# 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 2.15e-05 2ahrA 259 2.42e-05 a.100.1.10,c.2.1.6 126775,126776 1vpdA 299 2.49e-05 a.100.1.1,c.2.1.6 113951,113952 2graA 277 2.97e-05 2h78A 302 3.70e-05 1yb4A 295 4.97e-05 2cvzA 289 7.53e-05 a.100.1.1,c.2.1.6 130890,130891 2pgd 482 8.09e-05 2izzA 322 0.000103 2rcyA 262 0.000110 1pgjA 478 0.000157 a.100.1.1,c.2.1.6 18783,30195 2f1kA 279 0.000177 a.100.1.12,c.2.1.6 132772,132773 1nytA 271 0.000185 c.2.1.7,c.58.1.5 86417,86418 1gpjA 404 0.000344 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1bg6A 359 0.000439 a.100.1.5,c.2.1.6 18810,30214 2p4qA 497 0.000450 2eggA 297 0.000452 3c24A 286 0.000588 2pgdA 482 0.000590 a.100.1.1,c.2.1.6 18778,30190 2g5cA 281 0.000686 a.100.1.12,c.2.1.6 134646,134647 2nloA 302 0.000743 1p77A 272 0.000823 c.2.1.7,c.58.1.5 94214,94215 2d5cA 263 0.001117 2hk9A 275 0.001582 1bg6 359 0.002188 1npdA 288 0.002718 c.2.1.7,c.58.1.5 80681,80682 1np3A 338 0.003049 a.100.1.2,c.2.1.6 85946,85947 1npyA 271 0.003463 c.2.1.7,c.58.1.5 85995,85996 1nvtA 287 0.003667 c.2.1.7,c.58.1.5 86270,86271 1vi2A 300 0.007339 c.2.1.7,c.58.1.5 100726,100727 2o7sA 523 0.01177 1i36A 264 0.01285 a.100.1.8,c.2.1.6 71108,71109 1txgA 335 0.01355 a.100.1.6,c.2.1.6 112775,112776 2pv7A 298 0.01561 1evyA 366 0.01700 a.100.1.6,c.2.1.6 18811,30215 1x0vA 354 0.02519 2b0jA 358 0.02859 a.100.1.11,c.2.1.6 127639,127640 2glxA 332 0.03110 2o4uX 334 0.03126 2q4eA 362 0.03375 2ho3A 325 0.03402 1zh8A 340 0.03425 c.2.1.3,d.81.1.5 125077,125078 1jayA 212 0.03746 c.2.1.6 66478 1ofgA 381 0.04135 c.2.1.3,d.81.1.5 30064,39979 3ceaA 346 0.04153 2gptA 523 0.04191 2p2sA 336 0.04365 2hdhA 293 0.04864 a.100.1.3,c.2.1.6 18795,30199 2dpoA 319 0.05279 1rydA 387 0.05511 c.2.1.3,d.81.1.5 118801,118802 2i76A 276 0.05717 1ff9A 450 0.06016 c.2.1.3,d.81.1.2 30039,39954 1h6dA 433 0.06056 c.2.1.3,d.81.1.5 65656,65657 1tltA 319 0.06439 c.2.1.3,d.81.1.5 107135,107136 1z82A 335 0.06822 1f0yA 302 0.08975 a.100.1.3,c.2.1.6 18793,30197 2axqA 467 0.09104 3c1aA 315 0.09564 2nvwA 479 0.1385 c.2.1.3,d.81.1.5 138665,138666 2ixaA 444 0.1387 1d4fA 431 0.1453 c.2.1.4,c.23.12.3 30110,31370 1wwkA 307 0.1569 1dxy 333 0.1763 1gcuA 295 0.1815 c.2.1.3,d.81.1.4 30063,39978 1gdhA 320 0.1949 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.1987 c.2.1.4,c.23.12.1 30088,31348 2nadA 393 0.2431 c.2.1.4,c.23.12.1 30090,31350 1b3rA 431 0.2450 c.2.1.4,c.23.12.3 30106,31366 1dxyA 333 0.2487 c.2.1.4,c.23.12.1 30094,31354 1zejA 293 0.2592 1zcjA 463 0.2685 1xeaA 323 0.2710 c.2.1.3,d.81.1.5 109572,109573 