# List of top-scoring protein chains for t06-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 1vpdA 299 0.003890 a.100.1.1,c.2.1.6 113951,113952 1yqgA 263 0.004761 2izzA 322 0.005256 2ahrA 259 0.005328 a.100.1.10,c.2.1.6 126775,126776 2h78A 302 0.005857 2pgd 482 0.006369 1np3A 338 0.006461 a.100.1.2,c.2.1.6 85946,85947 2p4qA 497 0.006595 2pgdA 482 0.006975 a.100.1.1,c.2.1.6 18778,30190 1yb4A 295 0.007328 2ew2A 316 0.008180 3c24A 286 0.009195 2rcyA 262 0.009203 2dpoA 319 0.009341 2f1kA 279 0.01060 a.100.1.12,c.2.1.6 132772,132773 2cvzA 289 0.01162 a.100.1.1,c.2.1.6 130890,130891 1ks9A 291 0.01219 a.100.1.7,c.2.1.6 68857,68858 2g5cA 281 0.01305 a.100.1.12,c.2.1.6 134646,134647 1bg6A 359 0.01404 a.100.1.5,c.2.1.6 18810,30214 2graA 277 0.01408 1zcjA 463 0.01466 1yrlA 491 0.01582 2pv7A 298 0.02039 1qmgA 524 0.02564 a.100.1.2,c.2.1.6 18785,30182 1f0yA 302 0.02955 a.100.1.3,c.2.1.6 18793,30197 2qytA 317 0.02966 1evyA 366 0.03528 a.100.1.6,c.2.1.6 18811,30215 1x0vA 354 0.04409 1bg6 359 0.05574 1zejA 293 0.05661 1txgA 335 0.05901 a.100.1.6,c.2.1.6 112775,112776 1z82A 335 0.06195 2i76A 276 0.08472 1i36A 264 0.08719 a.100.1.8,c.2.1.6 71108,71109 1mv8A 436 0.08723 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1jayA 212 0.09941 c.2.1.6 66478 2o3jA 481 0.1135 1qv9A 283 0.1558 c.127.1.1 96356 1dljA 402 0.1890 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 0.2055 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1ygyA 529 0.3897 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1gdhA 320 0.3990 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.4219 c.2.1.4,c.23.12.1 30088,31348 2fssA 365 0.4952 2axqA 467 0.5283 2dbqA 334 0.5920 1wwkA 307 0.6221 2j6iA 364 0.6241 2eklA 313 0.6625 1mx3A 347 0.7046 c.2.1.4,c.23.12.1 79638,79639 1li4A 432 0.7267 c.2.1.4,c.23.12.3 84616,84617 1j4aA 333 0.7512 c.2.1.4,c.23.12.1 71502,71503 1dxy 333 0.7852 2o4cA 380 0.8110 1x7dA 350 0.8342 c.2.1.13 114927 2cukA 311 0.8429 1v8bA 479 0.8806 c.2.1.4,c.23.12.3 113564,113565 2pi1A 334 0.8906 1xdwA 331 0.8932 1omoA 322 1.024 c.2.1.13 104017 2d0iA 333 1.084 1gpjA 404 1.091 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2b0jA 358 1.115 a.100.1.11,c.2.1.6 127639,127640 2gcgA 330 1.133 1lldA 319 1.157 c.2.1.5,d.162.1.1 30177,42144 2g76A 335 1.187 1dxyA 333 1.237 c.2.1.4,c.23.12.1 30094,31354 2ewdA 317 1.262 1guzA 310 1.296 c.2.1.5,d.162.1.1 65586,65587 1t2dA 322 1.374 c.2.1.5,d.162.1.1 99084,99085 1pjcA 361 1.545 c.2.1.4,c.23.12.2 30101,31361 1pzgA 331 1.563 c.2.1.5,d.162.1.1 95425,95426 1uxjA 309 1.583 c.2.1.5,d.162.1.1 