# List of top-scoring protein chains for t04-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 2h78A 302 3.80e-11 1yb4A 295 4.35e-11 1vpdA 299 1.77e-10 a.100.1.1,c.2.1.6 113951,113952 2i76A 276 2.58e-10 2rcyA 262 3.39e-10 2ahrA 259 3.42e-10 a.100.1.10,c.2.1.6 126775,126776 2izzA 322 4.01e-10 1yqgA 263 1.67e-09 2pgdA 482 1.78e-09 a.100.1.1,c.2.1.6 18778,30190 2f1kA 279 1.91e-09 a.100.1.12,c.2.1.6 132772,132773 2cvzA 289 2.07e-09 a.100.1.1,c.2.1.6 130890,130891 2graA 277 2.53e-09 2p4qA 497 3.23e-09 2g5cA 281 4.90e-09 a.100.1.12,c.2.1.6 134646,134647 2pv7A 298 6.63e-09 1np3A 338 2.77e-08 a.100.1.2,c.2.1.6 85946,85947 1pgjA 478 3.06e-08 a.100.1.1,c.2.1.6 18783,30195 2pgd 482 4.32e-08 3c24A 286 9.74e-08 1i36A 264 2.53e-07 a.100.1.8,c.2.1.6 71108,71109 1bg6 359 3.82e-07 1ks9A 291 5.33e-07 a.100.1.7,c.2.1.6 68857,68858 1txgA 335 7.89e-07 a.100.1.6,c.2.1.6 112775,112776 1yrlA 491 9.41e-07 1qmgA 524 1.09e-06 a.100.1.2,c.2.1.6 18785,30182 2ew2A 316 2.23e-06 1zejA 293 2.79e-06 1evyA 366 3.28e-06 a.100.1.6,c.2.1.6 18811,30215 2o3jA 481 5.58e-06 1dljA 402 7.87e-06 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1mv8A 436 8.09e-06 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1f0yA 302 8.69e-06 a.100.1.3,c.2.1.6 18793,30197 1dliA 402 1.62e-05 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1z82A 335 2.11e-05 1zcjA 463 0.000120 1jayA 212 0.000243 c.2.1.6 66478 2dpoA 319 0.001744 1bg6A 359 0.001835 a.100.1.5,c.2.1.6 18810,30214 1x0vA 354 0.002723 1ff9A 450 0.005389 c.2.1.3,d.81.1.2 30039,39954 2nacA 393 0.007931 c.2.1.4,c.23.12.1 30088,31348 2qytA 317 0.008474 1gdhA 320 0.01499 c.2.1.4,c.23.12.1 30095,31355 2b0jA 358 0.02790 a.100.1.11,c.2.1.6 127639,127640 1tltA 319 0.03379 c.2.1.3,d.81.1.5 107135,107136 2fssA 365 0.03726 1mx3A 347 0.04681 c.2.1.4,c.23.12.1 79638,79639 2j6iA 364 0.04959 1ldg 316 0.05277 1wwkA 307 0.05499 1u8xX 472 0.06178 c.2.1.5,d.162.1.2 107741,107742 1xwfA 431 0.06180 c.2.1.4,c.23.12.3 122392,122393 1t2dA 322 0.06351 c.2.1.5,d.162.1.1 99084,99085 1j4aA 333 0.07591 c.2.1.4,c.23.12.1 71502,71503 1vllA 334 0.08068 c.2.1.13 108834 1d4fA 431 0.08121 c.2.1.4,c.23.12.3 30110,31370 2hk9A 275 0.08186 2g76A 335 0.09094 1omoA 322 0.09726 c.2.1.13 104017 1psdA 409 0.1010 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1gpjA 404 0.1031 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1xdwA 331 0.1067 1li4A 432 0.1119 c.2.1.4,c.23.12.3 84616,84617 1pzgA 331 0.1119 c.2.1.5,d.162.1.1 95425,95426 1lldA 319 0.1123 c.2.1.5,d.162.1.1 30177,42144 1uxjA 309 0.1501 c.2.1.5,d.162.1.1 