# List of top-scoring protein chains for t04-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 2h78A 302 6.78e-06 2ahrA 259 8.99e-06 a.100.1.10,c.2.1.6 126775,126776 1vpdA 299 1.13e-05 a.100.1.1,c.2.1.6 113951,113952 1yb4A 295 1.14e-05 2g5cA 281 1.37e-05 a.100.1.12,c.2.1.6 134646,134647 2f1kA 279 1.44e-05 a.100.1.12,c.2.1.6 132772,132773 1np3A 338 1.71e-05 a.100.1.2,c.2.1.6 85946,85947 2izzA 322 1.75e-05 2pgdA 482 2.26e-05 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 2.60e-05 1yqgA 263 3.33e-05 2pv7A 298 3.57e-05 1bg6 359 4.05e-05 1qmgA 524 4.18e-05 a.100.1.2,c.2.1.6 18785,30182 2cvzA 289 4.67e-05 a.100.1.1,c.2.1.6 130890,130891 2rcyA 262 6.89e-05 3c24A 286 7.84e-05 1pgjA 478 8.69e-05 a.100.1.1,c.2.1.6 18783,30195 2pgd 482 9.00e-05 1yrlA 491 9.01e-05 2graA 277 9.32e-05 1ks9A 291 0.000132 a.100.1.7,c.2.1.6 68857,68858 2ew2A 316 0.000137 1zejA 293 0.000247 2i76A 276 0.000266 1evyA 366 0.000326 a.100.1.6,c.2.1.6 18811,30215 1f0yA 302 0.000404 a.100.1.3,c.2.1.6 18793,30197 1txgA 335 0.000487 a.100.1.6,c.2.1.6 112775,112776 1jayA 212 0.000830 c.2.1.6 66478 1i36A 264 0.001000 a.100.1.8,c.2.1.6 71108,71109 1zcjA 463 0.001327 1z82A 335 0.001450 1mv8A 436 0.003647 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1bg6A 359 0.004144 a.100.1.5,c.2.1.6 18810,30214 2o3jA 481 0.006509 2dpoA 319 0.01147 1dljA 402 0.01266 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2qytA 317 0.02006 1ff9A 450 0.02149 c.2.1.3,d.81.1.2 30039,39954 1dliA 402 0.02467 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1gdhA 320 0.03177 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.04511 c.2.1.4,c.23.12.1 30088,31348 1u8xX 472 0.07478 c.2.1.5,d.162.1.2 107741,107742 2fssA 365 0.08153 1x0vA 354 0.1089 2j6iA 364 0.1144 1psdA 409 0.1227 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1wwkA 307 0.1231 1gpjA 404 0.1259 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1pzgA 331 0.1288 c.2.1.5,d.162.1.1 95425,95426 1xdwA 331 0.1382 1s6yA 450 0.1401 c.2.1.5,d.162.1.2 105314,105315 1tltA 319 0.1430 c.2.1.3,d.81.1.5 107135,107136 1t2dA 322 0.1476 c.2.1.5,d.162.1.1 99084,99085 1vllA 334 0.1494 c.2.1.13 108834 1ldg 316 0.1513 1mx3A 347 0.1536 c.2.1.4,c.23.12.1 79638,79639 1j4aA 333 0.1664 c.2.1.4,c.23.12.1 71502,71503 1lssA 140 0.1671 c.2.1.9 74246 2g76A 335 0.1723 1xwfA 431 0.1831 c.2.1.4,c.23.12.3 122392,122393 1qv9A 283 0.2073 c.127.1.1 96356 1uxjA 309 0.2207 c.2.1.5,d.162.1.1 108112,108113 1x7dA 350 0.2549 c.2.1.13 114927 1dxy 333 0.2740 1omoA 322 0.2824 c.2.1.13 104017 2hk9A 275 0.3028 1lldA 319 0.3056 c.2.1.5,d.162.1.1 30177,42144 1li4A 432 0.3079 c.2.1.4,c.23.12.3 84616,84617 1ur5A 309 0.3171 c.2.1.5,d.162.1.1 99807,99808 1d4fA 431 0.3205 c.2.1.4,c.23.12.3 30110,31370 2o4cA 380 0.3588 1xeaA 323 0.3814 c.2.1.3,d.81.1.5 109572,109573 2d0iA 333 0.4145 1qp8A 303 0.4196 c.2.1.4,c.23.12.1 30092,31352 2dbqA 334 0.4278 1v8bA 479 0.4357 c.2.1.4,c.23.12.3 113564,113565 2b0jA 358 0.4511 