# List of top-scoring protein chains for t06-w0.5-1-str4-0.1-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 0.001667 a.100.1.1,c.2.1.6 113951,113952 2izzA 322 0.002227 1yqgA 263 0.002242 2ahrA 259 0.002360 a.100.1.10,c.2.1.6 126775,126776 2h78A 302 0.002693 1np3A 338 0.002993 a.100.1.2,c.2.1.6 85946,85947 2pgd 482 0.003050 2pgdA 482 0.003248 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 0.003817 2rcyA 262 0.003976 1yb4A 295 0.004308 2ew2A 316 0.004579 3c24A 286 0.005383 2dpoA 319 0.005408 2f1kA 279 0.005753 a.100.1.12,c.2.1.6 132772,132773 2cvzA 289 0.006403 a.100.1.1,c.2.1.6 130890,130891 1bg6A 359 0.006559 a.100.1.5,c.2.1.6 18810,30214 2g5cA 281 0.006721 a.100.1.12,c.2.1.6 134646,134647 1ks9A 291 0.006823 a.100.1.7,c.2.1.6 68857,68858 1yrlA 491 0.008580 2graA 277 0.009318 1zcjA 463 0.009495 2pv7A 298 0.01151 1qmgA 524 0.01371 a.100.1.2,c.2.1.6 18785,30182 1f0yA 302 0.01400 a.100.1.3,c.2.1.6 18793,30197 1evyA 366 0.01657 a.100.1.6,c.2.1.6 18811,30215 2qytA 317 0.02110 1x0vA 354 0.02379 1txgA 335 0.02881 a.100.1.6,c.2.1.6 112775,112776 1bg6 359 0.02995 1zejA 293 0.03274 1z82A 335 0.03391 2i76A 276 0.03401 1i36A 264 0.04213 a.100.1.8,c.2.1.6 71108,71109 1mv8A 436 0.04712 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2o3jA 481 0.05526 1jayA 212 0.05747 c.2.1.6 66478 1qv9A 283 0.1107 c.127.1.1 96356 1dliA 402 0.1381 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1dljA 402 0.1450 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1gdhA 320 0.2260 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.2442 c.2.1.4,c.23.12.1 30088,31348 1ygyA 529 0.2456 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2axqA 467 0.2571 2fssA 365 0.2976 2j6iA 364 0.3070 2dbqA 334 0.3639 1wwkA 307 0.4019 1li4A 432 0.4059 c.2.1.4,c.23.12.3 84616,84617 1j4aA 333 0.4270 c.2.1.4,c.23.12.1 71502,71503 1x7dA 350 0.5006 c.2.1.13 114927 1xdwA 331 0.5006 1dxy 333 0.5137 1mx3A 347 0.5209 c.2.1.4,c.23.12.1 79638,79639 2o4cA 380 0.5393 1v8bA 479 0.5465 c.2.1.4,c.23.12.3 113564,113565 2pi1A 334 0.5514 2cukA 311 0.5806 2gcgA 330 0.6630 2b0jA 358 0.6979 a.100.1.11,c.2.1.6 127639,127640 1gpjA 404 0.7190 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1dxyA 333 0.7586 c.2.1.4,c.23.12.1 30094,31354 2d0iA 333 0.8216 2g76A 335 0.8608 1pzgA 331 0.9189 c.2.1.5,d.162.1.1 95425,95426 1omoA 322 0.9346 c.2.1.13 104017 1lldA 319 0.9463 c.2.1.5,d.162.1.1 30177,42144 1t2dA 322 1.008 c.2.1.5,d.162.1.1 99084,99085 1guzA 310 1.013 c.2.1.5,d.162.1.1 65586,65587 2hk9A 275 1.122 1qp8A 303 1.182 c.2.1.4,c.23.12.1 30092,31352 2ho3A 325 1.183 1sc6A 404 1.224 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1pjcA 361 1.225 c.2.1.4,c.23.12.2 30101,31361 2ewdA 317 1.226 1hyhA 309 1.265 c.2.1.5,d.162.1.1 30150,42117 1lssA 140 1.393 c.2.1.9 74246 1uxjA 309 1.439 c.2.1.5,d.162.1.1 108112,108113 1f06A 320 1.575 c.2.1.3,d.81.1.3 59556,59557 1ff9A 450 1.576 c.2.1.3,d.81.1.2 