# List of top-scoring protein chains for t2k-w0.5-1-o_notor-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 1yqgA 263 4.95e-09 2ahrA 259 1.25e-08 a.100.1.10,c.2.1.6 126775,126776 2h78A 302 3.85e-08 1vpdA 299 3.95e-08 a.100.1.1,c.2.1.6 113951,113952 2rcyA 262 5.54e-08 2graA 277 7.77e-08 2izzA 322 9.05e-08 1pgjA 478 1.08e-07 a.100.1.1,c.2.1.6 18783,30195 1yb4A 295 1.23e-07 2i76A 276 1.32e-07 2cvzA 289 1.39e-07 a.100.1.1,c.2.1.6 130890,130891 2pgd 482 1.89e-07 2pgdA 482 9.09e-07 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 1.53e-06 2f1kA 279 1.55e-06 a.100.1.12,c.2.1.6 132772,132773 1evyA 366 7.85e-06 a.100.1.6,c.2.1.6 18811,30215 1x0vA 354 8.91e-06 3c24A 286 1.12e-05 1txgA 335 1.13e-05 a.100.1.6,c.2.1.6 112775,112776 1bg6A 359 1.41e-05 a.100.1.5,c.2.1.6 18810,30214 2g5cA 281 1.80e-05 a.100.1.12,c.2.1.6 134646,134647 1z82A 335 2.45e-05 1i36A 264 4.24e-05 a.100.1.8,c.2.1.6 71108,71109 1bg6 359 6.84e-05 2b0jA 358 8.50e-05 a.100.1.11,c.2.1.6 127639,127640 1np3A 338 0.000221 a.100.1.2,c.2.1.6 85946,85947 1gpjA 404 0.000272 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2pv7A 298 0.000586 1jayA 212 0.002880 c.2.1.6 66478 2hdhA 293 0.003499 a.100.1.3,c.2.1.6 18795,30199 1nytA 271 0.003685 c.2.1.7,c.58.1.5 86417,86418 1zcjA 463 0.004188 2dpoA 319 0.004284 1f0yA 302 0.004599 a.100.1.3,c.2.1.6 18793,30197 1mv8A 436 0.007158 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1p77A 272 0.007359 c.2.1.7,c.58.1.5 94214,94215 1zejA 293 0.00998 2eggA 297 0.01381 2d5cA 263 0.01562 2nloA 302 0.02481 2ew2A 316 0.02971 2hk9A 275 0.03528 1npyA 271 0.03547 c.2.1.7,c.58.1.5 85995,85996 1ks9A 291 0.04573 a.100.1.7,c.2.1.6 68857,68858 1ff9A 450 0.05366 c.2.1.3,d.81.1.2 30039,39954 1d4fA 431 0.06333 c.2.1.4,c.23.12.3 30110,31370 1npdA 288 0.06577 c.2.1.7,c.58.1.5 80681,80682 1dljA 402 0.07088 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2nadA 393 0.07936 c.2.1.4,c.23.12.1 30090,31350 1wwkA 307 0.08381 1dxy 333 0.08465 1j4aA 333 0.08844 c.2.1.4,c.23.12.1 71502,71503 1lssA 140 0.09578 c.2.1.9 74246 1b3rA 431 0.0997 c.2.1.4,c.23.12.3 30106,31366 1dliA 402 0.1031 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2o3jA 481 0.1065 2axqA 467 0.1067 1pjcA 361 0.1094 c.2.1.4,c.23.12.2 30101,31361 2o7sA 523 0.1272 1mx3A 347 0.1314 c.2.1.4,c.23.12.1 79638,79639 1xdwA 331 0.1435 2nacA 393 0.1458 c.2.1.4,c.23.12.1 30088,31348 1gdhA 320 0.1468 c.2.1.4,c.23.12.1 30095,31355 1dxyA 333 0.1670 c.2.1.4,c.23.12.1 30094,31354 2dbqA 334 0.1718 1nvtA 287 0.1823 c.2.1.7,c.58.1.5 86270,86271 2g76A 335 0.1860 2nvwA 479 0.2050 c.2.1.3,d.81.1.5 138665,138666 2pi1A 334 0.2278 2gcgA 330 0.2836 2fssA 