108112,108113 1qp8A 303 1.624 c.2.1.4,c.23.12.1 30092,31352 1hyhA 309 1.674 c.2.1.5,d.162.1.1 30150,42117 1sc6A 404 1.765 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2v7pA 310 1.861 2nvwA 479 1.994 c.2.1.3,d.81.1.5 138665,138666 1ff9A 450 1.997 c.2.1.3,d.81.1.2 30039,39954 6ldhA 329 2.030 c.2.1.5,d.162.1.1 30161,42128 1f06A 320 2.034 c.2.1.3,d.81.1.3 59556,59557 1lssA 140 2.099 c.2.1.9 74246 2ho3A 325 2.172 2i6tA 303 2.185 1a5zA 319 2.379 c.2.1.5,d.162.1.1 30181,42148 3ceaA 346 2.435 2o4uX 334 2.461 2vojA 371 2.762 2eggA 297 3.009 1ez4A 318 3.037 c.2.1.5,d.162.1.1 64917,64918 2vhxA 377 3.125 1xeaA 323 3.141 c.2.1.3,d.81.1.5 109572,109573 1tltA 319 3.186 c.2.1.3,d.81.1.5 107135,107136 1p77A 272 3.258 c.2.1.7,c.58.1.5 94214,94215 3bioA 304 3.302 1l7dA 384 3.478 c.2.1.4,c.23.12.2 77774,77775 2hk9A 275 3.590 2q4eA 362 3.628 1u8xX 472 3.654 c.2.1.5,d.162.1.2 107741,107742 1h6dA 433 3.665 c.2.1.3,d.81.1.5 65656,65657 2p2sA 336 3.671 2dc1A 236 3.877 1x13A 401 3.936 1lsuA 147 3.984 c.2.1.9 74250 2glxA 332 4.014 3c1aA 315 4.073 1nytA 271 4.192 c.2.1.7,c.58.1.5 86417,86418 1nvmB 312 4.719 c.2.1.3,d.81.1.1 86251,86252 2g17A 337 4.790 c.2.1.3,d.81.1.1 134512,134513 1vjtA 483 5.656 c.2.1.5,d.162.1.2 100833,100834 2hmvA 144 5.664 c.2.1.9 136615 1lehA 364 5.783 c.2.1.7,c.58.1.1 30268,33916 1obbA 480 5.787 c.2.1.5,d.162.1.2 86760,86761 2d5cA 263 5.808 1y1pA 342 6.443 c.2.1.2 122550 1rydA 387 7.202 c.2.1.3,d.81.1.5 118801,118802 1vknA 351 7.209 c.2.1.3,d.81.1.1 108676,108677 2r00A 336 7.290 2nloA 302 7.501 2ejwA 332 7.793 1zh8A 340 8.253 c.2.1.3,d.81.1.5 125077,125078 2r6jA 318 8.323 2ph5A 480 8.560 2hjsA 340 8.805 c.2.1.3,d.81.1.1 136547,136548 2ixaA 444 8.906 2gn4A 344 9.248 1up7A 417 9.307 c.2.1.5,d.162.1.2 113374,113375 2aefA 234 9.477 1yqdA 366 9.503 2cf5A 357 10.14 1s6yA 450 10.20 c.2.1.5,d.162.1.2 105314,105315 1drw 273 10.33 1drwA 273 10.82 c.2.1.3,d.81.1.3 30057,39972 2c29D 337 10.85 1sb8A 352 11.12 c.2.1.2 105410 2q49A 359 11.17 c.2.1.3,d.81.1.1 139831,139832 2gz1A 366 11.21 c.2.1.3,d.81.1.1 135887,135888 1j5pA 253 11.34 d.81.1.3,c.2.1.3 71577,83092 1id1A 153 11.81 c.2.1.9 62286 1npyA 271 12.02 c.2.1.7,c.58.1.5 85995,85996 1xgkA 352 12.47 c.2.1.2 115286 1luaA 287 12.58 c.2.1.7,c.58.1.4 78216,78217 2cmdA 312 12.75 c.2.1.5,d.162.1.1 30135,42102 1uufA 369 13.63 b.35.1.2,c.2.1.1 100006,100007 1o6zA 303 13.64 c.2.1.5,d.162.1.1 81107,81108 2exxA 306 13.77 1y81A 138 13.89 c.2.1.8 122731 2cmd 312 13.95 3cc8A 230 14.34 2nqtA 352 14.36 1nvtA 287 14.73 c.2.1.7,c.58.1.5 86270,86271 2q1sA 377 15.06 2d59A 144 15.47 