# List of top-scoring protein chains for t2k-w0.5-1-n_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 4.80e-08 2ahrA 259 1.07e-07 a.100.1.10,c.2.1.6 126775,126776 1vpdA 299 2.44e-07 a.100.1.1,c.2.1.6 113951,113952 2h78A 302 2.69e-07 2rcyA 262 4.60e-07 2graA 277 4.70e-07 2i76A 276 5.44e-07 2izzA 322 5.66e-07 1yb4A 295 8.31e-07 1pgjA 478 8.70e-07 a.100.1.1,c.2.1.6 18783,30195 2cvzA 289 1.10e-06 a.100.1.1,c.2.1.6 130890,130891 2pgd 482 1.30e-06 2pgdA 482 4.19e-06 a.100.1.1,c.2.1.6 18778,30190 2f1kA 279 6.44e-06 a.100.1.12,c.2.1.6 132772,132773 2p4qA 497 1.23e-05 3c24A 286 3.03e-05 1evyA 366 3.35e-05 a.100.1.6,c.2.1.6 18811,30215 1x0vA 354 3.76e-05 1txgA 335 5.22e-05 a.100.1.6,c.2.1.6 112775,112776 2g5cA 281 5.63e-05 a.100.1.12,c.2.1.6 134646,134647 1bg6A 359 5.87e-05 a.100.1.5,c.2.1.6 18810,30214 1z82A 335 0.000142 2b0jA 358 0.000158 a.100.1.11,c.2.1.6 127639,127640 1bg6 359 0.000189 1i36A 264 0.000217 a.100.1.8,c.2.1.6 71108,71109 1np3A 338 0.000761 a.100.1.2,c.2.1.6 85946,85947 1gpjA 404 0.000962 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2pv7A 298 0.000974 2hdhA 293 0.005267 a.100.1.3,c.2.1.6 18795,30199 1jayA 212 0.005315 c.2.1.6 66478 1f0yA 302 0.006112 a.100.1.3,c.2.1.6 18793,30197 2dpoA 319 0.007307 1nytA 271 0.008196 c.2.1.7,c.58.1.5 86417,86418 1zcjA 463 0.009083 1p77A 272 0.01423 c.2.1.7,c.58.1.5 94214,94215 1mv8A 436 0.01622 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2eggA 297 0.02489 2d5cA 263 0.02871 2nloA 302 0.03400 1zejA 293 0.03957 2hk9A 275 0.04760 2ew2A 316 0.05814 1ks9A 291 0.06608 a.100.1.7,c.2.1.6 68857,68858 1npyA 271 0.07476 c.2.1.7,c.58.1.5 85995,85996 1npdA 288 0.09292 c.2.1.7,c.58.1.5 80681,80682 2o3jA 481 0.09626 1ff9A 450 0.09876 c.2.1.3,d.81.1.2 30039,39954 2nadA 393 0.1007 c.2.1.4,c.23.12.1 30090,31350 1b3rA 431 0.1212 c.2.1.4,c.23.12.3 30106,31366 1d4fA 431 0.1381 c.2.1.4,c.23.12.3 30110,31370 1dxy 333 0.1446 1j4aA 333 0.1483 c.2.1.4,c.23.12.1 71502,71503 1dljA 402 0.1536 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1nvtA 287 0.1851 c.2.1.7,c.58.1.5 86270,86271 1gdhA 320 0.1874 c.2.1.4,c.23.12.1 30095,31355 1wwkA 307 0.1875 2nacA 393 0.1896 c.2.1.4,c.23.12.1 30088,31348 1dliA 402 0.2056 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1xdwA 331 0.2166 2g76A 335 0.2309 1tltA 319 0.2368 c.2.1.3,d.81.1.5 107135,107136 2ho3A 325 0.2401 1mx3A 347 0.2486 c.2.1.4,c.23.12.1 79638,79639 1pjcA 361 0.2501 c.2.1.4,c.23.12.2 30101,31361 2o7sA 523 0.2587 2nvwA 479 0.2603 c.2.1.3,d.81.1.5 138665,138666 2dbqA 334 0.3103 2p2sA 336 0.3111 2o4uX 334 0.3224 1vi2A 300 0.3420 c.2.1.7,c.58.1.5 