2j6iA 364 0.2765 1luaA 287 0.2776 c.2.1.7,c.58.1.4 78216,78217 1j4aA 333 0.2944 c.2.1.4,c.23.12.1 71502,71503 2g76A 335 0.3019 2eklA 313 0.3074 2gcgA 330 0.3112 1mx3A 347 0.3330 c.2.1.4,c.23.12.1 79638,79639 1xdwA 331 0.3392 2ew2A 316 0.3457 1omoA 322 0.3519 c.2.1.13 104017 1ks9A 291 0.3532 a.100.1.7,c.2.1.6 68857,68858 1vllA 334 0.3815 c.2.1.13 108834 2fssA 365 0.3940 1li4A 432 0.4082 c.2.1.4,c.23.12.3 84616,84617 1mv8A 436 0.4388 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2g1uA 155 0.4660 1x7dA 350 0.4833 c.2.1.13 114927 1ygyA 529 0.5026 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2dbqA 334 0.5312 1dljA 402 0.5612 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1lc0A 294 0.5800 c.2.1.3,d.81.1.4 73823,73824 1qp8A 303 0.5815 c.2.1.4,c.23.12.1 30092,31352 2o4cA 380 0.6053 2cukA 311 0.6575 1pjcA 361 0.7057 c.2.1.4,c.23.12.2 30101,31361 2d0iA 333 0.7135 2dldA 337 0.7918 c.2.1.4,c.23.12.1 30099,31359 1yrlA 491 0.7952 1psdA 409 0.8259 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 3c85A 183 0.8564 1dliA 402 0.9438 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2pi1A 334 0.9911 1sc6A 404 1.019 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1a7aA 432 1.045 c.2.1.4,c.23.12.3 30104,31364 1l7dA 384 1.083 c.2.1.4,c.23.12.2 77774,77775 2vojA 371 1.257 2vhxA 377 1.315 1ceqA 316 1.340 c.2.1.5,d.162.1.1 30163,42130 2o3jA 481 1.451 1ldg 316 1.764 1lssA 140 1.826 c.2.1.9 74246 1v8bA 479 1.868 c.2.1.4,c.23.12.3 113564,113565 1uufA 369 1.962 b.35.1.2,c.2.1.1 100006,100007 1xwfA 431 2.388 c.2.1.4,c.23.12.3 122392,122393 2hsdA 253 3.290 c.2.1.2 29866 1hdcA 253 3.302 c.2.1.2 29862 1hyhA 309 3.941 c.2.1.5,d.162.1.1 30150,42117 1e3jA 352 4.016 b.35.1.2,c.2.1.1 24765,29781 1guzA 310 4.590 c.2.1.5,d.162.1.1 65586,65587 1bw9A 356 4.686 c.2.1.7,c.58.1.1 30274,33922 1qmgA 524 5.007 a.100.1.2,c.2.1.6 18785,30182 2cf5A 357 5.009 2bkaA 242 5.059 c.2.1.2 128666 1h2bA 359 5.256 b.35.1.2,c.2.1.1 90543,90544 2cdcA 366 5.352 1kevA 351 5.424 b.35.1.2,c.2.1.1 24749,29765 6ldhA 329 5.440 c.2.1.5,d.162.1.1 30161,42128 2i6tA 303 5.609 1c1dA 355 5.609 c.2.1.7,c.58.1.1 30270,33918 1a5zA 319 5.840 c.2.1.5,d.162.1.1 30181,42148 1xhlA 297 5.932 c.2.1.2 109591 1t2dA 322 6.108 c.2.1.5,d.162.1.1 99084,99085 1vjtA 483 6.127 c.2.1.5,d.162.1.2 100833,100834 1ez4A 318 6.346 c.2.1.5,d.162.1.1 64917,64918 1a71A 374 6.705 b.35.1.2,c.2.1.1 24673,29689 2hmvA 144 6.907 c.2.1.9 136615 3bioA 304 7.006 1vl8A 267 7.055 c.2.1.2 108733 1lluA 342 7.118 b.35.1.2,c.2.1.1 91064,91065 1lsuA 147 7.290 c.2.1.9 74250 