# List of top-scoring protein chains for t2k-w0.5-1-alpha-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 8.53e-09 2ahrA 259 1.63e-08 a.100.1.10,c.2.1.6 126775,126776 2graA 277 2.78e-08 2rcyA 262 6.59e-08 1vpdA 299 6.89e-08 a.100.1.1,c.2.1.6 113951,113952 2h78A 302 7.16e-08 2i76A 276 7.90e-08 2izzA 322 8.69e-08 1pgjA 478 1.39e-07 a.100.1.1,c.2.1.6 18783,30195 1yb4A 295 1.82e-07 2pgd 482 2.41e-07 2cvzA 289 3.08e-07 a.100.1.1,c.2.1.6 130890,130891 2pgdA 482 7.30e-07 a.100.1.1,c.2.1.6 18778,30190 2f1kA 279 1.32e-06 a.100.1.12,c.2.1.6 132772,132773 2p4qA 497 2.37e-06 1evyA 366 1.02e-05 a.100.1.6,c.2.1.6 18811,30215 1bg6A 359 1.08e-05 a.100.1.5,c.2.1.6 18810,30214 1x0vA 354 1.21e-05 1txgA 335 1.42e-05 a.100.1.6,c.2.1.6 112775,112776 3c24A 286 1.91e-05 2g5cA 281 2.18e-05 a.100.1.12,c.2.1.6 134646,134647 1z82A 335 3.81e-05 1bg6 359 6.61e-05 2b0jA 358 6.77e-05 a.100.1.11,c.2.1.6 127639,127640 1i36A 264 8.36e-05 a.100.1.8,c.2.1.6 71108,71109 1np3A 338 0.000321 a.100.1.2,c.2.1.6 85946,85947 1gpjA 404 0.000348 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2pv7A 298 0.000401 1jayA 212 0.002797 c.2.1.6 66478 2hdhA 293 0.003728 a.100.1.3,c.2.1.6 18795,30199 1nytA 271 0.004499 c.2.1.7,c.58.1.5 86417,86418 2dpoA 319 0.004695 1zcjA 463 0.005191 1f0yA 302 0.005389 a.100.1.3,c.2.1.6 18793,30197 1mv8A 436 0.006546 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1p77A 272 0.01051 c.2.1.7,c.58.1.5 94214,94215 2eggA 297 0.01453 2nloA 302 0.02203 2hk9A 275 0.02868 2d5cA 263 0.02915 1zejA 293 0.04023 2ew2A 316 0.04083 1ks9A 291 0.04179 a.100.1.7,c.2.1.6 68857,68858 1ff9A 450 0.07078 c.2.1.3,d.81.1.2 30039,39954 2nadA 393 0.07134 c.2.1.4,c.23.12.1 30090,31350 1d4fA 431 0.07819 c.2.1.4,c.23.12.3 30110,31370 1npyA 271 0.07859 c.2.1.7,c.58.1.5 85995,85996 1npdA 288 0.07918 c.2.1.7,c.58.1.5 80681,80682 1dljA 402 0.08572 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1wwkA 307 0.09097 1b3rA 431 0.09712 c.2.1.4,c.23.12.3 30106,31366 2o3jA 481 0.1027 1dxy 333 0.1036 1j4aA 333 0.1138 c.2.1.4,c.23.12.1 71502,71503 2nacA 393 0.1185 c.2.1.4,c.23.12.1 30088,31348 1dliA 402 0.1254 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2axqA 467 0.1451 1gdhA 320 0.1530 c.2.1.4,c.23.12.1 30095,31355 2g76A 335 0.1565 2eklA 313 0.1627 1pjcA 361 0.1666 c.2.1.4,c.23.12.2 30101,31361 2dbqA 