108112,108113 1x7dA 350 0.1644 c.2.1.13 114927 1xeaA 323 0.1778 c.2.1.3,d.81.1.5 109572,109573 1lssA 140 0.1964 c.2.1.9 74246 1up6A 416 0.2065 c.2.1.5,d.162.1.2 107976,107977 1dxy 333 0.2159 1ur5A 309 0.2210 c.2.1.5,d.162.1.1 99807,99808 2dbqA 334 0.2365 2d0iA 333 0.2670 2o4cA 380 0.2719 2pi1A 334 0.2958 1qp8A 303 0.3035 c.2.1.4,c.23.12.1 30092,31352 1v8bA 479 0.3380 c.2.1.4,c.23.12.3 113564,113565 1up7A 417 0.3477 c.2.1.5,d.162.1.2 113374,113375 1ygyA 529 0.3599 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2d5cA 263 0.3885 1sc6A 404 0.4488 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1nytA 271 0.5057 c.2.1.7,c.58.1.5 86417,86418 1hyhA 309 0.5169 c.2.1.5,d.162.1.1 30150,42117 2nvwA 479 0.5507 c.2.1.3,d.81.1.5 138665,138666 2ewdA 317 0.5610 2gcgA 330 0.5918 1guzA 310 0.6807 c.2.1.5,d.162.1.1 65586,65587 2nloA 302 0.7363 1f06A 320 0.8185 c.2.1.3,d.81.1.3 59556,59557 2cukA 311 0.8811 6ldhA 329 0.8888 c.2.1.5,d.162.1.1 30161,42128 1dxyA 333 0.8914 c.2.1.4,c.23.12.1 30094,31354 2axqA 467 0.9353 1s6yA 450 0.9400 c.2.1.5,d.162.1.2 105314,105315 1obbA 480 0.9571 c.2.1.5,d.162.1.2 86760,86761 2eggA 297 0.9725 1npyA 271 1.013 c.2.1.7,c.58.1.5 85995,85996 1c1dA 355 1.075 c.2.1.7,c.58.1.1 30270,33918 1pjcA 361 1.115 c.2.1.4,c.23.12.2 30101,31361 2hmvA 144 1.134 c.2.1.9 136615 1vjtA 483 1.148 c.2.1.5,d.162.1.2 100833,100834 1qv9A 283 1.394 c.127.1.1 96356 1lehA 364 1.475 c.2.1.7,c.58.1.1 30268,33916 1nvtA 287 1.488 c.2.1.7,c.58.1.5 86270,86271 1a5zA 319 1.489 c.2.1.5,d.162.1.1 30181,42148 1p77A 272 1.545 c.2.1.7,c.58.1.5 94214,94215 2gptA 523 1.687 2vhxA 377 1.719 2d59A 144 1.725 c.2.1.8 131266 2v7pA 310 1.812 2i6tA 303 1.855 2ho3A 325 2.130 1gcuA 295 2.264 c.2.1.3,d.81.1.4 30063,39978 1iukA 140 2.635 c.2.1.8 83712 2glxA 332 2.707 1ez4A 318 2.729 c.2.1.5,d.162.1.1 64917,64918 2dc1A 236 2.741 2g1uA 155 2.986 2o7sA 523 3.355 2vojA 371 3.415 3c85A 183 3.425 1hdoA 206 3.629 c.2.1.2 60965 1a4iA 301 3.646 c.2.1.7,c.58.1.2 30278,33926 1lsuA 147 3.874 c.2.1.9 74250 1nvmB 312 4.627 c.2.1.3,d.81.1.1 86251,86252 2q4eA 362 4.846 1y81A 138 4.902 c.2.1.8 122731 1scuA 288 5.037 c.2.1.8,c.23.4.1 30307,31135 1vknA 351 5.315 c.2.1.3,d.81.1.1 108676,108677 2p2sA 336 5.375 1luaA 287 5.415 c.2.1.7,c.58.1.4 78216,78217 1ofgA 381 5.533 c.2.1.3,d.81.1.5 30064,39979 2nqtA 352 5.578 1vi2A 300 6.370 c.2.1.7,c.58.1.5 100726,100727 2czcA 334 6.560 d.81.1.1 131044 2csuA 457 6.793 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1l7dA 384 6.939 c.2.1.4,c.23.12.2 77774,77775 2g17A 337 7.002 c.2.1.3,d.81.1.1 