1yb1A 272 7.396 c.2.1.2 116599 1pzgA 331 7.602 c.2.1.5,d.162.1.1 95425,95426 2ouiA 360 7.716 1f8fA 371 7.731 b.35.1.2,c.2.1.1 83246,83247 1edoA 244 7.777 c.2.1.2 29896 2d8aA 348 7.844 1axgA 374 7.850 b.35.1.2,c.2.1.1 24691,29707 1yxmA 303 8.185 c.2.1.2 124192 1bdb 277 8.330 1axeA 374 8.357 b.35.1.2,c.2.1.1 24681,29697 1lehA 364 8.535 c.2.1.7,c.58.1.1 30268,33916 1ydeA 270 8.626 c.2.1.2 122980 2v7pA 310 8.754 2a4kA 263 8.885 c.2.1.2 126156 1u3wA 374 8.906 b.35.1.2,c.2.1.1 113013,113014 1jqbA 351 8.909 b.35.1.2,c.2.1.1 77151,77152 2gdzA 267 9.069 c.2.1.2 135043 1xseA 295 9.261 c.2.1.2 115925 1iy8A 267 10.06 c.2.1.2 83774 1pl8A 356 10.30 b.35.1.2,c.2.1.1 94878,94879 1w6uA 302 10.39 c.2.1.2 114288 1ykfA 352 10.46 b.35.1.2,c.2.1.1 24757,29773 1zemA 262 10.48 c.2.1.2 124984 1q7bA 244 10.61 c.2.1.2 96026 1xg5A 279 10.69 c.2.1.2 115277 1gegA 256 10.81 c.2.1.2 29888 1yqdA 366 10.95 2pnfA 248 11.15 1ee2A 373 11.32 b.35.1.2,c.2.1.1 24663,29679 1p0fA 373 11.36 b.35.1.2,c.2.1.1 87642,87643 2jfgA 445 11.59 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 2pd6A 264 11.62 1k2wA 256 11.64 c.2.1.2 90927 2ag5A 246 12.01 c.2.1.2 126719 1xkqA 280 12.14 c.2.1.2 115417 1e6wA 260 12.18 c.2.1.2 59326 1xu9A 286 12.30 c.2.1.2 116052 1y5mA 276 12.38 c.2.1.2 122645 1lnqA 336 12.39 c.2.1.9,d.286.1.1,f.14.1.1 111576,111577,74050 2aefA 234 12.78 2bgkA 278 12.98 c.2.1.2 128480 1hxhA 253 13.30 c.2.1.2 76725 1x7gA 261 13.43 c.2.1.2 114929 1vqwA 457 13.66 c.3.1.5,c.3.1.5 114028,114029 2h6eA 344 13.91 1b0aA 288 13.98 c.2.1.7,c.58.1.2 30286,33934 1cydA 244 14.00 c.2.1.2 29825 1h7xA 1025 14.01 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 2b5wA 357 14.21 1ja9A 274 14.30 c.2.1.2 62817 2d59A 144 14.59 c.2.1.8 131266 2yyyA 343 14.72 1uxjA 309 14.86 c.2.1.5,d.162.1.1 108112,108113 2qytA 317 15.02 1nffA 260 15.08 c.2.1.2 80457 1n8kA 374 15.10 b.35.1.2,c.2.1.1 80298,80299 1drw 273 15.12 2ewdA 317 15.16 1kolA 398 15.29 b.35.1.2,c.2.1.1 77474,77475 1pedA 351 15.56 b.35.1.2,c.2.1.1 24753,29769 1ldnA 316 15.70 c.2.1.5,d.162.1.1 30166,42133 1zk4A 251 16.26 c.2.1.2 125176 2ohxA 374 16.45 b.35.1.2,c.2.1.1 24669,29685 1ebdA 455 16.68 c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1e3sA 261 16.81 c.2.1.2 59201 2jhfA 374 16.82 b.35.1.2,c.2.1.1 138314,138315 1y9aA 360 16.85 1id1A 153 16.88 c.2.1.9 62286 2r6jA 318 17.03 1pjqA 457 17.50 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1f06A 320 17.70 c.2.1.3,d.81.1.3 59556,59557 2cfcA 250 18.16 2czcA 334 18.45 d.81.1.1 131044 1othA 321 18.85 c.78.1.1,c.78.1.1 35260,35261 