100726,100727 2axqA 467 0.3627 1dxyA 333 0.3719 c.2.1.4,c.23.12.1 30094,31354 2pi1A 334 0.3779 1yrlA 491 0.3847 1lssA 140 0.3901 c.2.1.9 74246 2dldA 337 0.4073 c.2.1.4,c.23.12.1 30099,31359 1qp8A 303 0.4405 c.2.1.4,c.23.12.1 30092,31352 2j6iA 364 0.4511 2glxA 332 0.4525 1ygyA 529 0.4545 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1li4A 432 0.4622 c.2.1.4,c.23.12.3 84616,84617 1zh8A 340 0.4732 c.2.1.3,d.81.1.5 125077,125078 2g1uA 155 0.5005 2gcgA 330 0.5030 2q4eA 362 0.5090 2cukA 311 0.5184 2o4cA 380 0.5204 1luaA 287 0.5273 c.2.1.7,c.58.1.4 78216,78217 2fssA 365 0.5328 3ceaA 346 0.5633 1xeaA 323 0.6026 c.2.1.3,d.81.1.5 109572,109573 1sc6A 404 0.6234 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1a7aA 432 0.6261 c.2.1.4,c.23.12.3 30104,31364 1ofgA 381 0.6415 c.2.1.3,d.81.1.5 30064,39979 1rydA 387 0.6956 c.2.1.3,d.81.1.5 118801,118802 2ixaA 444 0.7556 2qytA 317 0.7752 1psdA 409 0.8098 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 3c1aA 315 0.8246 2d0iA 333 0.8735 1qmgA 524 0.8746 a.100.1.2,c.2.1.6 18785,30182 1l7dA 384 0.9582 c.2.1.4,c.23.12.2 77774,77775 1h6dA 433 0.9950 c.2.1.3,d.81.1.5 65656,65657 1v8bA 479 1.062 c.2.1.4,c.23.12.3 113564,113565 3c85A 183 1.115 1lsuA 147 1.172 c.2.1.9 74250 1xwfA 431 1.252 c.2.1.4,c.23.12.3 122392,122393 2eklA 313 1.272 2vojA 371 1.376 1x7dA 350 1.463 c.2.1.13 114927 1omoA 322 1.483 c.2.1.13 104017 1vllA 334 1.529 c.2.1.13 108834 2vhxA 377 1.546 1id1A 153 1.577 c.2.1.9 62286 1gcuA 295 1.729 c.2.1.3,d.81.1.4 30063,39978 1uufA 369 1.898 b.35.1.2,c.2.1.1 100006,100007 2hmvA 144 2.215 c.2.1.9 136615 1e3jA 352 2.224 b.35.1.2,c.2.1.1 24765,29781 2cdcA 366 2.484 1ceqA 316 2.732 c.2.1.5,d.162.1.1 30163,42130 1ldg 316 2.736 1hdcA 253 3.118 c.2.1.2 29862 2hsdA 253 3.138 c.2.1.2 29866 6ldhA 329 3.209 c.2.1.5,d.162.1.1 30161,42128 1ez4A 318 3.236 c.2.1.5,d.162.1.1 64917,64918 1pl8A 356 3.474 b.35.1.2,c.2.1.1 94878,94879 1lluA 342 3.541 b.35.1.2,c.2.1.1 91064,91065 1bw9A 356 3.594 c.2.1.7,c.58.1.1 30274,33922 1h2bA 359 3.844 b.35.1.2,c.2.1.1 90543,90544 2gptA 523 3.886 2d8aA 348 3.915 2v7pA 310 4.202 2h6eA 344 4.404 1guzA 310 4.573 c.2.1.5,d.162.1.1 65586,65587 1bdb 277 4.925 1c1dA 355 4.948 c.2.1.7,c.58.1.1 30270,33918 2aefA 234 4.988 1f06A 320 5.076 c.2.1.3,d.81.1.3 59556,59557 1f8fA 371 5.080 b.35.1.2,c.2.1.1 83246,83247 2gdzA 267 5.218 c.2.1.2 135043 1uxjA 309 5.343 c.2.1.5,d.162.1.1 108112,108113 1kevA 351 5.410 b.35.1.2,c.2.1.1 24749,29765 1yqdA 366 5.422 1vj0A 380 5.650 b.35.1.2,c.2.1.1 100786,100787 1hyhA 309 5.816 c.2.1.5,d.162.1.1 30150,42117 1a5zA 319 5.853 c.2.1.5,d.162.1.1 30181,42148 3bioA 