334 0.1697 1nvtA 287 0.1751 c.2.1.7,c.58.1.5 86270,86271 1xdwA 331 0.1814 1lssA 140 0.1829 c.2.1.9 74246 1dxyA 333 0.2024 c.2.1.4,c.23.12.1 30094,31354 1mx3A 347 0.2044 c.2.1.4,c.23.12.1 79638,79639 1tltA 319 0.2091 c.2.1.3,d.81.1.5 107135,107136 1yrlA 491 0.2119 2o7sA 523 0.2227 2gcgA 330 0.2442 1ygyA 529 0.2464 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1qp8A 303 0.2524 c.2.1.4,c.23.12.1 30092,31352 2j6iA 364 0.2599 2nvwA 479 0.2639 c.2.1.3,d.81.1.5 138665,138666 2dldA 337 0.2660 c.2.1.4,c.23.12.1 30099,31359 2cukA 311 0.2850 2fssA 365 0.2907 2o4cA 380 0.3152 2pi1A 334 0.3226 2ho3A 325 0.3487 2d0iA 333 0.3510 1vi2A 300 0.3623 c.2.1.7,c.58.1.5 100726,100727 2g1uA 155 0.3915 1qmgA 524 0.4591 a.100.1.2,c.2.1.6 18785,30182 1li4A 432 0.4936 c.2.1.4,c.23.12.3 84616,84617 1psdA 409 0.4947 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 2p2sA 336 0.4975 1a7aA 432 0.5762 c.2.1.4,c.23.12.3 30104,31364 1ofgA 381 0.6322 c.2.1.3,d.81.1.5 30064,39979 1zh8A 340 0.6858 c.2.1.3,d.81.1.5 125077,125078 1l7dA 384 0.7101 c.2.1.4,c.23.12.2 77774,77775 1xeaA 323 0.7120 c.2.1.3,d.81.1.5 109572,109573 1rydA 387 0.7377 c.2.1.3,d.81.1.5 118801,118802 2o4uX 334 0.7484 2q4eA 362 0.7697 1h6dA 433 0.7730 c.2.1.3,d.81.1.5 65656,65657 1sc6A 404 0.8075 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2glxA 332 0.8124 1luaA 287 0.8407 c.2.1.7,c.58.1.4 78216,78217 3ceaA 346 0.8685 3c85A 183 0.9155 1v8bA 479 1.006 c.2.1.4,c.23.12.3 113564,113565 2vojA 371 1.043 2vhxA 377 1.103 1xwfA 431 1.263 c.2.1.4,c.23.12.3 122392,122393 1lsuA 147 1.360 c.2.1.9 74250 1ceqA 316 1.366 c.2.1.5,d.162.1.1 30163,42130 1omoA 322 1.479 c.2.1.13 104017 1uufA 369 1.516 b.35.1.2,c.2.1.1 100006,100007 3c1aA 315 1.535 2qytA 317 1.535 2ixaA 444 1.622 1ldg 316 1.780 1x7dA 350 2.262 c.2.1.13 114927 1gcuA 295 2.306 c.2.1.3,d.81.1.4 30063,39978 1vllA 334 2.424 c.2.1.13 108834 2gptA 523 2.934 1guzA 310 3.109 c.2.1.5,d.162.1.1 65586,65587 1e3jA 352 3.502 b.35.1.2,c.2.1.1 24765,29781 1bw9A 356 3.585 c.2.1.7,c.58.1.1 30274,33922 6ldhA 329 3.753 c.2.1.5,d.162.1.1 30161,42128 2cdcA 366 3.794 1ez4A 318 3.830 c.2.1.5,d.162.1.1 64917,64918 2hmvA 144 3.996 c.2.1.9 136615 1sayA 361 4.125 c.2.1.4,c.23.12.2 30102,31362 1hdcA 253 4.267 c.2.1.2 29862 2hsdA 253 4.357 c.2.1.2 29866 2cf5A 357 5.083 1lluA 342 5.456 b.35.1.2,c.2.1.1 