1u8xX 472 19.60 c.2.1.5,d.162.1.2 107741,107742 1gteA 1025 20.01 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 2zbwA 335 20.45 1h7wA 1025 20.89 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 1lldA 319 21.37 c.2.1.5,d.162.1.1 30177,42144 2o23A 265 21.87 c.2.1.2 138884 1sayA 361 22.56 c.2.1.4,c.23.12.2 30102,31362 2yquA 455 22.76 1cf2O 337 22.76 c.2.1.3,d.81.1.1 29994,39909 1h5qA 265 22.81 c.2.1.2 60643 1vj0A 380 23.05 b.35.1.2,c.2.1.1 100786,100787 1pwxA 254 23.20 c.2.1.2 95262 2c2xA 281 23.22 1a4iA 301 23.58 c.2.1.7,c.58.1.2 30278,33926 1hwyA 501 23.75 c.2.1.7,c.58.1.1 30262,33910 2p91A 285 23.85 1hwxA 501 23.95 c.2.1.7,c.58.1.1 30250,33898 1y1pA 342 23.96 c.2.1.2 122550 2c07A 285 24.24 c.2.1.2 129577 2ae2A 260 24.56 c.2.1.2 29945 3ldh 330 24.68 i.12.1.1 46015 1fmcA 255 24.92 c.2.1.2 29856 1b8pA 329 25.79 c.2.1.5,d.162.1.1 30147,42114 2ph3A 245 26.04 1vl6A 388 26.09 c.2.1.7,c.58.1.3 108724,108725 1zmdA 474 26.66 2ew8A 249 26.78 c.2.1.2 132447 1d7oA 297 27.10 c.2.1.2 29907 1he2A 206 27.42 c.2.1.2 60966 1fl2A 310 27.42 c.3.1.5,c.3.1.5 59869,59870 1b3bA 415 27.79 c.2.1.7,c.58.1.1 30244,33892 1gtmA 419 28.11 c.2.1.7,c.58.1.1 30223,33871 1gcoA 261 28.49 c.2.1.2 29884 1x1tA 260 28.91 c.2.1.2 121597 2gasA 307 29.33 1xcbA 211 29.97 a.4.5.38,c.2.1.12 109552,109553 1xgkA 352 30.82 c.2.1.2 115286 9ldtA 332 31.00 c.2.1.5,d.162.1.1 30154,42121 1jw9B 249 31.24 c.111.1.1 67377 1g0oA 283 31.64 c.2.1.2 60181 2jahA 247 31.64 1b26A 416 31.67 c.2.1.7,c.58.1.1 30232,33880 2i6uA 307 31.75 2q49A 359 31.97 c.2.1.3,d.81.1.1 139831,139832 1vknA 351 33.64 c.2.1.3,d.81.1.1 108676,108677 2gn4A 344 33.83 2hq1A 247 34.41 1ybvA 283 35.19 c.2.1.2 29948 2z1nA 260 35.41 1spxA 278 35.66 c.2.1.2 98958 1n5dA 288 35.84 c.2.1.2 80030 2qa1A 500 36.55 1yovA 537 36.68 c.111.1.2 123785 1nvmB 312 36.92 c.2.1.3,d.81.1.1 86251,86252 1k6xA 352 36.95 c.2.1.2 68238 1kyqA 274 37.10 c.2.1.11,e.37.1.1 73281,73282 2ph5A 480 37.66 2g17A 337 38.81 c.2.1.3,d.81.1.1 134512,134513 1nhp 447 39.69 2nwqA 272 40.37 2gqwA 408 41.03 1rlmA 271 41.28 c.108.1.10 111860 1wmaA 276 41.42 c.2.1.2 121042 1hdoA 206 41.47 c.2.1.2 60965 1enp 312 41.53 2d1yA 256 41.60 c.2.1.2 131151 1qh8A 478 41.94 c.92.2.3 35633 1zk7A 467 42.23 2q1sA 377 42.60 1hyuA 521 42.63 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1p3dA 475 43.39 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1ek6A 348 43.66 c.2.1.2 29800 1y8qB 640 44.34 1cjcA 460 44.56 c.3.1.1,c.4.1.1 30319,30604 2ekpA 239 44.81 3csuA 310 45.27 c.78.1.1,c.78.1.1 35094,35095 1x1eA 239 