c.2.1.8 131266 1ve3A 227 15.55 c.66.1.43 120010 1iukA 140 15.99 c.2.1.8 83712 1hdoA 206 16.03 c.2.1.2 60965 1z7bA 358 16.47 c.2.1.2 124599 2bllA 345 16.69 c.2.1.2 128733 2g1uA 155 17.07 2b69A 343 17.54 c.2.1.2 127974 1i2cA 404 17.95 c.2.1.2 83666 1lc0A 294 18.17 c.2.1.3,d.81.1.4 73823,73824 2bkaA 242 18.63 c.2.1.2 128666 1b7gO 340 19.06 c.2.1.3,d.81.1.1 29992,39907 1lluA 342 19.10 b.35.1.2,c.2.1.1 91064,91065 2p4hX 322 19.46 2pzmA 330 19.84 2czcA 334 19.84 d.81.1.1 131044 1fl2A 310 19.99 c.3.1.5,c.3.1.5 59869,59870 1ys4A 354 20.07 1mldA 314 22.09 c.2.1.5,d.162.1.1 30122,42089 1vi2A 300 22.47 c.2.1.7,c.58.1.5 100726,100727 3c8mA 331 22.69 1wvgA 359 22.93 c.2.1.2 121339 1oc2A 348 23.03 c.2.1.2 92765 2fk8A 318 23.31 c.66.1.18 133648 3c85A 183 23.39 2pk3A 321 25.10 2ozpA 345 25.33 1xu9A 286 25.75 c.2.1.2 116052 1c1dA 355 25.90 c.2.1.7,c.58.1.1 30270,33918 1kyqA 274 26.11 c.2.1.11,e.37.1.1 73281,73282 2gasA 307 27.20 1hyeA 313 27.45 c.2.1.5,d.162.1.1 61400,61401 2z1mA 345 27.61 1rkxA 357 28.26 c.2.1.2 97631 3ckkA 235 29.78 2yyyA 343 30.45 1xq6A 253 31.09 c.2.1.2 115829 1xvaA 292 32.08 c.66.1.5 34183 1yovA 537 33.69 c.111.1.2 123785 1nhpA 447 34.67 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1yxmA 303 34.77 c.2.1.2 124192 1p91A 269 34.92 c.66.1.33 94378 1l1eA 287 35.01 c.66.1.18 73454 2ex4A 241 35.10 c.66.1.42 132516 1bdmA 327 36.28 c.2.1.5,d.162.1.1 30137,42104 2o7sA 523 36.46 2nxcA 254 36.83 c.66.1.39 138739 1nhsA 447 36.96 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1t2aA 375 37.08 c.2.1.2 99078 1xtpA 254 39.13 c.66.1.42 116031 1vl5A 260 39.30 c.66.1.41 108720 1o89A 345 39.40 b.35.1.2,c.2.1.1 92644,92645 1ebfA 358 39.43 c.2.1.3,d.81.1.2 30033,39948 2zbwA 335 39.53 1uirA 314 39.61 c.66.1.17 99429 1xg5A 279 39.72 c.2.1.2 115277 1yzhA 214 40.11 c.66.1.53 124277 2cdcA 366 40.76 1xxlA 239 41.13 c.66.1.41 116203 1ri5A 298 41.49 c.66.1.34 97502 2j3hA 345 41.73 3cggA 195 41.79 1qamA 244 42.04 c.66.1.24 34220 2i7cA 283 42.11 1edzA 320 42.41 c.2.1.7,c.58.1.2 30287,33935 2q46A 253 42.60 c.2.1.2 139825 2p5yA 311 43.26 1kpgA 287 43.36 c.66.1.18 68735 2hcyA 347 43.70 3bxoA 239 43.90 1wznA 252 44.12 c.66.1.43 121525 2aotA 292 44.27 c.66.1.19 127098 1y7tA 327 47.62 c.2.1.5,d.162.1.1 122718,122719 2b9eA 303 47.90 c.66.1.38 128124 1vj0A 380 48.22 b.35.1.2,c.2.1.1 100786,100787 2yqzA 263 48.63 1orrA 347 49.87 c.2.1.2 93460 2yvlA 248 50.27 1y8cA 246 50.98 c.66.1.43 116563 1l3iA 192 51.41 c.66.1.22 77676 2p35A 259 52.44 1gteA 1025 52.68 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 1f8fA 371 52.71 