304 5.899 2cf5A 357 6.101 2b5wA 357 6.357 1lc0A 294 6.987 c.2.1.3,d.81.1.4 73823,73824 1pjqA 457 7.039 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1jqbA 351 7.188 b.35.1.2,c.2.1.1 77151,77152 1yb1A 272 7.550 c.2.1.2 116599 1a71A 374 7.650 b.35.1.2,c.2.1.1 24673,29689 1pedA 351 8.199 b.35.1.2,c.2.1.1 24753,29769 1hxhA 253 8.206 c.2.1.2 76725 2ouiA 360 8.594 1lnqA 336 8.758 c.2.1.9,d.286.1.1,f.14.1.1 111576,111577,74050 2bkaA 242 8.797 c.2.1.2 128666 1y9aA 360 8.829 1xg5A 279 8.981 c.2.1.2 115277 1xseA 295 9.307 c.2.1.2 115925 1vjtA 483 9.348 c.2.1.5,d.162.1.2 100833,100834 1axgA 374 9.464 b.35.1.2,c.2.1.1 24691,29707 1vl8A 267 9.817 c.2.1.2 108733 1q7bA 244 9.831 c.2.1.2 96026 1sbyA 254 10.11 c.2.1.2 118930 1ur5A 309 10.24 c.2.1.5,d.162.1.1 99807,99808 1t2dA 322 10.56 c.2.1.5,d.162.1.1 99084,99085 1axeA 374 10.61 b.35.1.2,c.2.1.1 24681,29697 1lehA 364 10.72 c.2.1.7,c.58.1.1 30268,33916 1nffA 260 10.82 c.2.1.2 80457 1ydeA 270 10.95 c.2.1.2 122980 1xhlA 297 11.16 c.2.1.2 109591 2q49A 359 11.19 c.2.1.3,d.81.1.1 139831,139832 1ldnA 316 11.20 c.2.1.5,d.162.1.1 30166,42133 2i6tA 303 11.28 2a4kA 263 11.37 c.2.1.2 126156 1yxmA 303 11.43 c.2.1.2 124192 1k2wA 256 11.74 c.2.1.2 90927 1kyqA 274 12.05 c.2.1.11,e.37.1.1 73281,73282 1y81A 138 12.22 c.2.1.8 122731 1e6wA 260 12.24 c.2.1.2 59326 1sayA 361 12.35 c.2.1.4,c.23.12.2 30102,31362 1edoA 244 12.50 c.2.1.2 29896 1xu9A 286 13.13 c.2.1.2 116052 2gz1A 366 13.14 c.2.1.3,d.81.1.1 135887,135888 1nvmB 312 13.33 c.2.1.3,d.81.1.1 86251,86252 1spxA 278 13.33 c.2.1.2 98958 1ykfA 352 13.56 b.35.1.2,c.2.1.1 24757,29773 1gegA 256 13.77 c.2.1.2 29888 2ag5A 246 13.78 c.2.1.2 126719 2jhfA 374 14.13 b.35.1.2,c.2.1.1 138314,138315 2pnfA 248 14.22 2g17A 337 14.27 c.2.1.3,d.81.1.1 134512,134513 1b0aA 288 14.28 c.2.1.7,c.58.1.2 30286,33934 1jw9B 249 14.36 c.111.1.1 67377 1y8qB 640 14.37 1a4iA 301 14.42 c.2.1.7,c.58.1.2 30278,33926 1p0fA 373 14.42 b.35.1.2,c.2.1.1 87642,87643 1iukA 140 14.54 c.2.1.8 83712 2r6jA 318 14.57 1kolA 398 14.91 b.35.1.2,c.2.1.1 77474,77475 1vknA 351 15.05 c.2.1.3,d.81.1.1 108676,108677 1x7gA 261 15.25 c.2.1.2 114929 1ja9A 274 15.62 c.2.1.2 62817 1ee2A 373 15.77 b.35.1.2,c.2.1.1 24663,29679 9ldtA 332 15.92 c.2.1.5,d.162.1.1 30154,42121 1iy8A 267 16.05 c.2.1.2 83774 1cydA 244 16.39 c.2.1.2 29825 1y5mA 276 16.57 c.2.1.2 122645 1e3sA 261 16.97 c.2.1.2 59201 1xkqA 280 17.20 c.2.1.2 115417 2zbwA 335 17.34 2d59A 144 17.76 c.2.1.8 131266 2r00A 336 17.91 2cfcA 250 18.01 1u3wA 374 18.11 b.35.1.2,c.2.1.1 113013,113014 2pd6A 264 18.28 2bgkA 278 18.71 c.2.1.2 128480 2ewdA 317 18.77 1h7xA 1025 18.93 