# List of top-scoring protein chains for t2k-w0.5-1-CB_burial_14_7-0.3-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 0.001959 a.100.1.1,c.2.1.6 113951,113952 1yqgA 263 0.002175 2graA 277 0.002373 2h78A 302 0.002703 1yb4A 295 0.003146 2ahrA 259 0.003415 a.100.1.10,c.2.1.6 126775,126776 2cvzA 289 0.004426 a.100.1.1,c.2.1.6 130890,130891 2izzA 322 0.006287 2rcyA 262 0.009612 2f1kA 279 0.01072 a.100.1.12,c.2.1.6 132772,132773 1gpjA 404 0.01336 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2pgd 482 0.01532 1nytA 271 0.02172 c.2.1.7,c.58.1.5 86417,86418 2g5cA 281 0.02448 a.100.1.12,c.2.1.6 134646,134647 1pgjA 478 0.02939 a.100.1.1,c.2.1.6 18783,30195 1bg6A 359 0.03003 a.100.1.5,c.2.1.6 18810,30214 2p4qA 497 0.04134 3c24A 286 0.04206 2eggA 297 0.04234 2pgdA 482 0.06126 a.100.1.1,c.2.1.6 18778,30190 1p77A 272 0.07102 c.2.1.7,c.58.1.5 94214,94215 2nloA 302 0.07986 1bg6 359 0.08728 2d5cA 263 0.0996 1np3A 338 0.1127 a.100.1.2,c.2.1.6 85946,85947 1txgA 335 0.1176 a.100.1.6,c.2.1.6 112775,112776 2hk9A 275 0.1393 1npdA 288 0.1452 c.2.1.7,c.58.1.5 80681,80682 1npyA 271 0.1465 c.2.1.7,c.58.1.5 85995,85996 1jayA 212 0.1856 c.2.1.6 66478 1i36A 264 0.1929 a.100.1.8,c.2.1.6 71108,71109 1x0vA 354 0.2205 1nvtA 287 0.2867 c.2.1.7,c.58.1.5 86270,86271 1vi2A 300 0.2940 c.2.1.7,c.58.1.5 100726,100727 1evyA 366 0.2966 a.100.1.6,c.2.1.6 18811,30215 2pv7A 298 0.3835 3ceaA 346 0.5208 1zh8A 340 0.5415 c.2.1.3,d.81.1.5 125077,125078 2q4eA 362 0.5628 2o4uX 334 0.5792 2axqA 467 0.6118 1d4fA 431 0.6290 c.2.1.4,c.23.12.3 30110,31370 1tltA 319 0.6725 c.2.1.3,d.81.1.5 107135,107136 2dpoA 319 0.6938 2hdhA 293 0.7029 a.100.1.3,c.2.1.6 18795,30199 1ff9A 450 0.7269 c.2.1.3,d.81.1.2 30039,39954 1wwkA 307 0.7442 2glxA 332 0.7444 2ixaA 444 0.7694 2p2sA 336 0.7957 2eklA 313 0.8599 1f0yA 302 0.8799 a.100.1.3,c.2.1.6 18793,30197 1b3rA 431 0.9759 c.2.1.4,c.23.12.3 30106,31366 1z82A 335 0.9924 1zejA 293 1.009 1dxy 333 1.038 2o7sA 523 1.239 1ks9A 291 1.254 a.100.1.7,c.2.1.6 68857,68858 1luaA 287 1.277 c.2.1.7,c.58.1.4 78216,78217 1li4A 432 1.310 c.2.1.4,c.23.12.3 84616,84617 2g76A 335 1.344 3c1aA 315 1.436 1dxyA 333 1.516 c.2.1.4,c.23.12.1 30094,31354 2ho3A 325 1.568 2i76A 276 1.602 1ygyA 529 1.640 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2gptA 523 1.670 2nacA 393 1.678 c.2.1.4,c.23.12.1 30088,31348 1omoA 322 1.708 c.2.1.13 104017 1j4aA 333 1.730 c.2.1.4,c.23.12.1 71502,71503 