134512,134513 2cmdA 312 7.178 c.2.1.5,d.162.1.1 30135,42102 1h6dA 433 7.198 c.2.1.3,d.81.1.5 65656,65657 2hjsA 340 8.081 c.2.1.3,d.81.1.1 136547,136548 3ceaA 346 8.743 1b0aA 288 8.869 c.2.1.7,c.58.1.2 30286,33934 1j5pA 253 9.240 d.81.1.3,c.2.1.3 71577,83092 2gz1A 366 10.28 c.2.1.3,d.81.1.1 135887,135888 1drw 273 10.50 3c1aA 315 10.57 1drwA 273 10.81 c.2.1.3,d.81.1.3 30057,39972 1qydA 313 11.18 c.2.1.2 96583 2v3aA 384 11.40 1lc0A 294 11.72 c.2.1.3,d.81.1.4 73823,73824 2exxA 306 11.85 2ph5A 480 11.89 1jw9B 249 13.92 c.111.1.1 67377 1rydA 387 14.16 c.2.1.3,d.81.1.5 118801,118802 3bioA 304 14.23 1xcbA 211 14.33 a.4.5.38,c.2.1.12 109552,109553 1k6xA 352 14.43 c.2.1.2 68238 2z1nA 260 14.60 2aefA 234 14.90 2o4uX 334 15.34 1zud1 251 16.95 1orrA 347 17.98 c.2.1.2 93460 1x13A 401 18.14 1cf2O 337 19.22 c.2.1.3,d.81.1.1 29994,39909 1xq6A 253 19.74 c.2.1.2 115829 2dt5A 211 22.17 a.4.5.38,c.2.1.12 131708,131709 2ozpA 345 22.94 1k2wA 256 23.07 c.2.1.2 90927 2pd6A 264 23.84 2r00A 336 23.99 2q49A 359 24.21 c.2.1.3,d.81.1.1 139831,139832 1uufA 369 25.45 b.35.1.2,c.2.1.1 100006,100007 1gegA 256 25.46 c.2.1.2 29888 1x7gA 261 25.48 c.2.1.2 114929 2a9fA 398 25.86 2a4kA 263 25.99 c.2.1.2 126156 1qycA 308 26.03 c.2.1.2 96581 1xhlA 297 26.79 c.2.1.2 109591 1pl8A 356 27.05 b.35.1.2,c.2.1.1 94878,94879 2eklA 313 27.11 1ydeA 270 27.19 c.2.1.2 122980 2gqwA 408 28.08 1zh8A 340 28.28 c.2.1.3,d.81.1.5 125077,125078 2yx0A 342 28.40 1bgvA 449 30.90 c.2.1.7,c.58.1.1 30217,33865 2gasA 307 31.70 2ixaA 444 32.13 1hwxA 501 32.41 c.2.1.7,c.58.1.1 30250,33898 2cduA 452 32.48 1xseA 295 32.99 c.2.1.2 115925 1b16A 254 33.13 c.2.1.2 29875 1zk4A 251 34.26 c.2.1.2 125176 1fmcA 255 34.42 c.2.1.2 29856 1gtmA 419 34.60 c.2.1.7,c.58.1.1 30223,33871 1xkqA 280 34.71 c.2.1.2 115417 1o6zA 303 35.44 c.2.1.5,d.162.1.1 81107,81108 1e3jA 352 36.37 b.35.1.2,c.2.1.1 24765,29781 1yqzA 438 36.38 2cdcA 366 36.50 1xgkA 352 39.38 c.2.1.2 115286 2bryA 497 39.93 1nffA 260 40.01 c.2.1.2 80457 1ja9A 274 40.10 c.2.1.2 62817 1yxmA 303 40.71 c.2.1.2 124192 1rkxA 357 41.18 c.2.1.2 97631 1l9cA 389 41.36 c.3.1.2,d.16.1.3 77815,77816 2jahA 247 41.52 1w6uA 302 42.05 c.2.1.2 114288 2r0cA 549 42.25 1zmdA 474 42.54 2q46A 253 42.78 c.2.1.2 139825 2gdzA 267 43.11 c.2.1.2 135043 1spxA 278 45.28 c.2.1.2 98958 1pbeA 394 45.85 c.3.1.2,d.16.1.2 30338,37869 1hdcA 253 45.88 c.2.1.2 29862 2bzgA 232 46.22 c.66.1.36 129559 1q7bA 244 46.43 c.2.1.2 96026 1othA 321 46.58 c.78.1.1,c.78.1.1 35260,35261 2bgkA 278 46.91 c.2.1.2 128480 1id1A 153 47.45 c.2.1.9 62286 1hxhA 253 47.69 c.2.1.2 76725 