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 1w6uA 302 19.36 c.2.1.2 114288 1lldA 319 19.87 c.2.1.5,d.162.1.1 30177,42144 1u8xX 472 20.31 c.2.1.5,d.162.1.2 107741,107742 1fmcA 255 20.64 c.2.1.2 29856 2c07A 285 21.39 c.2.1.2 129577 1obbA 480 21.53 c.2.1.5,d.162.1.2 86760,86761 1s6yA 450 21.62 c.2.1.5,d.162.1.2 105314,105315 1vl6A 388 21.78 c.2.1.7,c.58.1.3 108724,108725 2gn4A 344 22.15 1h5qA 265 23.19 c.2.1.2 60643 1pzgA 331 23.45 c.2.1.5,d.162.1.1 95425,95426 1ebdA 455 24.03 c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 2o23A 265 24.05 c.2.1.2 138884 2ph5A 480 24.30 1zemA 262 24.45 c.2.1.2 124984 1n8kA 374 24.81 b.35.1.2,c.2.1.1 80298,80299 1ml4A 308 25.30 c.78.1.1,c.78.1.1 79255,79256 2jahA 247 26.34 1b8pA 329 26.42 c.2.1.5,d.162.1.1 30147,42114 3cc8A 230 26.56 1zk4A 251 26.92 c.2.1.2 125176 1n5dA 288 27.67 c.2.1.2 80030 1fl2A 310 27.72 c.3.1.5,c.3.1.5 59869,59870 2ew8A 249 28.28 c.2.1.2 132447 1g0oA 283 28.33 c.2.1.2 60181 2c2xA 281 28.61 1vm6A 228 28.73 d.81.1.3,c.2.1.3 108877,118631 3bkwA 243 29.38 2r0cA 549 29.54 2ohxA 374 29.97 b.35.1.2,c.2.1.1 24669,29685 2dt5A 211 30.81 a.4.5.38,c.2.1.12 131708,131709 1he2A 206 31.06 c.2.1.2 60966 1gtmA 419 31.35 c.2.1.7,c.58.1.1 30223,33871 1l8qA 324 31.60 a.4.12.2,c.37.1.20 77809,77810 2gasA 307 31.96 1b26A 416 32.49 c.2.1.7,c.58.1.1 30232,33880 1b3bA 415 32.63 c.2.1.7,c.58.1.1 30244,33892 1gcoA 261 32.86 c.2.1.2 29884 1b16A 254 33.23 c.2.1.2 29875 2ae2A 260 33.55 c.2.1.2 29945 1othA 321 34.14 c.78.1.1,c.78.1.1 35260,35261 1zmdA 474 34.19 1ybvA 283 34.47 c.2.1.2 29948 1hwyA 501 34.81 c.2.1.7,c.58.1.1 30262,33910 1y8qA 346 35.13 2dc1A 236 35.98 1edzA 320 36.31 c.2.1.7,c.58.1.2 30287,33935 1x1tA 260 36.37 c.2.1.2 121597 1vqwA 457 37.00 c.3.1.5,c.3.1.5 114028,114029 1cjcA 460 37.57 c.3.1.1,c.4.1.1 30319,30604 1hdoA 206 37.73 c.2.1.2 60965 2ph3A 245 38.80 2ef0A 301 39.11 1qo0D 196 39.12 c.23.1.3 31125 2czcA 334 39.64 d.81.1.1 131044 1xgkA 352 40.29 c.2.1.2 115286 1e5dA 402 40.88 c.23.5.1,d.157.1.3 31208,42061 1yb5A 351 42.25 b.35.1.2,c.2.1.1 116601,116602 2yyyA 343 42.28 3csuA 310 42.46 c.78.1.1,c.78.1.1 35094,35095 1d7oA 297 42.69 c.2.1.2 29907 1pwxA 254 43.39 c.2.1.2 95262 1yovA 537 43.85 c.111.1.2 123785 1zk7A 467 44.01 2qa1A 500 44.63 1bdmA 327 45.71 c.2.1.5,d.162.1.1 30137,42104 1p3dA 475 45.73 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1dhr 241 46.06 1ae1A 273 46.74 c.2.1.2 29943 1jvbA 347 46.91 b.35.1.2,c.2.1.1 77181,77182 1zud1 251 47.43 2p91A 285 47.57 2o57A 297 48.02 1h7wA 1025 48.18 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 1ekxA 311 48.72 c.78.1.1,c.78.1.1 