a.100.1.11,c.2.1.6 127639,127640 1obbA 480 0.4830 c.2.1.5,d.162.1.2 86760,86761 1up6A 416 0.4887 c.2.1.5,d.162.1.2 107976,107977 2pi1A 334 0.5172 1sc6A 404 0.5918 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1ygyA 529 0.6502 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1up7A 417 0.7197 c.2.1.5,d.162.1.2 113374,113375 2d5cA 263 0.8130 1nytA 271 0.8377 c.2.1.7,c.58.1.5 86417,86418 1guzA 310 0.8904 c.2.1.5,d.162.1.1 65586,65587 2vhxA 377 0.9009 2eggA 297 0.9414 2nloA 302 0.9508 6ldhA 329 0.9586 c.2.1.5,d.162.1.1 30161,42128 1hyhA 309 1.041 c.2.1.5,d.162.1.1 30150,42117 1gcuA 295 1.097 c.2.1.3,d.81.1.4 30063,39978 2cukA 311 1.104 1p77A 272 1.114 c.2.1.7,c.58.1.5 94214,94215 2ewdA 317 1.171 3ceaA 346 1.222 2gcgA 330 1.237 2glxA 332 1.331 1lsuA 147 1.396 c.2.1.9 74250 1npyA 271 1.415 c.2.1.7,c.58.1.5 85995,85996 2i6tA 303 1.441 1f06A 320 1.550 c.2.1.3,d.81.1.3 59556,59557 2ho3A 325 1.656 1pjcA 361 1.672 c.2.1.4,c.23.12.2 30101,31361 1vjtA 483 1.760 c.2.1.5,d.162.1.2 100833,100834 2axqA 467 1.776 2dc1A 236 2.016 1vknA 351 2.076 c.2.1.3,d.81.1.1 108676,108677 1nvtA 287 2.143 c.2.1.7,c.58.1.5 86270,86271 2hmvA 144 2.190 c.2.1.9 136615 1dxyA 333 2.471 c.2.1.4,c.23.12.1 30094,31354 2v7pA 310 2.522 2aefA 234 2.611 2nvwA 479 2.853 c.2.1.3,d.81.1.5 138665,138666 2d59A 144 2.882 c.2.1.8 131266 2q4eA 362 3.268 3c1aA 315 3.405 1hdoA 206 3.575 c.2.1.2 60965 2p2sA 336 3.586 1c1dA 355 3.620 c.2.1.7,c.58.1.1 30270,33918 1vi2A 300 3.939 c.2.1.7,c.58.1.5 100726,100727 1a4iA 301 4.006 c.2.1.7,c.58.1.2 30278,33926 2o4uX 334 4.014 1zh8A 340 4.356 c.2.1.3,d.81.1.5 125077,125078 2gptA 523 4.518 1j5pA 253 4.743 d.81.1.3,c.2.1.3 71577,83092 1y81A 138 4.960 c.2.1.8 122731 1luaA 287 5.216 c.2.1.7,c.58.1.4 78216,78217 2eklA 313 5.228 1lehA 364 5.241 c.2.1.7,c.58.1.1 30268,33916 2vojA 371 5.411 2o7sA 523 5.654 2g1uA 155 5.795 1ofgA 381 5.796 c.2.1.3,d.81.1.5 30064,39979 1nvmB 312 5.867 c.2.1.3,d.81.1.1 86251,86252 1qydA 313 6.033 c.2.1.2 96583 1a5zA 319 6.134 c.2.1.5,d.162.1.1 30181,42148 1ez4A 318 6.231 c.2.1.5,d.162.1.1 64917,64918 1iukA 140 6.283 c.2.1.8 83712 2r6jA 318 6.742 1l7dA 384 6.967 c.2.1.4,c.23.12.2 77774,77775 1h6dA 433 7.144 c.2.1.3,d.81.1.5 65656,65657 2hjsA 340 7.337 c.2.1.3,d.81.1.1 136547,136548 3bioA 304 7.774 2nqtA 352 8.490 1k6xA 352 8.551 c.2.1.2 68238 2g17A 337 8.736 c.2.1.3,d.81.1.1 134512,134513 1scuA 288 9.305 c.2.1.8,c.23.4.1 30307,31135 2gz1A 366 9.326 c.2.1.3,d.81.1.1 135887,135888 3c85A 183 9.445 2cdcA 366 10.72 1lc0A 294 10.75 c.2.1.3,d.81.1.4 73823,73824 1drwA 273 11.02 c.2.1.3,d.81.1.3 30057,39972 2ixaA 444 11.04 1rydA 387 11.11 c.2.1.3,d.81.1.5 118801,118802 1cf2O 337 11.31 c.2.1.3,d.81.1.1 29994,39909 1b0aA 288 11.62 c.2.1.7,c.58.1.2 30286,33934 2czcA 334 11.98 d.81.1.1 131044 1xq6A 253 12.29 c.2.1.2 115829 2csuA 457 12.77 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1k2wA 256 12.90 c.2.1.2 90927 1xgkA 352 13.38 c.2.1.2 115286 2a4kA 263 13.53 c.2.1.2 126156 2exxA 