91064,91065 1id1A 153 5.562 c.2.1.9 62286 1hyhA 309 5.826 c.2.1.5,d.162.1.1 30150,42117 2i6tA 303 6.117 1c1dA 355 6.354 c.2.1.7,c.58.1.1 30270,33918 1lnqA 336 6.405 c.2.1.9,d.286.1.1,f.14.1.1 111576,111577,74050 1yqdA 366 6.716 2d8aA 348 7.281 1bdb 277 7.321 2bkaA 242 7.621 c.2.1.2 128666 1uxjA 309 8.115 c.2.1.5,d.162.1.1 108112,108113 1pl8A 356 8.131 b.35.1.2,c.2.1.1 94878,94879 1a5zA 319 8.317 c.2.1.5,d.162.1.1 30181,42148 2gdzA 267 8.536 c.2.1.2 135043 2q49A 359 8.878 c.2.1.3,d.81.1.1 139831,139832 2aefA 234 9.300 2v7pA 310 9.700 2b5wA 357 9.933 2h6eA 344 10.06 1b0aA 288 10.35 c.2.1.7,c.58.1.2 30286,33934 1xhlA 297 10.46 c.2.1.2 109591 1t2dA 322 10.66 c.2.1.5,d.162.1.1 99084,99085 1vjtA 483 10.85 c.2.1.5,d.162.1.2 100833,100834 1ldnA 316 10.92 c.2.1.5,d.162.1.1 30166,42133 1vl8A 267 10.92 c.2.1.2 108733 2d59A 144 11.38 c.2.1.8 131266 1lc0A 294 11.73 c.2.1.3,d.81.1.4 73823,73824 1a71A 374 11.84 b.35.1.2,c.2.1.1 24673,29689 1yb1A 272 12.26 c.2.1.2 116599 1pjqA 457 12.37 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2a4kA 263 12.49 c.2.1.2 126156 1kyqA 274 12.58 c.2.1.11,e.37.1.1 73281,73282 1jqbA 351 12.60 b.35.1.2,c.2.1.1 77151,77152 1kevA 351 12.71 b.35.1.2,c.2.1.1 24749,29765 2c2xA 281 12.75 1y8qB 640 13.07 1f06A 320 13.10 c.2.1.3,d.81.1.3 59556,59557 1xseA 295 13.38 c.2.1.2 115925 1pzgA 331 13.41 c.2.1.5,d.162.1.1 95425,95426 1a4iA 301 13.50 c.2.1.7,c.58.1.2 30278,33926 2ouiA 360 13.80 1xg5A 279 13.98 c.2.1.2 115277 1hxhA 253 14.66 c.2.1.2 76725 1edoA 244 14.78 c.2.1.2 29896 1ydeA 270 14.83 c.2.1.2 122980 1h2bA 359 15.24 b.35.1.2,c.2.1.1 90543,90544 1y81A 138 15.37 c.2.1.8 122731 1axeA 374 15.91 b.35.1.2,c.2.1.1 24681,29697 1axgA 374 16.01 b.35.1.2,c.2.1.1 24691,29707 1iukA 140 16.09 c.2.1.8 83712 1jw9B 249 16.45 c.111.1.1 67377 1b26A 416 17.03 c.2.1.7,c.58.1.1 30232,33880 1q7bA 244 17.39 c.2.1.2 96026 1x7gA 261 17.52 c.2.1.2 114929 2r6jA 318 17.57 1h7xA 1025 18.21 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 1e6wA 260 18.28 c.2.1.2 59326 1xkqA 280 18.32 c.2.1.2 115417 2r00A 336 18.49 1sbyA 254 18.64 c.2.1.2 118930 2zbwA 335 18.96 1lehA 364 19.04 c.2.1.7,c.58.1.1 30268,33916 2ag5A 246 19.17 c.2.1.2 126719 1y8qA 346 19.28 1ur5A 309 19.41 c.2.1.5,d.162.1.1 99807,99808 1yxmA 303 19.59 c.2.1.2 124192 1y5mA 276 19.60 c.2.1.2 122645 1spxA 278 19.78 