24.23 c.2.1.8 83712 2cf5A 357 24.61 1xu9A 286 24.98 c.2.1.2 116052 1vi2A 300 26.27 c.2.1.7,c.58.1.5 100726,100727 1lluA 342 26.41 b.35.1.2,c.2.1.1 91064,91065 2gn4A 344 26.44 2q1sA 377 26.71 2gz1A 366 26.88 c.2.1.3,d.81.1.1 135887,135888 1hdoA 206 27.12 c.2.1.2 60965 2nqtA 352 27.19 1c1dA 355 27.40 c.2.1.7,c.58.1.1 30270,33918 1z7bA 358 28.26 c.2.1.2 124599 2c29D 337 28.36 3cc8A 230 28.65 1lc0A 294 28.68 c.2.1.3,d.81.1.4 73823,73824 2ph5A 480 28.93 1ve3A 227 29.12 c.66.1.43 120010 2bllA 345 29.40 c.2.1.2 128733 3c8mA 331 30.64 1uufA 369 30.68 b.35.1.2,c.2.1.1 100006,100007 2pzmA 330 30.86 2b69A 343 31.34 c.2.1.2 127974 2gasA 307 31.47 2exxA 306 31.92 2bkaA 242 31.96 c.2.1.2 128666 1wvgA 359 33.15 c.2.1.2 121339 1yxmA 303 33.54 c.2.1.2 124192 2cmdA 312 34.69 c.2.1.5,d.162.1.1 30135,42102 1i2cA 404 35.57 c.2.1.2 83666 1p91A 269 36.76 c.66.1.33 94378 1oc2A 348 36.77 c.2.1.2 92765 2cmd 312 36.94 2o7sA 523 38.06 1xg5A 279 39.33 c.2.1.2 115277 3cggA 195 40.27 1vj0A 380 40.86 b.35.1.2,c.2.1.1 100786,100787 2cduA 452 40.90 1o6zA 303 42.52 c.2.1.5,d.162.1.1 81107,81108 1kyqA 274 43.19 c.2.1.11,e.37.1.1 73281,73282 1b7gO 340 44.03 c.2.1.3,d.81.1.1 29992,39907 1xtpA 254 45.38 c.66.1.42 116031 1wznA 252 45.78 c.66.1.43 121525 2p5yA 311 46.50 1mldA 314 47.35 c.2.1.5,d.162.1.1 30122,42089 1yovA 537 47.55 c.111.1.2 123785 2czcA 334 48.56 d.81.1.1 131044 2r9zA 463 48.72 1xq6A 253 49.12 c.2.1.2 115829 2r3sA 335 50.29 2p4hX 322 50.86 2gv8A 447 50.93 c.3.1.5,c.3.1.5 135759,135760 1kolA 398 51.17 b.35.1.2,c.2.1.1 77474,77475 2gdzA 267 51.63 c.2.1.2 135043 2fk8A 318 51.85 c.66.1.18 133648 2v3aA 384 52.47 2zbwA 335 52.73 2cdcA 366 52.91 1zmdA 474 53.64 2yyyA 343 53.89 1y8cA 246 54.91 c.66.1.43 116563 2nxcA 254 54.95 c.66.1.39 138739 1vl5A 260 55.18 c.66.1.41 108720 2hrzA 342 56.57 2hcyA 347 56.87 1f8fA 371 57.36 b.35.1.2,c.2.1.1 83246,83247 1rkxA 357 57.37 c.2.1.2 97631 1ri5A 298 57.52 c.66.1.34 97502 1lvlA 458 57.61 c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 2h6eA 344 57.72 1zk7A 467 58.02 1jw9B 249 58.06 c.111.1.1 67377 1ebfA 358 58.30 c.2.1.3,d.81.1.2 30033,39948 1xvaA 292 58.39 c.66.1.5 34183 2d8aA 348 59.14 2b9eA 303 61.16 c.66.1.38 128124 2z1mA 345 61.51 1w6uA 302 62.04 c.2.1.2 114288 1ys4A 354 62.31 2ex4A 241 62.46 c.66.1.42 132516 1orrA 347 62.96 c.2.1.2 93460 1l1eA 287 63.42 c.66.1.18 73454 2o57A 297 64.71 2q46A 253 66.56 c.2.1.2 139825 2gpyA 233 66.87 1oi7A 288 67.14 c.2.1.8,c.23.4.1 87049,87050 3c85A 183 67.19 3grs 478 67.35 1yb1A 272 67.43 c.2.1.2 116599 2j3hA 345 67.53 1pl8A 356 67.61 b.35.1.2,c.2.1.1 94878,94879 3ladA 476 68.27 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1y5mA 276 68.27 c.2.1.2 122645 1q1rA 431 68.63 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1ps9A 671 68.65 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 3grsA 478 68.96 c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1yqzA 438 69.92 2p35A 259 70.01 2a35A 215 70.10 c.2.1.2 126072 1a4iA 301 70.94 c.2.1.7,c.58.1.2 30278,33926 1duvG 333 71.00 c.78.1.1,c.78.1.1 35228,35229 2p8jA 209 71.21 2ozpA 345 72.09 1trb 320 72.19 1dl5A 317 72.38 c.66.1.7,d.197.1.1 64720,64721 1fp1D 372 72.40 a.4.5.29,c.66.1.12 59939,59940 1hyeA 313 72.43 c.2.1.5,d.162.1.1 61400,61401 2jahA 247 73.49 2gb4A 252 74.00 2gqwA 408 74.93 1xxlA 239 74.94 c.66.1.41 116203 1trbA 320 75.23 c.3.1.5,c.3.1.5 30529,30530 1y8qA 346 75.40 2pd6A 264 75.51 2dm6A 333 75.87 b.35.1.2,c.2.1.1 131567,131568 2eihA 343 75.90 2z1nA 260 76.37 2q0lA 311 76.44 1wmaA 276 76.62 c.2.1.2 121042 1t2aA 375 77.18 c.2.1.2 99078 1zmoA 244 77.57 2dwcA 433 77.96 2aotA 292 78.26 c.66.1.19 127098 1zbqA 327 78.30 c.2.1.2 124862 1sbyA 254 78.64 c.2.1.2 118930 1hxhA 253 80.21 c.2.1.2 76725 2pk3A 321 81.26 1fmcA 255 81.33 c.2.1.2 29856 1gteA 1025 81.80 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 1uirA 314 83.84 c.66.1.17 99429 1hdcA 253 85.71 c.2.1.2 29862 2blnA 305 85.82 b.46.1.1,c.65.1.1 128734,128735 1tw3A 360 88.02 a.4.5.29,c.66.1.12 107373,107374 1p0fA 373 88.02 b.35.1.2,c.2.1.1 87642,87643 1k2wA 256 88.55 c.2.1.2 90927 1z45A 699 88.90 b.30.5.4,c.2.1.2 124427,124428 1qorA 327 89.43 b.35.1.2,c.2.1.1 24766,29782 1q7gA 359 89.89 c.2.1.3,d.81.1.2 96038,96039