306 13.84 1hxhA 253 14.78 c.2.1.2 76725 1x13A 401 15.82 2cmdA 312 16.17 c.2.1.5,d.162.1.1 30135,42102 2r00A 336 16.45 1qycA 308 16.83 c.2.1.2 96581 1q7bA 244 17.60 c.2.1.2 96026 1xseA 295 17.63 c.2.1.2 115925 1uufA 369 17.77 b.35.1.2,c.2.1.1 100006,100007 1bdbA 277 18.21 c.2.1.2 29874 1xhlA 297 18.33 c.2.1.2 109591 1ydeA 270 18.39 c.2.1.2 122980 2ph5A 480 18.56 1fmcA 255 18.64 c.2.1.2 29856 2gasA 307 18.81 1vj0A 380 19.52 b.35.1.2,c.2.1.1 100786,100787 1fl2A 310 20.69 c.3.1.5,c.3.1.5 59869,59870 1e7wA 291 20.79 c.2.1.2 59373 1drw 273 20.86 1yxmA 303 20.97 c.2.1.2 124192 1ys4A 354 21.14 1yqdA 366 21.24 1gegA 256 21.61 c.2.1.2 29888 1hdcA 253 21.67 c.2.1.2 29862 1yb1A 272 21.88 c.2.1.2 116599 1nffA 260 22.02 c.2.1.2 80457 1orrA 347 22.54 c.2.1.2 93460 1e6wA 260 22.71 c.2.1.2 59326 1othA 321 23.01 c.78.1.1,c.78.1.1 35260,35261 2d8aA 348 23.25 2pd6A 264 23.39 2bryA 497 23.47 2h6eA 344 24.08 2jahA 247 24.12 1xkqA 280 24.17 c.2.1.2 115417 1n7hA 381 24.42 c.2.1.2 80250 2c5aA 379 24.69 c.2.1.2 129894 2p5yA 311 25.18 1w6uA 302 25.49 c.2.1.2 114288 1pl8A 356 25.51 b.35.1.2,c.2.1.1 94878,94879 3c8mA 331 25.63 2ejwA 332 25.93 1ja9A 274 25.98 c.2.1.2 62817 1x7gA 261 26.28 c.2.1.2 114929 1zmtA 254 26.32 c.2.1.2 125363 1pvvA 315 26.65 c.78.1.1,c.78.1.1 95190,95191 2ph3A 245 26.79 2o23A 265 26.94 c.2.1.2 138884 1vl8A 267 27.08 c.2.1.2 108733 2v3aA 384 27.46 2q49A 359 27.77 c.2.1.3,d.81.1.1 139831,139832 1zmdA 474 27.93 1f8fA 371 28.05 b.35.1.2,c.2.1.1 83246,83247 1nhp 447 28.13 2z1nA 260 28.23 2ozpA 345 28.99 2r0cA 549 29.08 2cf5A 357 29.33 1id1A 153 30.13 c.2.1.9 62286 1pwxA 254 30.70 c.2.1.2 95262 1spxA 278 31.12 c.2.1.2 98958 1hwxA 501 31.22 c.2.1.7,c.58.1.1 30250,33898 2dwcA 433 32.34 2b5wA 357 32.35 1xu9A 286 32.74 c.2.1.2 116052 1gesA 450 33.33 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1yqzA 438 33.74 2qa1A 500 33.75 1jw9B 249 33.78 c.111.1.1 67377 1lluA 342 33.88 b.35.1.2,c.2.1.1 91064,91065 2gdzA 267 34.69 c.2.1.2 135043 1zud1 251 35.08 2pnfA 248 35.65 1trb 320 36.09 2ag5A 246 36.21 c.2.1.2 126719 1zk4A 251 36.24 c.2.1.2 125176 2c07A 285 36.92 c.2.1.2 129577 1sb8A 352 37.10 c.2.1.2 105410 1y9aA 360 37.27 1xhcA 367 37.65 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 2hcyA 347 38.05 2b69A 343 39.02 c.2.1.2 127974 1vm6A 228 39.13 d.81.1.3,c.2.1.3 108877,118631 3grs 478 39.28 1o6zA 303 39.29 c.2.1.5,d.162.1.1 81107,81108 2gqwA 408 40.74 2nwqA 272 40.86 1q1rA 431 41.35 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1y5mA 276 41.36 c.2.1.2 122645 1db3A 372 41.58 c.2.1.2 29813 2bkaA 242 41.85 c.2.1.2 128666 1q7gA 359 42.09 c.2.1.3,d.81.1.2 96038,96039 1zemA 262 42.28 c.2.1.2 124984 1zk7A 467 42.32 1b7gO 340 42.35 c.2.1.3,d.81.1.1 29992,39907 1rkxA 357 42.45 c.2.1.2 97631 1zq9A 285 43.19 c.66.1.24 125505 1cydA 244 43.35 c.2.1.2 29825 1x1tA 260 43.47 c.2.1.2 121597 2q46A 253 43.69 c.2.1.2 139825 2jfgA 445 44.23 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 2ae2A 