30039,39954 2v7pA 310 1.635 2nvwA 479 1.737 c.2.1.3,d.81.1.5 138665,138666 2vojA 371 1.756 2o4uX 334 1.784 1a5zA 319 1.904 c.2.1.5,d.162.1.1 30181,42148 3ceaA 346 1.950 2eklA 313 2.042 2d5cA 263 2.091 2vhxA 377 2.095 6ldhA 329 2.116 c.2.1.5,d.162.1.1 30161,42128 1tltA 319 2.139 c.2.1.3,d.81.1.5 107135,107136 1xeaA 323 2.158 c.2.1.3,d.81.1.5 109572,109573 2q4eA 362 2.172 2p2sA 336 2.208 2eggA 297 2.247 3bioA 304 2.393 2dc1A 236 2.566 1p77A 272 2.587 c.2.1.7,c.58.1.5 94214,94215 1l7dA 384 2.628 c.2.1.4,c.23.12.2 77774,77775 2i6tA 303 2.663 2glxA 332 2.698 3c1aA 315 2.703 1h6dA 433 2.878 c.2.1.3,d.81.1.5 65656,65657 1ez4A 318 2.880 c.2.1.5,d.162.1.1 64917,64918 1u8xX 472 3.024 c.2.1.5,d.162.1.2 107741,107742 2nloA 302 3.082 1x13A 401 3.157 1nvmB 312 3.459 c.2.1.3,d.81.1.1 86251,86252 1nytA 271 3.541 c.2.1.7,c.58.1.5 86417,86418 1lsuA 147 3.910 c.2.1.9 74250 1rydA 387 4.001 c.2.1.3,d.81.1.5 118801,118802 1npyA 271 4.005 c.2.1.7,c.58.1.5 85995,85996 2hmvA 144 4.190 c.2.1.9 136615 2g17A 337 4.520 c.2.1.3,d.81.1.1 134512,134513 2ejwA 332 4.810 1lehA 364 4.857 c.2.1.7,c.58.1.1 30268,33916 2r6jA 318 5.073 1obbA 480 5.661 c.2.1.5,d.162.1.2 86760,86761 1vknA 351 5.974 c.2.1.3,d.81.1.1 108676,108677 1nvtA 287 5.993 c.2.1.7,c.58.1.5 86270,86271 1vjtA 483 6.074 c.2.1.5,d.162.1.2 100833,100834 2hjsA 340 6.376 c.2.1.3,d.81.1.1 136547,136548 1zh8A 340 6.477 c.2.1.3,d.81.1.5 125077,125078 1y1pA 342 6.665 c.2.1.2 122550 1up7A 417 6.990 c.2.1.5,d.162.1.2 113374,113375 2ixaA 444 7.008 1s6yA 450 7.054 c.2.1.5,d.162.1.2 105314,105315 1drwA 273 7.209 c.2.1.3,d.81.1.3 30057,39972 1hdoA 206 7.343 c.2.1.2 60965 1drw 273 7.395 1yqdA 366 7.624 2nqtA 352 7.654 2r00A 336 7.772 1j5pA 253 7.960 d.81.1.3,c.2.1.3 71577,83092 1xgkA 352 7.987 c.2.1.2 115286 1id1A 153 8.155 c.2.1.9 62286 2cf5A 357 8.389 2gz1A 366 8.743 c.2.1.3,d.81.1.1 135887,135888 2gn4A 344 9.262 1luaA 287 9.365 c.2.1.7,c.58.1.4 78216,78217 2exxA 306 9.751 1vi2A 300 9.938 c.2.1.7,c.58.1.5 100726,100727 2aefA 234 10.07 2g1uA 155 10.08 2ph5A 480 10.09 2d59A 144 10.10 c.2.1.8 131266 2b69A 343 10.13 c.2.1.2 127974 2cmdA 312 10.32 c.2.1.5,d.162.1.1 30135,42102 1sb8A 352 10.49 c.2.1.2 105410 1uufA 369 10.67 b.35.1.2,c.2.1.1 100006,100007 2cmd 312 10.82 1y81A 138 11.82 c.2.1.8 122731 2q1sA 377 12.16 2pzmA 330 12.25 2q49A 359 12.26 c.2.1.3,d.81.1.1 139831,139832 1o6zA 303 12.89 c.2.1.5,d.162.1.1 81107,81108 1z7bA 358 12.92 c.2.1.2 124599 1c1dA 355 13.20 c.2.1.7,c.58.1.1 30270,33918 2o7sA 523 13.28 1lc0A 294 13.51 c.2.1.3,d.81.1.4 73823,73824 3cc8A 230 13.66 1ve3A 227 13.93 c.66.1.43 120010 3c8mA 331 13.95 1iukA 140 14.33 c.2.1.8 83712 2bllA 345 14.49 c.2.1.2 128733 1wvgA 359 14.59 c.2.1.2 121339 1oc2A 348 14.68 c.2.1.2 92765 2bkaA 242 14.68 c.2.1.2 128666 2c29D 337 15.07 1fl2A 310 15.37 c.3.1.5,c.3.1.5 59869,59870 1b7gO 340 15.81 c.2.1.3,d.81.1.1 29992,39907 1mldA 314 15.93 c.2.1.5,d.162.1.1 30122,42089 1i2cA 