2nvwA 479 1.735 c.2.1.3,d.81.1.5 138665,138666 2dbqA 334 1.811 2b0jA 358 1.825 a.100.1.11,c.2.1.6 127639,127640 2gcgA 330 1.860 1gdhA 320 1.872 c.2.1.4,c.23.12.1 30095,31355 2j6iA 364 1.898 2dldA 337 1.899 c.2.1.4,c.23.12.1 30099,31359 2d0iA 333 1.905 1xdwA 331 1.956 2nadA 393 1.959 c.2.1.4,c.23.12.1 30090,31350 2ew2A 316 2.004 1a7aA 432 2.048 c.2.1.4,c.23.12.3 30104,31364 1dljA 402 2.137 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 2.259 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1zcjA 463 2.264 2o4cA 380 2.321 1ofgA 381 2.407 c.2.1.3,d.81.1.5 30064,39979 1x7dA 350 2.451 c.2.1.13 114927 2fssA 365 2.462 1vllA 334 2.467 c.2.1.13 108834 1rydA 387 2.520 c.2.1.3,d.81.1.5 118801,118802 1mv8A 436 2.580 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1mx3A 347 2.698 c.2.1.4,c.23.12.1 79638,79639 2vojA 371 2.704 2cukA 311 2.803 2pi1A 334 2.965 1qp8A 303 3.083 c.2.1.4,c.23.12.1 30092,31352 1gcuA 295 3.296 c.2.1.3,d.81.1.4 30063,39978 1psdA 409 3.317 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1yrlA 491 3.518 1h6dA 433 3.892 c.2.1.3,d.81.1.5 65656,65657 1xwfA 431 4.576 c.2.1.4,c.23.12.3 122392,122393 1sc6A 404 4.593 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1v8bA 479 5.023 c.2.1.4,c.23.12.3 113564,113565 2o3jA 481 5.540 1ldg 316 5.970 1ceqA 316 6.133 c.2.1.5,d.162.1.1 30163,42130 2vhxA 377 6.480 1lc0A 294 6.541 c.2.1.3,d.81.1.4 73823,73824 2g1uA 155 6.592 1xeaA 323 7.073 c.2.1.3,d.81.1.5 109572,109573 1hdcA 253 8.881 c.2.1.2 29862 2hsdA 253 9.653 c.2.1.2 29866 1l7dA 384 9.684 c.2.1.4,c.23.12.2 77774,77775 2q49A 359 10.79 c.2.1.3,d.81.1.1 139831,139832 1uxjA 309 10.84 c.2.1.5,d.162.1.1 108112,108113 3bioA 304 11.12 1pjcA 361 11.19 c.2.1.4,c.23.12.2 30101,31361 1ez4A 318 11.66 c.2.1.5,d.162.1.1 64917,64918 1sayA 361 11.91 c.2.1.4,c.23.12.2 30102,31362 1pzgA 331 12.12 c.2.1.5,d.162.1.1 95425,95426 1a5zA 319 12.25 c.2.1.5,d.162.1.1 30181,42148 2ag5A 246 12.71 c.2.1.2 126719 1yb1A 272 12.82 c.2.1.2 116599 2v7pA 310 13.08 2a4kA 263 13.70 c.2.1.2 126156 2czcA 334 14.06 d.81.1.1 131044 3c85A 183 14.30 6ldhA 329 14.38 c.2.1.5,d.162.1.1 30161,42128 1vl6A 388 14.43 c.2.1.7,c.58.1.3 108724,108725 2gdzA 267 14.66 c.2.1.2 135043 1ydeA 270 14.74 c.2.1.2 122980 2qytA 317 15.10 2r6jA 318 15.23 1nvmB 312 15.34 c.2.1.3,d.81.1.1 86251,86252 2g17A 337 15.50 c.2.1.3,d.81.1.1 134512,134513 2bkaA 242 15.88 c.2.1.2 128666 1bdb 277 16.18 1xhlA 297 