260 44.42 c.2.1.2 29945 1i2cA 404 44.68 c.2.1.2 83666 1d7yA 408 45.07 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1eyzA 392 46.15 b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1pbeA 394 46.30 c.3.1.2,d.16.1.2 30338,37869 1kyqA 274 46.35 c.2.1.11,e.37.1.1 73281,73282 2bzgA 232 46.48 c.66.1.36 129559 1t2aA 375 46.52 c.2.1.2 99078 1nhpA 447 46.77 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1y8cA 246 47.88 c.66.1.43 116563 2bgkA 278 48.37 c.2.1.2 128480 1y1pA 342 48.84 c.2.1.2 122550 2z5lA 511 50.48 1nhsA 447 50.84 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2cduA 452 52.45 2yqzA 263 52.57 1iy8A 267 53.40 c.2.1.2 83774 1e3jA 352 53.61 b.35.1.2,c.2.1.1 24765,29781 2yyyA 343 53.70 1bdb 277 53.88 2avnA 260 54.72 c.66.1.41 127380 1bxkA 355 56.36 c.2.1.2 29803 1wmaA 276 56.68 c.2.1.2 121042 2p91A 285 56.78 1hyuA 521 57.82 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2cfcA 250 58.24 1x1eA 239 58.44 1ve3A 227 58.57 c.66.1.43 120010 1xg5A 279 58.71 c.2.1.2 115277 1h5qA 265 58.73 c.2.1.2 60643 1jqbA 351 59.25 b.35.1.2,c.2.1.1 77151,77152 2ouiA 360 59.48 1kolA 398 59.57 b.35.1.2,c.2.1.1 77474,77475 1cs1A 386 60.35 c.67.1.3 34399 2h1rA 299 60.44 3c4aA 381 60.77 1kjqA 391 62.41 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 2qq5A 260 63.12 1xel 338 63.82 1wznA 252 65.13 c.66.1.43 121525 1mo9A 523 66.77 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1l9cA 389 67.37 c.3.1.2,d.16.1.3 77815,77816 1mldA 314 67.66 c.2.1.5,d.162.1.1 30122,42089 1oc2A 348 67.87 c.2.1.2 92765 1rpnA 335 67.94 c.2.1.2 97708 3ladA 476 68.16 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1kevA 351 69.40 b.35.1.2,c.2.1.1 24749,29765 2p4hX 322 69.51 1n5dA 288 70.43 c.2.1.2 80030 1iz0A 302 70.73 b.35.1.2,c.2.1.1 83821,83822 1p0fA 373 70.85 b.35.1.2,c.2.1.1 87642,87643 2cmd 312 71.26 1z7bA 358 71.28 c.2.1.2 124599 1n8kA 374 72.20 b.35.1.2,c.2.1.1 80298,80299 1duvG 333 72.95 c.78.1.1,c.78.1.1 35228,35229 2ew8A 249 73.18 c.2.1.2 132447 1hyeA 313 73.66 c.2.1.5,d.162.1.1 61400,61401 2z1mA 345 74.78 1qyrA 252 75.08 c.66.1.24 104657 1l3iA 192 76.87 c.66.1.22 77676 1b16A 254 76.88 c.2.1.2 29875 1dv2A 452 77.58 b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 2gf3A 389 78.66 c.3.1.2,d.16.1.3 135070,135071 2blnA 305 78.80 b.46.1.1,c.65.1.1 128734,128735 2q1sA 377 79.22 1qrrA 394 79.49 c.2.1.2 29824 2g82A 331 79.84 c.2.1.3,d.81.1.1 134746,134747 2fk8A 318 80.78 c.66.1.18 133648 2c29D 337 80.80 2fr1A 486 80.81 c.2.1.2,c.2.1.2 133961,133962 1ebfA 358 81.15 c.2.1.3,d.81.1.2 30033,39948 3cgvA 397 81.53 1ek6A 348 82.36 c.2.1.2 29800 1b6rA 355 82.71 b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1pjqA 457 82.88 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2d1yA 256 84.46 c.2.1.2 131151 2a9fA 398 84.81 3cc8A 230 85.39 1eudA 311 87.29 c.2.1.8,c.23.4.1 30312,31140 1i24A 404 88.65 c.2.1.2 83663 1eny 268 89.11 2qm8A 337 89.54 1xa0A 328 89.62 b.35.1.2,c.2.1.1 115021,115022