365 0.2908 2j6iA 364 0.2950 1yrlA 491 0.2975 2g1uA 155 0.3013 2dldA 337 0.3026 c.2.1.4,c.23.12.1 30099,31359 2ho3A 325 0.3029 1qp8A 303 0.3139 c.2.1.4,c.23.12.1 30092,31352 1li4A 432 0.3142 c.2.1.4,c.23.12.3 84616,84617 1vi2A 300 0.3346 c.2.1.7,c.58.1.5 100726,100727 1ygyA 529 0.3504 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1a7aA 432 0.3985 c.2.1.4,c.23.12.3 30104,31364 2o4cA 380 0.4161 2d0iA 333 0.4480 2cukA 311 0.4496 3c85A 183 0.4523 1luaA 287 0.5100 c.2.1.7,c.58.1.4 78216,78217 1l7dA 384 0.5303 c.2.1.4,c.23.12.2 77774,77775 2vojA 371 0.6047 1v8bA 479 0.6191 c.2.1.4,c.23.12.3 113564,113565 1tltA 319 0.6520 c.2.1.3,d.81.1.5 107135,107136 1psdA 409 0.6858 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 2vhxA 377 0.7193 1qmgA 524 0.7473 a.100.1.2,c.2.1.6 18785,30182 1sc6A 404 0.7548 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2qytA 317 0.7694 1omoA 322 0.7772 c.2.1.13 104017 2o4uX 334 0.8356 2eklA 313 0.8935 1ceqA 316 0.9838 c.2.1.5,d.162.1.1 30163,42130 1xwfA 431 0.9893 c.2.1.4,c.23.12.3 122392,122393 1ofgA 381 1.073 c.2.1.3,d.81.1.5 30064,39979 1lsuA 147 1.078 c.2.1.9 74250 2p2sA 336 1.120 2ixaA 444 1.133 1ldg 316 1.216 1rydA 387 1.238 c.2.1.3,d.81.1.5 118801,118802 1x7dA 350 1.256 c.2.1.13 114927 1xeaA 323 1.296 c.2.1.3,d.81.1.5 109572,109573 2gptA 523 1.298 1e3jA 352 1.352 b.35.1.2,c.2.1.1 24765,29781 2q4eA 362 1.447 1vllA 334 1.471 c.2.1.13 108834 2glxA 332 1.474 1h6dA 433 1.630 c.2.1.3,d.81.1.5 65656,65657 1uufA 369 1.632 b.35.1.2,c.2.1.1 100006,100007 1ez4A 318 1.861 c.2.1.5,d.162.1.1 64917,64918 1zh8A 340 1.861 c.2.1.3,d.81.1.5 125077,125078 1guzA 310 2.020 c.2.1.5,d.162.1.1 65586,65587 6ldhA 329 2.053 c.2.1.5,d.162.1.1 30161,42128 3ceaA 346 2.119 1gcuA 295 2.530 c.2.1.3,d.81.1.4 30063,39978 1sayA 361 2.722 c.2.1.4,c.23.12.2 30102,31362 2hsdA 253 2.818 c.2.1.2 29866 1pl8A 356 2.944 b.35.1.2,c.2.1.1 94878,94879 1hdcA 253 2.968 c.2.1.2 29862 2d8aA 348 3.027 2cdcA 366 3.077 1id1A 153 3.286 c.2.1.9 62286 1hyhA 309 3.495 c.2.1.5,d.162.1.1 30150,42117 3c1aA 315 3.525 1bw9A 356 3.899 c.2.1.7,c.58.1.1 30274,33922 2hmvA 144 3.979 c.2.1.9 136615 1ldnA 316 4.300 c.2.1.5,d.162.1.1 30166,42133 1bdb 277 4.417 1lluA 342 4.535 b.35.1.2,c.2.1.1 91064,91065 2aefA 234 4.610 1uxjA 309 4.823 c.2.1.5,d.162.1.1 108112,108113 1kyqA 274 4.884 c.2.1.11,e.37.1.1 73281,73282 2v7pA 310 5.057 1pjqA 457 5.105 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1a5zA 319 5.196 c.2.1.5,d.162.1.1 30181,42148 1jqbA 351 5.350 b.35.1.2,c.2.1.1 77151,77152 1kevA 351 5.427 b.35.1.2,c.2.1.1 24749,29765 2i6tA 303 5.567 2bkaA 242 5.640 c.2.1.2 128666 1t2dA 322 5.695 c.2.1.5,d.162.1.1 