c.2.1.2 98958 2bgkA 278 19.95 c.2.1.2 128480 1xu9A 286 20.06 c.2.1.2 116052 9ldtA 332 20.43 c.2.1.5,d.162.1.1 30154,42121 1f8fA 371 20.53 b.35.1.2,c.2.1.1 83246,83247 2pnfA 248 20.60 1nffA 260 20.73 c.2.1.2 80457 1vj0A 380 20.74 b.35.1.2,c.2.1.1 100786,100787 2ewdA 317 20.82 2g17A 337 20.83 c.2.1.3,d.81.1.1 134512,134513 1iy8A 267 22.15 c.2.1.2 83774 1pedA 351 22.31 b.35.1.2,c.2.1.1 24753,29769 2gn4A 344 22.41 1b3bA 415 22.60 c.2.1.7,c.58.1.1 30244,33892 1gtmA 419 22.61 c.2.1.7,c.58.1.1 30223,33871 2gz1A 366 22.93 c.2.1.3,d.81.1.1 135887,135888 1u8xX 472 23.37 c.2.1.5,d.162.1.2 107741,107742 2cfcA 250 24.32 1ja9A 274 24.59 c.2.1.2 62817 1k2wA 256 24.97 c.2.1.2 90927 1e3sA 261 25.10 c.2.1.2 59201 1mjfA 281 25.11 c.66.1.17 79198 1ebdA 455 25.52 c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1ee2A 373 26.88 b.35.1.2,c.2.1.1 24663,29679 1cydA 244 27.67 c.2.1.2 29825 1h5qA 265 28.20 c.2.1.2 60643 2ph5A 480 28.55 1u3wA 374 28.62 b.35.1.2,c.2.1.1 113013,113014 2ef0A 301 28.66 1gteA 1025 28.94 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 1yovA 537 29.37 c.111.1.2 123785 1y1pA 342 29.45 c.2.1.2 122550 1w6uA 302 29.88 c.2.1.2 114288 1gegA 256 30.88 c.2.1.2 29888 1ykfA 352 31.09 b.35.1.2,c.2.1.1 24757,29773 1vknA 351 31.24 c.2.1.3,d.81.1.1 108676,108677 1zemA 262 31.51 c.2.1.2 124984 1vl6A 388 31.52 c.2.1.7,c.58.1.3 108724,108725 2o57A 297 32.67 1fmcA 255 32.94 c.2.1.2 29856 1lldA 319 33.12 c.2.1.5,d.162.1.1 30177,42144 1vqwA 457 33.56 c.3.1.5,c.3.1.5 114028,114029 2o23A 265 33.65 c.2.1.2 138884 1s2oA 244 33.79 c.108.1.10 118846 1zk4A 251 34.03 c.2.1.2 125176 1y9aA 360 34.58 1p0fA 373 35.02 b.35.1.2,c.2.1.1 87642,87643 2c07A 285 35.93 c.2.1.2 129577 1ml4A 308 36.57 c.78.1.1,c.78.1.1 79255,79256 2qa1A 500 36.82 1hwyA 501 37.28 c.2.1.7,c.58.1.1 30262,33910 1rlmA 271 38.24 c.108.1.10 111860 3bioA 304 38.78 1d7oA 297 38.89 c.2.1.2 29907 1l8qA 324 39.31 a.4.12.2,c.37.1.20 77809,77810 3csuA 310 39.39 c.78.1.1,c.78.1.1 35094,35095 1drw 273 39.49 2czcA 334 39.96 d.81.1.1 131044 1vm6A 228 40.20 d.81.1.3,c.2.1.3 108877,118631 1n5dA 288 40.47 c.2.1.2 80030 1he2A 206 41.27 c.2.1.2 60966 2ph3A 245 43.25 2pd6A 264 43.32 2z1nA 260 43.55 1xcbA 211 43.65 a.4.5.38,c.2.1.12 109552,109553 2yyyA 343 43.72 1e5dA 402 44.10 c.23.5.1,d.157.1.3 31208,42061 1pwxA 254 44.37 c.2.1.2 95262 