404 16.11 c.2.1.2 83666 2czcA 334 16.76 d.81.1.1 131044 1rkxA 357 17.38 c.2.1.2 97631 2fk8A 318 17.58 c.66.1.18 133648 1lluA 342 18.22 b.35.1.2,c.2.1.1 91064,91065 2gasA 307 18.69 2p4hX 322 18.77 1ys4A 354 18.80 1nhsA 447 19.38 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1nhpA 447 19.52 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2z1mA 345 20.51 1xu9A 286 21.18 c.2.1.2 116052 1kyqA 274 22.10 c.2.1.11,e.37.1.1 73281,73282 1l1eA 287 22.28 c.66.1.18 73454 2p5yA 311 23.54 2ozpA 345 24.36 3cggA 195 26.37 1wznA 252 27.01 c.66.1.43 121525 1t2aA 375 27.21 c.2.1.2 99078 1xq6A 253 27.28 c.2.1.2 115829 2ex4A 241 27.61 c.66.1.42 132516 1vj0A 380 27.92 b.35.1.2,c.2.1.1 100786,100787 3c85A 183 28.25 2nxcA 254 28.38 c.66.1.39 138739 1xvaA 292 28.86 c.66.1.5 34183 2a35A 215 29.23 c.2.1.2 126072 2cduA 452 29.40 2zbwA 335 29.52 1hyeA 313 30.55 c.2.1.5,d.162.1.1 61400,61401 2yyyA 343 30.75 1orrA 347 31.33 c.2.1.2 93460 1f8fA 371 32.07 b.35.1.2,c.2.1.1 83246,83247 1fp1D 372 32.38 a.4.5.29,c.66.1.12 59939,59940 1xg5A 279 32.55 c.2.1.2 115277 1yxmA 303 32.56 c.2.1.2 124192 1z45A 699 32.66 b.30.5.4,c.2.1.2 124427,124428 1edzA 320 33.18 c.2.1.7,c.58.1.2 30287,33935 2gptA 523 33.52 1ebfA 358 33.89 c.2.1.3,d.81.1.2 30033,39948 1ps9A 671 33.93 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1bdmA 327 34.00 c.2.1.5,d.162.1.1 30137,42104 1uirA 314 34.75 c.66.1.17 99429 1o89A 345 34.80 b.35.1.2,c.2.1.1 92644,92645 1xtpA 254 34.93 c.66.1.42 116031 1yovA 537 35.38 c.111.1.2 123785 1p0fA 373 36.53 b.35.1.2,c.2.1.1 87642,87643 2hrzA 342 37.40 1ri5A 298 37.48 c.66.1.34 97502 2o57A 297 38.08 1jw9B 249 39.26 c.111.1.1 67377 2gv8A 447 39.44 c.3.1.5,c.3.1.5 135759,135760 2cdcA 366 39.45 2yqzA 263 39.75 2q46A 253 40.50 c.2.1.2 139825 1y7tA 327 40.55 c.2.1.5,d.162.1.1 122718,122719 1n8kA 374 41.13 b.35.1.2,c.2.1.1 80298,80299 1vl5A 260 41.34 c.66.1.41 108720 1r6dA 337 42.00 c.2.1.2 97148 1pl8A 356 42.04 b.35.1.2,c.2.1.1 94878,94879 2hcyA 347 42.54 1gteA 1025 42.61 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 1xxlA 239 42.80 c.66.1.41 116203 1y8cA 246 42.91 c.66.1.43 116563 1zmdA 474 43.29 1b0aA 288 43.55 c.2.1.7,c.58.1.2 30286,33934 2r3sA 335 43.57 2v3aA 384 44.51 4uagA 437 44.95 c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1p91A 269 45.09 c.66.1.33 94378 2aotA 292 45.78 c.66.1.19 127098 1q1rA 431 46.17 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1kpgA 287 46.37 c.66.1.18 68735 1duvG 333 46.62 c.78.1.1,c.78.1.1 35228,35229 1im8A 244 46.62 c.66.1.14 66212 1vlmA 219 46.75 c.66.1.41 108836 2gh1A 301 47.12 c.66.1.49 135170 2gb4A 252 47.31 1oi7A 288 48.40 c.2.1.8,c.23.4.1 87049,87050 2eihA 343 48.49 1y8qA 346 48.58 3grs 478 49.38 1sbyA 254 49.44 c.2.1.2 118930 2j3hA 345 50.31 2h6eA 344 50.89 2p8jA 209 50.91 1wlyA 333 51.14 1zq9A 285 51.40 c.66.1.24 125505 2pk3A 321 51.41 2dm6A 333 52.66 b.35.1.2,c.2.1.1 131567,131568 1y5mA 276 54.45 