b.35.1.2,c.2.1.1 83246,83247 1o54A 277 53.02 c.66.1.13 92482 2a35A 215 53.41 c.2.1.2 126072 1jw9B 249 53.91 c.111.1.1 67377 2i6gA 199 54.09 c.66.1.44 137096 2gh1A 301 54.09 c.66.1.49 135170 2hrzA 342 54.84 2p8jA 209 55.21 1yb2A 275 55.65 c.66.1.13 122868 2cduA 452 56.08 1duvG 333 56.83 c.78.1.1,c.78.1.1 35228,35229 1pl8A 356 56.99 b.35.1.2,c.2.1.1 94878,94879 1vlmA 219 57.45 c.66.1.41 108836 2o57A 297 57.57 1n8kA 374 57.96 b.35.1.2,c.2.1.1 80298,80299 1i9gA 280 59.75 c.66.1.13 62090 1im8A 244 59.80 c.66.1.14 66212 2gpyA 233 60.12 1zmdA 474 60.32 1p0fA 373 60.54 b.35.1.2,c.2.1.1 87642,87643 1b0aA 288 60.58 c.2.1.7,c.58.1.2 30286,33934 1zq9A 285 61.11 c.66.1.24 125505 1y5mA 276 62.35 c.2.1.2 122645 1uc8A 280 62.67 c.30.1.6,d.142.1.7 99165,99166 2gdzA 267 62.81 c.2.1.2 135043 2ggsA 273 63.46 1cydA 244 63.76 c.2.1.2 29825 2vdvE 246 64.69 1trbA 320 65.01 c.3.1.5,c.3.1.5 30529,30530 1kolA 398 65.33 b.35.1.2,c.2.1.1 77474,77475 2cmgA 262 65.39 1y8qA 346 66.38 2h6eA 344 66.41 1u8fO 335 67.15 c.2.1.3,d.81.1.1 119626,119627 2eihA 343 67.51 1othA 321 68.10 c.78.1.1,c.78.1.1 35260,35261 1z45A 699 68.42 b.30.5.4,c.2.1.2 124427,124428 2v3aA 384 68.61 2pwyA 258 69.39 2d8aA 348 70.48 2jahA 247 71.42 1trb 320 72.09 1qyrA 252 72.35 c.66.1.24 104657 1jsxA 207 72.56 c.66.1.20 71846 2g82A 331 75.70 c.2.1.3,d.81.1.1 134746,134747 1fp2A 352 76.12 a.4.5.29,c.66.1.12 59941,59942 3grs 478 76.13 2gv8A 447 76.47 c.3.1.5,c.3.1.5 135759,135760 1ixkA 315 76.99 c.66.1.38 90716 1r6dA 337 77.36 c.2.1.2 97148 1tt7A 330 77.86 b.35.1.2,c.2.1.1 112623,112624 2z1nA 260 78.23 1q7gA 359 78.30 c.2.1.3,d.81.1.2 96038,96039 2gptA 523 78.41 1rm4A 337 78.60 c.2.1.3,d.81.1.1 105000,105001 1obfO 335 79.54 c.2.1.3,d.81.1.1 86768,86769 4uagA 437 79.98 c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1wmaA 276 80.24 c.2.1.2 121042 1k3tA 359 80.33 c.2.1.3,d.81.1.1 72022,72023 1inlA 296 81.45 c.66.1.17 66220 2v6gA 364 82.03 2pd6A 264 82.25 1ps9A 671 82.30 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 2dm6A 333 82.56 b.35.1.2,c.2.1.1 131567,131568 2q0lA 311 82.78 1yb5A 351 83.52 b.35.1.2,c.2.1.1 116601,116602 2r3sA 335 83.69 1q1rA 431 83.78 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1jg1A 235 85.36 c.66.1.7 66661 2o07A 304 85.66 c.66.1.17 138862 3bgvA 313 85.78 1zmoA 244 85.79 2fcaA 213 86.34 c.66.1.53 133262 2jhfA 374 86.36 b.35.1.2,c.2.1.1 138314,138315 1u3wA 374 86.36 b.35.1.2,c.2.1.1 113013,113014 2ph3A 245 86.54 3bkwA 243 87.06 2gb4A 252 87.11 2b25A 336 87.72 c.66.1.13 127699 2ipxA 233 87.78 1ne2A 200 89.16 c.66.1.32 85586 2pxxA 215 89.73