16.69 c.2.1.2 109591 2p91A 285 17.16 2jfgA 445 17.46 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1e3sA 261 17.69 c.2.1.2 59201 1y5mA 276 17.75 c.2.1.2 122645 1othA 321 17.79 c.78.1.1,c.78.1.1 35260,35261 2gasA 307 18.00 1k2wA 256 18.71 c.2.1.2 90927 1guzA 310 19.21 c.2.1.5,d.162.1.1 65586,65587 1t2dA 322 19.68 c.2.1.5,d.162.1.1 99084,99085 1ml4A 308 19.92 c.78.1.1,c.78.1.1 79255,79256 1hyhA 309 20.04 c.2.1.5,d.162.1.1 30150,42117 2pnfA 248 20.26 2i6tA 303 20.52 1qycA 308 20.95 c.2.1.2 96581 1qydA 313 21.00 c.2.1.2 96583 1xu9A 286 21.15 c.2.1.2 116052 1e6wA 260 21.51 c.2.1.2 59326 1ldnA 316 21.94 c.2.1.5,d.162.1.1 30166,42133 1he2A 206 22.19 c.2.1.2 60966 1nffA 260 22.37 c.2.1.2 80457 1vknA 351 22.64 c.2.1.3,d.81.1.1 108676,108677 1sbyA 254 22.91 c.2.1.2 118930 2ewdA 317 22.94 1x7gA 261 23.10 c.2.1.2 114929 1q7bA 244 23.15 c.2.1.2 96026 1iy8A 267 23.39 c.2.1.2 83774 1cf2O 337 23.43 c.2.1.3,d.81.1.1 29994,39909 2pd6A 264 23.49 1vjtA 483 23.63 c.2.1.5,d.162.1.2 100833,100834 2o23A 265 23.67 c.2.1.2 138884 1yxmA 303 24.40 c.2.1.2 124192 2yyyA 343 24.41 1xgkA 352 24.44 c.2.1.2 115286 1xkqA 280 24.45 c.2.1.2 115417 1ekxA 311 24.64 c.78.1.1,c.78.1.1 35088,35089 1w6uA 302 24.74 c.2.1.2 114288 1id1A 153 25.33 c.2.1.9 62286 1f06A 320 25.34 c.2.1.3,d.81.1.3 59556,59557 1c1dA 355 25.44 c.2.1.7,c.58.1.1 30270,33918 2bgkA 278 25.66 c.2.1.2 128480 1hdoA 206 25.78 c.2.1.2 60965 1ja9A 274 25.80 c.2.1.2 62817 1hxhA 253 25.98 c.2.1.2 76725 1gtmA 419 26.00 c.2.1.7,c.58.1.1 30223,33871 1y1pA 342 26.04 c.2.1.2 122550 1lehA 364 26.06 c.2.1.7,c.58.1.1 30268,33916 1zk4A 251 26.68 c.2.1.2 125176 1n5dA 288 26.71 c.2.1.2 80030 1pwxA 254 26.81 c.2.1.2 95262 1cydA 244 26.82 c.2.1.2 29825 1bw9A 356 27.01 c.2.1.7,c.58.1.1 30274,33922 1zemA 262 27.19 c.2.1.2 124984 1h2bA 359 27.82 b.35.1.2,c.2.1.1 90543,90544 2zbwA 335 27.95 9ldtA 332 28.02 c.2.1.5,d.162.1.1 30154,42121 8atcA 310 28.31 c.78.1.1,c.78.1.1 35132,35133 1drw 273 28.93 2gz1A 366 29.19 c.2.1.3,d.81.1.1 135887,135888 1ur5A 309 30.56 c.2.1.5,d.162.1.1 99807,99808 1acmA 310 30.69 c.78.1.1,c.78.1.1 35180,35181 2cfcA 250 30.76 1edoA 244 30.90 c.2.1.2 29896 1fmcA 255 32.12 c.2.1.2 29856 1lssA 140 32.22 c.2.1.9 74246 1xseA 295 32.45 c.2.1.2 115925 1u9jA 358 32.49 c.2.1.2 113243 1gegA 256 33.61 c.2.1.2 29888 1ebdA 455 34.40 c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1nhp 447 35.63 1b26A 416 35.68 c.2.1.7,c.58.1.1 