99084,99085 1f8fA 371 5.714 b.35.1.2,c.2.1.1 83246,83247 2r6jA 318 5.736 1vjtA 483 5.900 c.2.1.5,d.162.1.2 100833,100834 2gdzA 267 6.026 c.2.1.2 135043 1vl8A 267 6.050 c.2.1.2 108733 1yqdA 366 6.485 1c1dA 355 6.513 c.2.1.7,c.58.1.1 30270,33918 1h2bA 359 6.539 b.35.1.2,c.2.1.1 90543,90544 1y9aA 360 6.740 2ouiA 360 6.764 1a4iA 301 6.846 c.2.1.7,c.58.1.2 30278,33926 1pedA 351 7.071 b.35.1.2,c.2.1.1 24753,29769 1f06A 320 7.146 c.2.1.3,d.81.1.3 59556,59557 1pzgA 331 7.435 c.2.1.5,d.162.1.1 95425,95426 1a71A 374 7.736 b.35.1.2,c.2.1.1 24673,29689 1ykfA 352 7.751 b.35.1.2,c.2.1.1 24757,29773 1xseA 295 8.099 c.2.1.2 115925 1q7bA 244 8.397 c.2.1.2 96026 1hxhA 253 8.566 c.2.1.2 76725 2a4kA 263 8.762 c.2.1.2 126156 1lnqA 336 8.839 c.2.1.9,d.286.1.1,f.14.1.1 111576,111577,74050 1vj0A 380 8.841 b.35.1.2,c.2.1.1 100786,100787 2h6eA 344 9.008 1yb1A 272 9.178 c.2.1.2 116599 2cf5A 357 9.387 1axeA 374 9.518 b.35.1.2,c.2.1.1 24681,29697 1h7xA 1025 9.841 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1y8qB 640 9.912 1x7gA 261 10.04 c.2.1.2 114929 1edoA 244 10.07 c.2.1.2 29896 1axgA 374 10.15 b.35.1.2,c.2.1.1 24691,29707 1y81A 138 10.18 c.2.1.8 122731 1e6wA 260 10.37 c.2.1.2 59326 1xu9A 286 10.46 c.2.1.2 116052 1b0aA 288 10.50 c.2.1.7,c.58.1.2 30286,33934 2q49A 359 10.73 c.2.1.3,d.81.1.1 139831,139832 1u3wA 374 10.75 b.35.1.2,c.2.1.1 113013,113014 1xhlA 297 10.90 c.2.1.2 109591 1mjfA 281 10.97 c.66.1.17 79198 2c2xA 281 11.30 1spxA 278 11.48 c.2.1.2 98958 2ag5A 246 11.50 c.2.1.2 126719 1xg5A 279 11.92 c.2.1.2 115277 2b5wA 357 12.17 1sbyA 254 12.17 c.2.1.2 118930 1ja9A 274 12.21 c.2.1.2 62817 1ydeA 270 12.64 c.2.1.2 122980 1nffA 260 12.77 c.2.1.2 80457 1ur5A 309 13.01 c.2.1.5,d.162.1.1 99807,99808 2zbwA 335 13.77 2r00A 336 14.08 1jw9B 249 14.15 c.111.1.1 67377 1p0fA 373 14.21 b.35.1.2,c.2.1.1 87642,87643 2gn4A 344 14.37 1e3sA 261 14.43 c.2.1.2 59201 2pnfA 248 14.44 1y8qA 346 14.56 1u8xX 472 14.62 c.2.1.5,d.162.1.2 107741,107742 1xkqA 280 14.64 c.2.1.2 115417 1lc0A 294 14.71 c.2.1.3,d.81.1.4 73823,73824 1kolA 398 15.02 b.35.1.2,c.2.1.1 77474,77475 9ldtA 332 15.10 c.2.1.5,d.162.1.1 30154,42121 1vl6A 388 15.23 c.2.1.7,c.58.1.3 108724,108725 1ee2A 373 15.40 b.35.1.2,c.2.1.1 24663,29679 1he2A 206 15.79 c.2.1.2 60966 3bioA 304 16.67 2cfcA 250 16.70 1n5dA 288 16.83 c.2.1.2 80030 1gteA 1025 16.94 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 1yxmA 303 17.04 c.2.1.2 124192 1h7wA 1025 17.38 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1gegA 256 17.47 c.2.1.2 29888 2jhfA 374 17.73 b.35.1.2,c.2.1.1 138314,138315 1lehA 364 18.03 c.2.1.7,c.58.1.1 30268,33916 1y5mA 276 18.19 c.2.1.2 122645 2c07A 