35088,35089 2bd0A 244 48.80 c.2.1.2 128321 3c96A 415 49.26 1k6xA 352 49.74 c.2.1.2 68238 1wmaA 276 50.55 c.2.1.2 121042 1drw 273 51.20 2gv8A 447 51.52 c.3.1.5,c.3.1.5 135759,135760 1mjfA 281 51.85 c.66.1.17 79198 2d1yA 256 52.27 c.2.1.2 131151 1oi7A 288 53.09 c.2.1.8,c.23.4.1 87049,87050 1d7yA 408 54.81 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 2c5aA 379 56.18 c.2.1.2 129894 1ykjA 394 56.64 2q1sA 377 56.68 1mo9A 523 56.87 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1hyuA 521 57.33 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1nhp 447 58.04 3cggA 195 58.07 1kdgA 546 58.23 c.3.1.2,d.16.1.1 77337,77338 1ee9A 320 58.60 c.2.1.7,c.58.1.2 30288,33936 2blnA 305 60.40 b.46.1.1,c.65.1.1 128734,128735 2fr1A 486 60.42 c.2.1.2,c.2.1.2 133961,133962 2i6uA 307 60.43 1x1eA 239 60.62 1trbA 320 60.71 c.3.1.5,c.3.1.5 30529,30530 1s2oA 244 61.13 c.108.1.10 118846 1dv2A 452 62.01 b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1wpgA 994 62.05 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 1kjqA 391 62.48 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1ooeA 236 63.30 c.2.1.2 87196 2nwqA 272 63.79 1enp 312 64.11 1z45A 699 65.43 b.30.5.4,c.2.1.2 124427,124428 3ladA 476 66.08 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1pbeA 394 66.80 c.3.1.2,d.16.1.2 30338,37869 2hq1A 247 68.27 2nxcA 254 68.71 c.66.1.39 138739 1gteA 1025 68.71 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 1ys4A 354 69.95 2hjsA 340 70.10 c.2.1.3,d.81.1.1 136547,136548 2h7mA 269 70.13 c.2.1.2 136219 1pvvA 315 70.15 c.78.1.1,c.78.1.1 95190,95191 1cf2O 337 70.27 c.2.1.3,d.81.1.1 29994,39909 1dapA 320 71.24 c.2.1.3,d.81.1.3 30053,39968 2i8aA 252 71.52 2z1nA 260 72.29 1yvvA 336 72.44 2q46A 253 74.48 c.2.1.2 139825 2cvjA 180 75.23 1uh5A 329 75.26 c.2.1.2 107840 1qycA 308 75.37 c.2.1.2 96581 2hcyA 347 77.04 1j5pA 253 77.71 d.81.1.3,c.2.1.3 71577,83092 2bi7A 384 78.58 1rkxA 357 79.27 c.2.1.2 97631 1qydA 313 79.53 c.2.1.2 96583 2hrdA 253 79.56 1yqzA 438 80.74 1yo6A 250 81.03 c.2.1.2 123769 1ne2A 200 82.05 c.66.1.32 85586 2a9fA 398 83.09 2q0lA 311 83.66 2scuA 288 84.31 c.2.1.8,c.23.4.1 30303,31131 1reoA 486 84.34 c.3.1.2,d.16.1.5 97325,97326 2iw1A 374 84.85 c.87.1.8 137738 1nhsA 447 85.05 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1dv1A 449 86.75 b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1hwxA 501 87.25 c.2.1.7,c.58.1.1 30250,33898 1fjhB 257 87.65 c.2.1.2 29871 1pg5A 299 87.87 c.78.1.1,c.78.1.1 104146,104147 2jaeA 489 88.40 1nhpA 447 88.69 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1udcA 338 88.87 c.2.1.2 29785