30232,33880 1lldA 319 36.07 c.2.1.5,d.162.1.1 30177,42144 1spxA 278 36.52 c.2.1.2 98958 1o54A 277 36.52 c.66.1.13 92482 1kevA 351 36.88 b.35.1.2,c.2.1.1 24749,29765 1udcA 338 37.60 c.2.1.2 29785 1fl2A 310 37.95 c.3.1.5,c.3.1.5 59869,59870 3bkwA 243 38.36 1obbA 480 38.47 c.2.1.5,d.162.1.2 86760,86761 1b8pA 329 39.71 c.2.1.5,d.162.1.1 30147,42114 1b3bA 415 39.91 c.2.1.7,c.58.1.1 30244,33892 3csuA 310 39.99 c.78.1.1,c.78.1.1 35094,35095 2c29D 337 40.38 2bllA 345 40.45 c.2.1.2 128733 1ys4A 354 40.75 1o5iA 249 41.12 c.2.1.2 92499 1vl8A 267 41.20 c.2.1.2 108733 1k6xA 352 41.28 c.2.1.2 68238 2nqtA 352 41.31 2ekpA 239 41.39 1gcoA 261 41.46 c.2.1.2 29884 1ep3B 262 41.47 b.43.4.2,c.25.1.3 25664,31554 1qmgA 524 41.94 a.100.1.2,c.2.1.6 18785,30182 1bgvA 449 42.19 c.2.1.7,c.58.1.1 30217,33865 1h5qA 265 42.37 c.2.1.2 60643 1xg5A 279 42.38 c.2.1.2 115277 1k89 449 42.49 1cjcA 460 42.53 c.3.1.1,c.4.1.1 30319,30604 2r00A 336 43.00 1xel 338 43.09 1trb 320 43.50 1ep2B 261 43.51 b.43.4.2,c.25.1.3 25666,31556 2cvjA 180 43.64 2bmaA 470 43.95 2ae2A 260 44.50 c.2.1.2 29945 1pg5A 299 44.66 c.78.1.1,c.78.1.1 104146,104147 1hrdA 449 44.68 c.2.1.7,c.58.1.1 30219,33867 1ee2A 373 44.87 b.35.1.2,c.2.1.1 24663,29679 1nhsA 447 45.02 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1z7bA 358 45.79 c.2.1.2 124599 2jahA 247 46.96 2nwqA 272 46.97 1axeA 374 47.92 b.35.1.2,c.2.1.1 24681,29697 2yquA 455 47.94 1ek6A 348 48.13 c.2.1.2 29800 1xq6A 253 48.29 c.2.1.2 115829 1nhpA 447 48.75 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2nxcA 254 49.11 c.66.1.39 138739 1g0oA 283 49.19 c.2.1.2 60181 2c5aA 379 49.57 c.2.1.2 129894 2yxdA 183 49.99 2c07A 285 51.02 c.2.1.2 129577 1drwA 273 51.09 c.2.1.3,d.81.1.3 30057,39972 1x1eA 239 51.37 1l3iA 192 51.68 c.66.1.22 77676 1p3dA 475 51.70 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1ybvA 283 52.78 c.2.1.2 29948 1uufA 369 53.03 b.35.1.2,c.2.1.1 100006,100007 1ne2A 200 53.35 c.66.1.32 85586 2hmvA 144 53.64 c.2.1.9 136615 1zk7A 467 54.01 1y8qB 640 54.02 1wmaA 276 54.55 c.2.1.2 121042 1lvl 458 55.00 1mjfA 281 55.54 c.66.1.17 79198 2ph5A 480 55.97 1s6yA 450 56.19 c.2.1.5,d.162.1.2 105314,105315 1uluA 261 56.37 c.2.1.2 113292 2d1yA 256 56.80 c.2.1.2 131151 2ef0A 301 57.46 2qfmA 364 57.98 1q1rA 431 58.30 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 2exxA 306 58.37 1vid 221 58.61 1f8fA 371 59.04 b.35.1.2,c.2.1.1 83246,83247 1hwyA 501 59.47 