285 18.40 c.2.1.2 129577 2bgkA 278 18.84 c.2.1.2 128480 2d59A 144 19.17 c.2.1.8 131266 2ef0A 301 19.34 1iy8A 267 19.59 c.2.1.2 83774 2g17A 337 19.89 c.2.1.3,d.81.1.1 134512,134513 1s6yA 450 19.99 c.2.1.5,d.162.1.2 105314,105315 1h5qA 265 20.21 c.2.1.2 60643 2o23A 265 20.66 c.2.1.2 138884 1k2wA 256 20.82 c.2.1.2 90927 2gz1A 366 20.92 c.2.1.3,d.81.1.1 135887,135888 1qydA 313 21.04 c.2.1.2 96583 1y1pA 342 21.39 c.2.1.2 122550 1iukA 140 22.51 c.2.1.8 83712 1obbA 480 23.36 c.2.1.5,d.162.1.2 86760,86761 1vqwA 457 23.37 c.3.1.5,c.3.1.5 114028,114029 2ewdA 317 23.53 1fmcA 255 23.55 c.2.1.2 29856 2gasA 307 24.01 3bkwA 243 24.25 1zemA 262 24.38 c.2.1.2 124984 1w6uA 302 24.54 c.2.1.2 114288 1edzA 320 24.56 c.2.1.7,c.58.1.2 30287,33935 1ml4A 308 25.56 c.78.1.1,c.78.1.1 79255,79256 1b26A 416 25.70 c.2.1.7,c.58.1.1 30232,33880 3cc8A 230 25.90 1b16A 254 26.13 c.2.1.2 29875 1othA 321 26.22 c.78.1.1,c.78.1.1 35260,35261 1g0oA 283 26.32 c.2.1.2 60181 1cydA 244 26.63 c.2.1.2 29825 1drw 273 26.95 1vknA 351 27.13 c.2.1.3,d.81.1.1 108676,108677 1ebdA 455 27.25 c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 2czcA 334 27.62 d.81.1.1 131044 2jahA 247 27.63 1lldA 319 27.66 c.2.1.5,d.162.1.1 30177,42144 2yyyA 343 27.67 1zk4A 251 28.19 c.2.1.2 125176 1b3bA 415 29.42 c.2.1.7,c.58.1.1 30244,33892 1xgkA 352 29.45 c.2.1.2 115286 1x1tA 260 29.47 c.2.1.2 121597 1zud1 251 29.78 1qycA 308 30.19 c.2.1.2 96581 2ew8A 249 30.23 c.2.1.2 132447 1yovA 537 30.40 c.111.1.2 123785 2pd6A 264 30.90 1wpgA 994 31.11 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 1s2oA 244 31.29 c.108.1.10 118846 2dc1A 236 31.40 1l8qA 324 31.50 a.4.12.2,c.37.1.20 77809,77810 1n8kA 374 31.63 b.35.1.2,c.2.1.1 80298,80299 3csuA 310 31.75 c.78.1.1,c.78.1.1 35094,35095 1ybvA 283 31.76 c.2.1.2 29948 2c5aA 379 32.43 c.2.1.2 129894 2o57A 297 32.63 2ph3A 245 33.06 1vm6A 228 33.41 d.81.1.3,c.2.1.3 108877,118631 2z1nA 260 34.62 2i6uA 307 34.93 2q1sA 377 35.32 1rlmA 271 35.72 c.108.1.10 111860 2qa1A 500 36.20 2r0cA 549 36.57 1gcoA 261 36.75 c.2.1.2 29884 1wmaA 276 38.43 c.2.1.2 121042 1hdoA 206 38.58 c.2.1.2 60965 3ldh 330 39.90 i.12.1.1 46015 1e5dA 402 40.27 c.23.5.1,d.157.1.3 31208,42061 1trbA 320 41.14 c.3.1.5,c.3.1.5 30529,30530 1d7oA 297 41.26 c.2.1.2 29907 1xcbA 211 41.47 a.4.5.38,c.2.1.12 109552,109553 1qo0D 196 42.68 c.23.1.3 31125 1udcA 338 42.76 c.2.1.2 29785 1hwyA 501 43.20 c.2.1.7,c.58.1.1 30262,33910 1gtmA 419 43.82 c.2.1.7,c.58.1.1 30223,33871 2dt5A 211 43.83 a.4.5.38,c.2.1.12 131708,131709 2ohxA 374 44.52 b.35.1.2,c.2.1.1 24669,29685 1yb5A 351 44.63 b.35.1.2,c.2.1.1 116601,116602 1qrrA 394 44.98 c.2.1.2 29824 1k6xA 352 45.18 