2jhfA 374 44.45 b.35.1.2,c.2.1.1 138314,138315 3cc8A 230 44.48 1bdmA 327 45.36 c.2.1.5,d.162.1.1 30137,42104 3ldh 330 46.33 i.12.1.1 46015 2jahA 247 46.92 2ew8A 249 47.16 c.2.1.2 132447 1zud1 251 47.16 3bkwA 243 47.48 1h7wA 1025 48.01 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 2p91A 285 48.08 1x1tA 260 48.75 c.2.1.2 121597 1mo9A 523 48.88 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1nvmB 312 49.55 c.2.1.3,d.81.1.1 86251,86252 1g0oA 283 50.94 c.2.1.2 60181 1rloA 271 51.17 c.108.1.10 111864 1qo0D 196 52.45 c.23.1.3 31125 2ae2A 260 52.79 c.2.1.2 29945 1ekxA 311 53.54 c.78.1.1,c.78.1.1 35088,35089 1obbA 480 54.66 c.2.1.5,d.162.1.2 86760,86761 2r0cA 549 54.74 2gasA 307 59.08 1othA 321 61.07 c.78.1.1,c.78.1.1 35260,35261 2c5aA 379 61.62 c.2.1.2 129894 2yquA 455 61.73 1edzA 320 62.17 c.2.1.7,c.58.1.2 30287,33935 1enp 312 62.46 1zmdA 474 63.37 1ybvA 283 63.66 c.2.1.2 29948 3cggA 195 63.74 1hdoA 206 64.11 c.2.1.2 60965 1k6xA 352 64.92 c.2.1.2 68238 2i8aA 252 65.46 1gcoA 261 66.04 c.2.1.2 29884 1dhr 241 66.07 2hq1A 247 67.37 1rkqA 282 67.48 c.108.1.10 97621 1trbA 320 68.39 c.3.1.5,c.3.1.5 30529,30530 1cf2O 337 68.40 c.2.1.3,d.81.1.1 29994,39909 2gv8A 447 68.53 c.3.1.5,c.3.1.5 135759,135760 1xgkA 352 69.69 c.2.1.2 115286 2bi7A 384 70.00 2hrdA 253 70.82 1zk7A 467 71.15 1b16A 254 71.89 c.2.1.2 29875 1wpgA 994 73.36 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 1wmaA 276 74.16 c.2.1.2 121042 1kdgA 546 74.66 c.3.1.2,d.16.1.1 77337,77338 1x13A 401 75.11 8atcA 310 75.65 c.78.1.1,c.78.1.1 35132,35133 1b8pA 329 76.91 c.2.1.5,d.162.1.1 30147,42114 1ae1A 273 77.04 c.2.1.2 29943 1hwxA 501 77.51 c.2.1.7,c.58.1.1 30250,33898 1ek6A 348 78.86 c.2.1.2 29800 2q1sA 377 79.44 1ee9A 320 80.86 c.2.1.7,c.58.1.2 30288,33936 1cjcA 460 81.37 c.3.1.1,c.4.1.1 30319,30604 2cvjA 180 81.94 2jfgA 445 82.23 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1y56A 493 82.24 1kolA 398 82.71 b.35.1.2,c.2.1.1 77474,77475 2dt5A 211 82.85 a.4.5.38,c.2.1.12 131708,131709 2h7mA 269 83.07 c.2.1.2 136219 1acmA 310 83.24 c.78.1.1,c.78.1.1 35180,35181 3c96A 415 84.03 1fl2A 310 84.03 c.3.1.5,c.3.1.5 59869,59870 1kpgA 287 84.98 c.66.1.18 68735 1nhp 447 87.61 1udcA 338 88.24 c.2.1.2 29785 1dapA 320 88.96 c.2.1.3,d.81.1.3 30053,39968 2yqzA 263 89.54 1n8kA 374 89.62 b.35.1.2,c.2.1.1 80298,80299