c.2.1.7,c.58.1.1 30262,33910 1reoA 486 59.56 c.3.1.2,d.16.1.5 97325,97326 2gn4A 344 59.72 2cduA 452 62.18 2qa1A 500 62.26 1hwxA 501 62.35 c.2.1.7,c.58.1.1 30250,33898 2bd0A 244 62.77 c.2.1.2 128321 1e3jA 352 62.94 b.35.1.2,c.2.1.1 24765,29781 2q1sA 377 63.05 1vqwA 457 65.04 c.3.1.5,c.3.1.5 114028,114029 1lsuA 147 65.43 c.2.1.9 74250 1gesA 450 65.46 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1zmtA 254 65.64 c.2.1.2 125363 2p4hX 322 66.21 1rkxA 357 66.56 c.2.1.2 97631 3ladA 476 66.74 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1pl8A 356 66.96 b.35.1.2,c.2.1.1 94878,94879 1zmdA 474 66.96 1d7yA 408 67.47 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 2h7mA 269 67.99 c.2.1.2 136219 1a71A 374 68.18 b.35.1.2,c.2.1.1 24673,29689 2p5yA 311 68.30 1u7zA 226 68.32 c.72.3.1 113107 2cf5A 357 68.96 2ew8A 249 69.94 c.2.1.2 132447 2c2xA 281 70.21 2blnA 305 70.81 b.46.1.1,c.65.1.1 128734,128735 1ae1A 273 71.22 c.2.1.2 29943 1h7xA 1025 71.26 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 2r0cA 549 71.45 2q0lA 311 71.48 1trbA 320 72.68 c.3.1.5,c.3.1.5 30529,30530 3grs 478 72.88 1ps9A 671 73.81 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 2pzmA 330 74.10 3ldh 330 74.18 i.12.1.1 46015 2q46A 253 75.18 c.2.1.2 139825 1x1tA 260 75.42 c.2.1.2 121597 1qsgA 265 76.46 c.2.1.2 29935 1b0aA 288 77.72 c.2.1.7,c.58.1.2 30286,33934 1xhcA 367 78.13 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 2i6uA 307 78.63 1w4xA 542 78.72 c.3.1.5,c.3.1.5 109171,109172 1rsgA 516 78.93 1b16A 254 81.19 c.2.1.2 29875 1axgA 374 81.49 b.35.1.2,c.2.1.1 24691,29707 1jw9B 249 81.74 c.111.1.1 67377 1wy7A 207 82.60 c.66.1.32 121433 1ykjA 394 82.90 3grsA 478 83.81 c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1hyuA 521 84.06 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2hjsA 340 84.17 c.2.1.3,d.81.1.1 136547,136548 1ykfA 352 84.96 b.35.1.2,c.2.1.1 24757,29773 2cmdA 312 85.07 c.2.1.5,d.162.1.1 30135,42102 1s3eA 520 85.52 c.3.1.2,d.16.1.5 98426,98427 2ywlA 180 85.99 2fr1A 486 86.48 c.2.1.2,c.2.1.2 133961,133962 2ph3A 245 87.19 2gv8A 447 87.22 c.3.1.5,c.3.1.5 135759,135760 1b7gO 340 88.39 c.2.1.3,d.81.1.1 29992,39907 1lqtA 456 88.47 c.3.1.1,c.4.1.1 74198,74199 1mo9A 523 88.71 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1dv2A 452 89.81 b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 2bi7A 384 89.87 1kolA 398 89.88 b.35.1.2,c.2.1.1 77474,77475