c.2.1.2 68238 1mo9A 523 45.40 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1dapA 320 46.60 c.2.1.3,d.81.1.3 30053,39968 1p3dA 475 46.97 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2ae2A 260 47.68 c.2.1.2 29945 2a9fA 398 47.69 2hoqA 241 48.87 1bdmA 327 49.08 c.2.1.5,d.162.1.1 30137,42104 1ek6A 348 49.14 c.2.1.2 29800 1fl2A 310 49.91 c.3.1.5,c.3.1.5 59869,59870 1pwxA 254 50.22 c.2.1.2 95262 1b8pA 329 50.66 c.2.1.5,d.162.1.1 30147,42114 1kpgA 287 50.72 c.66.1.18 68735 1cf2O 337 52.56 c.2.1.3,d.81.1.1 29994,39909 2h7mA 269 52.66 c.2.1.2 136219 1ae1A 273 53.91 c.2.1.2 29943 1ekxA 311 55.13 c.78.1.1,c.78.1.1 35088,35089 2bi7A 384 55.22 3ladA 476 55.44 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1dhr 241 55.77 1zk7A 467 55.78 2fr1A 486 55.91 c.2.1.2,c.2.1.2 133961,133962 1m1nB 522 58.56 c.92.2.3 78418 2d1yA 256 59.14 c.2.1.2 131151 1cjcA 460 59.46 c.3.1.1,c.4.1.1 30319,30604 2gv8A 447 59.74 c.3.1.5,c.3.1.5 135759,135760 1o54A 277 59.83 c.66.1.13 92482 1x13A 401 60.26 1ykjA 394 60.51 1up7A 417 61.69 c.2.1.5,d.162.1.2 113374,113375 2ph5A 480 62.05 1up6A 416 62.18 c.2.1.5,d.162.1.2 107976,107977 1zmdA 474 62.33 1rsgA 516 62.73 2gf3A 389 62.79 c.3.1.2,d.16.1.3 135070,135071 3c96A 415 63.80 1ee9A 320 64.09 c.2.1.7,c.58.1.2 30288,33936 1enp 312 64.91 2i7vA 459 66.44 2jfgA 445 66.44 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1x1eA 239 66.61 2bd0A 244 66.92 c.2.1.2 128321 2hrdA 253 67.16 2q46A 253 68.44 c.2.1.2 139825 1drwA 273 68.90 c.2.1.3,d.81.1.3 30057,39972 2hq1A 247 69.25 8atcA 310 69.53 c.78.1.1,c.78.1.1 35132,35133 2p91A 285 70.95 1lvl 458 71.11 1orrA 347 71.30 c.2.1.2 93460 2i8aA 252 71.49 1qh8A 478 71.85 c.92.2.3 35633 3grs 478 72.64 1l9cA 389 73.41 c.3.1.2,d.16.1.3 77815,77816 1h1lA 481 74.03 c.92.2.3 70851 2cvjA 180 74.05 1acmA 310 75.02 c.78.1.1,c.78.1.1 35180,35181 1c0pA 363 75.46 c.4.1.2,d.16.1.3 30647,37934 1rkqA 282 77.49 c.108.1.10 97621 1i24A 404 78.26 c.2.1.2 83663 1kjqA 391 80.95 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1trb 320 81.30 1l7mA 211 82.05 c.108.1.4 73664 2cmdA 312 83.56 c.2.1.5,d.162.1.1 30135,42102 1bgvA 449 83.96 c.2.1.7,c.58.1.1 30217,33865 1pvvA 315 84.60 c.78.1.1,c.78.1.1 95190,95191 1xxlA 239 84.86 c.66.1.41 116203 1uh5A 329 85.43 c.2.1.2 107840 2nxcA 254 86.63 c.66.1.39 138739 1pbeA 394 86.73 c.3.1.2,d.16.1.2 30338,37869 2yutA 207 86.91 1xa0A 328 87.35 b.35.1.2,c.2.1.1 115021,115022 1kdgA 546 87.59 c.3.1.2,d.16.1.1 77337,77338 1z45A 699 87.61 b.30.5.4,c.2.1.2 124427,124428 1ooeA 236 89.21 c.2.1.2 87196 1i2cA 404 89.43 c.2.1.2 83666 1p9lA 245 89.69 c.2.1.3,d.81.1.3 94393,94394 1yvvA 336 89.75 2qfmA 364 89.90