47.31 2ef0A 301 48.36 1mo9A 523 48.48 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2h7mA 269 49.33 c.2.1.2 136219 1sbyA 254 49.52 c.2.1.2 118930 1drwA 273 49.65 c.2.1.3,d.81.1.3 30057,39972 1uh5A 329 49.68 c.2.1.2 107840 1nhpA 447 50.67 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1o5iA 249 50.96 c.2.1.2 92499 1nhsA 447 51.72 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2bi7A 384 51.75 1ekxA 311 51.96 c.78.1.1,c.78.1.1 35088,35089 2r0cA 549 52.06 2c5aA 379 53.23 c.2.1.2 129894 1xhcA 367 53.40 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 2blnA 305 53.75 b.46.1.1,c.65.1.1 128734,128735 1ne2A 200 55.53 c.66.1.32 85586 1udcA 338 56.00 c.2.1.2 29785 1reoA 486 56.16 c.3.1.2,d.16.1.5 97325,97326 1ae1A 273 56.34 c.2.1.2 29943 3bkwA 243 56.79 1zud1 251 57.23 1rloA 271 57.67 c.108.1.10 111864 1dhr 241 57.72 1s2oA 244 57.93 c.108.1.10 118846 1yqzA 438 58.15 2r00A 336 58.16 2gz1A 366 59.18 c.2.1.3,d.81.1.1 135887,135888 1d7yA 408 59.35 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1zmtA 254 59.83 c.2.1.2 125363 1j5pA 253 59.97 d.81.1.3,c.2.1.3 71577,83092 2gv8A 447 59.97 c.3.1.5,c.3.1.5 135759,135760 1ml4A 308 60.08 c.78.1.1,c.78.1.1 79255,79256 3ladA 476 60.24 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1rsgA 516 61.62 2cvjA 180 61.75 1m1nA 491 61.99 c.92.2.3 78417 1bdmA 327 63.99 c.2.1.5,d.162.1.1 30137,42104 1mjfA 281 64.43 c.66.1.17 79198 1yvvA 336 65.19 1x13A 401 65.43 1pvvA 315 66.07 c.78.1.1,c.78.1.1 95190,95191 1m1nB 522 67.46 c.92.2.3 78418 1gesA 450 68.22 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1y8qA 346 70.14 1uluA 261 70.36 c.2.1.2 113292 1obbA 480 70.81 c.2.1.5,d.162.1.2 86760,86761 2q0lA 311 70.84 1acmA 310 71.85 c.78.1.1,c.78.1.1 35180,35181 2bd0A 244 72.14 c.2.1.2 128321 1yb5A 351 72.18 b.35.1.2,c.2.1.1 116601,116602 1k89 449 73.87 1fds 327 74.34 1iukA 140 74.94 c.2.1.8 83712 1s3eA 520 74.94 c.3.1.2,d.16.1.5 98426,98427 2q46A 253 75.93 c.2.1.2 139825 1kdgA 546 76.15 c.3.1.2,d.16.1.1 77337,77338 1hrdA 449 80.11 c.2.1.7,c.58.1.1 30219,33867 2dknA 255 80.34 1w4xA 542 81.36 c.3.1.5,c.3.1.5 109171,109172 2hoqA 241 82.44 2exxA 306 82.59 2dt5A 211 83.15 a.4.5.38,c.2.1.12 131708,131709 1fjhA 257 84.15 c.2.1.2 29870 1vm6A 228 84.38 d.81.1.3,c.2.1.3 108877,118631 8atcA 310 84.87 c.78.1.1,c.78.1.1 35132,35133 1fjhB 257 85.01 c.2.1.2 29871 1ur5A 309 85.27 c.2.1.5,d.162.1.1 99807,99808 1ooeA 236 86.25 c.2.1.2 87196 1dapA 320 86.36 c.2.1.3,d.81.1.3 30053,39968 1fp4A 492 86.50 c.92.2.3 76187 1zbqA 327 87.80 c.2.1.2 124862 3c96A 415 89.84