c.2.1.2 122645 2ggsA 273 54.69 1ixkA 315 54.70 c.66.1.38 90716 2d8aA 348 55.44 1b6rA 355 55.67 b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 2c5aA 379 55.73 c.2.1.2 129894 2i7cA 283 55.95 2b9eA 303 56.26 c.66.1.38 128124 1yb5A 351 56.39 b.35.1.2,c.2.1.1 116601,116602 1uc8A 280 56.44 c.30.1.6,d.142.1.7 99165,99166 1fp2A 352 57.08 a.4.5.29,c.66.1.12 59941,59942 1a4iA 301 57.44 c.2.1.7,c.58.1.2 30278,33926 3bkwA 243 57.61 1lvlA 458 58.62 c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 2gdzA 267 59.22 c.2.1.2 135043 1u3wA 374 59.68 b.35.1.2,c.2.1.1 113013,113014 1qamA 244 59.95 c.66.1.24 34220 2cmgA 262 60.17 2bzgA 232 60.63 c.66.1.36 129559 2g82A 331 60.79 c.2.1.3,d.81.1.1 134746,134747 2p35A 259 61.22 2gqwA 408 61.50 1q7gA 359 61.60 c.2.1.3,d.81.1.2 96038,96039 1kolA 398 62.22 b.35.1.2,c.2.1.1 77474,77475 3bgvA 313 63.07 3csuA 310 63.16 c.78.1.1,c.78.1.1 35094,35095 2i6gA 199 63.16 c.66.1.44 137096 1inlA 296 63.60 c.66.1.17 66220 1iz0A 302 64.01 b.35.1.2,c.2.1.1 83821,83822 2csuA 457 64.14 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1xhcA 367 64.36 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1zk7A 467 64.36 1w4xA 542 64.88 c.3.1.5,c.3.1.5 109171,109172 2v6gA 364 65.32 2r9zA 463 66.32 1trb 320 66.58 1i9gA 280 67.67 c.66.1.13 62090 1ml4A 308 68.12 c.78.1.1,c.78.1.1 79255,79256 1l3iA 192 68.69 c.66.1.22 77676 2jhfA 374 68.77 b.35.1.2,c.2.1.1 138314,138315 1othA 321 69.46 c.78.1.1,c.78.1.1 35260,35261 3grsA 478 70.08 c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1cydA 244 70.09 c.2.1.2 29825 1udcA 338 70.31 c.2.1.2 29785 2gpyA 233 70.63 2jahA 247 71.15 1u8fO 335 71.56 c.2.1.3,d.81.1.1 119626,119627 2blnA 305 71.78 b.46.1.1,c.65.1.1 128734,128735 1x19A 359 73.36 1wy7A 207 73.45 c.66.1.32 121433 1gesA 450 73.63 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 2pd6A 264 73.90 1ek6A 348 74.31 c.2.1.2 29800 3ckkA 235 74.99 1w6uA 302 75.40 c.2.1.2 114288 1trbA 320 75.50 c.3.1.5,c.3.1.5 30529,30530 1obfO 335 75.64 c.2.1.3,d.81.1.1 86768,86769 2z1nA 260 77.37 1dl5A 317 78.78 c.66.1.7,d.197.1.1 64720,64721 2a4kA 263 78.90 c.2.1.2 126156 1p9lA 245 78.93 c.2.1.3,d.81.1.3 94393,94394 1qyrA 252 79.56 c.66.1.24 104657 1k3tA 359 79.96 c.2.1.3,d.81.1.1 72022,72023 2q0lA 311 80.94 2ozvA 260 81.50 1zbqA 327 81.66 c.2.1.2 124862 2vdvE 246 81.83 1jsxA 207 82.59 c.66.1.20 71846 1yb1A 272 83.67 c.2.1.2 116599 1yzhA 214 83.88 c.66.1.53 124277 1qorA 327 84.01 b.35.1.2,c.2.1.1 24766,29782 1hwxA 501 84.39 c.2.1.7,c.58.1.1 30250,33898 1jg1A 235 84.78 c.66.1.7 66661 1ydgA 211 85.58 c.23.5.8 116614 2igtA 332 86.51 c.66.1.51 137401 1nffA 260 86.61 c.2.1.2 80457 1t4bA 367 87.09 c.2.1.3,d.81.1.1 106406,106407 1zsyA 357 87.94 1hyuA 521 88.33 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1yb2A 275 88.48 c.66.1.13 122868 2qe6A 274 89.60 1rm4A 337 89.61 c.2.1.3,d.81.1.1 105000,105001 5nul 138 89.63 1ne2A 200 89.70 c.66.1.32 85586