2ag5A 246 48.40 c.2.1.2 126719 2nwqA 272 49.28 2pnfA 248 50.18 2o23A 265 50.35 c.2.1.2 138884 2r6jA 318 52.00 1y1pA 342 52.09 c.2.1.2 122550 1cydA 244 52.21 c.2.1.2 29825 1nhpA 447 52.26 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1yb1A 272 52.42 c.2.1.2 116599 1t2aA 375 52.63 c.2.1.2 99078 2cfcA 250 52.75 5nul 138 53.14 2qa1A 500 53.16 1vl8A 267 53.67 c.2.1.2 108733 2cf5A 357 53.70 1nhsA 447 53.96 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1yovA 537 54.03 c.111.1.2 123785 1fl2A 310 54.86 c.3.1.5,c.3.1.5 59869,59870 1y56B 382 55.04 1dv2A 452 55.25 b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1xu9A 286 55.40 c.2.1.2 116052 1e7wA 291 55.55 c.2.1.2 59373 1n7hA 381 55.87 c.2.1.2 80250 2h6eA 344 56.19 2gf3A 389 56.20 c.3.1.2,d.16.1.3 135070,135071 1sbyA 254 57.63 c.2.1.2 118930 1zmtA 254 57.99 c.2.1.2 125363 1in4A 334 59.13 a.4.5.11,c.37.1.20 62597,62598 2yutA 207 60.11 1bdbA 277 60.18 c.2.1.2 29874 2b5wA 357 60.21 1vl6A 388 60.31 c.2.1.7,c.58.1.3 108724,108725 2c5aA 379 61.31 c.2.1.2 129894 1pvvA 315 61.63 c.78.1.1,c.78.1.1 95190,95191 2p4hX 322 62.38 1db3A 372 63.73 c.2.1.2 29813 1pjqA 457 63.80 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1i2cA 404 64.83 c.2.1.2 83666 1pwxA 254 64.98 c.2.1.2 95262 1q1rA 431 65.45 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1b7gO 340 65.66 c.2.1.3,d.81.1.1 29992,39907 2obnA 349 66.25 1f4pA 147 66.85 c.23.5.1 59651 1hyuA 521 66.97 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2iidA 498 67.71 c.3.1.2,d.16.1.5 137426,137427 2nxcA 254 68.42 c.66.1.39 138739 2ph3A 245 69.53 2c29D 337 69.98 1bxkA 355 72.26 c.2.1.2 29803 2b69A 343 72.66 c.2.1.2 127974 2pn1A 331 72.82 1duvG 333 73.82 c.78.1.1,c.78.1.1 35228,35229 2h1rA 299 74.90 1mb4A 370 76.04 c.2.1.3,d.81.1.1 78908,78909 5nulA 138 76.72 c.23.5.1 31191 2blnA 305 77.69 b.46.1.1,c.65.1.1 128734,128735 1hrdA 449 79.30 c.2.1.7,c.58.1.1 30219,33867 2c07A 285 79.52 c.2.1.2 129577 1sb8A 352 79.69 c.2.1.2 105410 2c2xA 281 79.86 1vj0A 380 79.88 b.35.1.2,c.2.1.1 100786,100787 1zq9A 285 81.04 c.66.1.24 125505 2a5lA 200 81.54 c.23.5.8 126176 1eyzA 392 81.63 b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 3grs 478 81.68 2olnA 397 81.80 2dvmA 439 81.86 1h5qA 265 83.44 c.2.1.2 60643 1yzfA 195 84.42 c.23.10.5 124275 2p91A 285 84.47 1in6A 334 84.96 a.4.5.11,c.37.1.20 62601,62602 1k20A 310 86.05 c.107.1.1 68027 1zk7A 467 86.10 1nhp 447 86.63 2fdxA 138 87.11 c.23.5.1 31192 1b26A 416 87.39 c.2.1.7,c.58.1.1 30232,33880 1x1eA 239 87.63 2bw0A 329 89.67 b.46.1.1,c.65.1.1 129303,129304