# List of top-scoring protein chains for t04-100-30-o_notor2-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. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #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 FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1y8qA 346 1.04e-02 2bkqA 212 1.08e-01 2bkrA 212 1.43e-01 2cvlA 124 1.48e-01 1a99A 344 1.86e-01 1pot c.94.1.1 35812 1f1uA 323 3.06e-01 d.32.1.3,d.32.1.3 83200,83201 1u7iA 136 3.06e-01 d.32.1.7 107724 1jg5A 83 3.33e-01 d.205.1.1 66666 2bgcA 238 3.35e-01 1f1xA 322 3.81e-01 d.32.1.3,d.32.1.3 83208,83209 1t0hB 224 3.94e-01 c.37.1.1 106208 1e5dA 402 4.26e-01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1wm3A 72 4.41e-01 1g6oA 330 5.45e-01 1g6oA c.37.1.11 32430 2iwbA 246 5.47e-01 2olbA 517 5.54e-01 1jevA c.94.1.1 35721 1sgvA 316 5.69e-01 b.122.1.1,d.265.1.2 98858,98859 1jetA 517 5.76e-01 1jevA c.94.1.1 35718 2faoA 309 5.83e-01 2dc4A 165 6.16e-01 1wurA 220 6.62e-01 1f0xA 571 6.88e-01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1t3lA 337 7.03e-01 b.34.2.1,c.37.1.1 106358,106359 1ldjA 760 7.52e-01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1zejA 293 7.69e-01 1n9lA 109 8.17e-01 d.110.3.6 85468 1yemA 179 8.30e-01 2cybA 323 9.07e-01 1t6t1 118 9.10e-01 1f52A 468 9.34e-01 1lgr d.15.9.1,d.128.1.1 37839,41169 1z02A 446 9.42e-01 2rslA 140 9.69e-01 2rslA c.53.1.1 33345 1xgsA 295 9.92e-01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1j1uA 306 1.03e+00 c.26.1.1 83980 1o4wA 147 1.07e+00 c.120.1.1 86629 1gu7A 364 1.07e+00 b.35.1.2,c.2.1.1 83321,83322 2dchX 216 1.10e+00 1xt9A 212 1.12e+00 1frb 315 1.14e+00 1frb c.1.7.1 28665 1f1zA 273 1.14e+00 1f1zA a.4.5.27,c.52.1.16 16081,33334 1v7rA 186 1.20e+00 c.51.4.1 100482 1r3eA 309 1.22e+00 b.122.1.1,d.265.1.2 96907,96908 1y9kA 157 1.23e+00 1q5yA 85 1.24e+00 d.58.18.4 95950 1uekA 275 1.30e+00 d.14.1.5,d.58.26.5 88483,88484 1yqfA 203 1.34e+00 1hnnA 282 1.34e+00 c.66.1.15 65895 1laxA 370 1.34e+00 c.94.1.1 84576 1mgpA 313 1.37e+00 c.119.1.1 79098 2gs5A 198 1.38e+00 1zq1C 633 1.44e+00 2c1lA 358 1.49e+00 1o51A 114 1.52e+00 d.58.5.4 92480 1nd4A 264 1.54e+00 d.144.1.6 91815 1va4A 279 1.59e+00 c.69.1.12 108458 1q77A 138 1.64e+00 c.26.2.4 96023 2f7fA 494 1.64e+00 2an3A 289 1.67e+00 2ew8A 249 1.67e+00 1gmxA 108 1.69e+00 c.46.1.3 65355 1vpqA 273 1.74e+00 1fc4A 401 1.74e+00 1bs0A c.67.1.4 59760 2d1pA 140 1.77e+00 2c4wA 176 1.78e+00 1gz6A 319 1.80e+00 c.2.1.2 76410 2fb0A 94 1.80e+00 1mjhA 162 1.80e+00 1mjhA c.26.2.4 31639 1fe0A 68 1.90e+00 1cc8A d.58.17.1 39345 1yzhA 214 2.00e+00 1nv8A 284 2.01e+00 c.66.1.30 86224 1nb5I 98 2.06e+00 d.17.1.2 80381 2ptd 298 2.06e+00 2plc c.1.18.2 29605 1w6uA 302 2.07e+00 1wosA 364 2.11e+00 b.44.2.1,d.250.1.1 109468,109469 2fhzA 109 2.13e+00 1ryt 190 2.14e+00 1ryt a.25.1.1,g.41.5.1 16646,45245 1wy5A 317 2.14e+00 1ytvA 366 2.18e+00 1vmiA 355 2.18e+00 1rqlA 267 2.20e+00 c.108.1.3 97750 2eryA 172 2.24e+00 1heiA 451 2.29e+00 1heiA c.37.1.14,c.37.1.14 32463,32464 1jg1A 235 2.31e+00 c.66.1.7 66661 1xocA 520 2.32e+00 2ctoA 93 2.35e+00 1nf2A 268 2.35e+00 c.108.1.10 91849 1opjA 293 2.36e+00 d.144.1.7 87230 1xdzA 240 2.39e+00 1yu6A 275 2.41e+00 1bf6A 291 2.41e+00 1pscA c.1.9.3 29065 1t0fA 276 2.44e+00 1pzwA 80 2.46e+00 g.39.1.10 95483 1xuuA 349 2.48e+00 1zbfA 142 2.51e+00 1nrfA 262 2.56e+00 e.3.1.1 92086 1vlmA 219 2.60e+00 c.66.1.41 108836 2gupA 292 2.61e+00 1r0rE 274 2.72e+00 c.41.1.1 96735 1v6tA 255 2.78e+00 1othA 321 2.80e+00 1othA c.78.1.1,c.78.1.1 35260,35261 1v5iB 76 2.96e+00 1wu7A 434 2.97e+00 2d4pA 141 2.99e+00 1b0uA 262 3.01e+00 1b0uA c.37.1.12 32370 1gefA 123 3.01e+00 1gefA c.52.1.18 60465 1wojA 214 3.07e+00 1iyxA 432 3.08e+00 c.1.11.1,d.54.1.1 83815,83816 2b3yA 888 3.11e+00 1b71A 191 3.12e+00 1ryt a.25.1.1,g.41.5.1 16647,45246 1ww9A 392 3.14e+00 1lkoA 191 3.14e+00 a.25.1.1,g.41.5.1 78063,78064 2avnA 260 3.15e+00 1j27A 102 3.17e+00 d.58.50.1 90778 1gewA 356 3.19e+00 1gewA c.67.1.1 60470 1w6tA 444 3.21e+00 1wyuA 438 3.24e+00 1j3mA 129 3.25e+00 d.129.7.1 103836 1vl5A 260 3.30e+00 c.66.1.41 108720 2gk4A 232 3.30e+00 1j79A 347 3.30e+00 1j79A c.1.9.4 62675 2a14A 263 3.37e+00 1zu0A 529 3.43e+00 2frnA 278 3.47e+00 2ganA 190 3.47e+00 1qysA 106 3.48e+00 k.41.1.1 96603 1v4pA 157 3.51e+00 1o1xA 155 3.52e+00 c.121.1.1 86553 2d8sA 80 3.55e+00 2bswA 146 3.76e+00 1obbA 480 3.77e+00 c.2.1.5,d.162.1.2 86760,86761 2ao0A 324 3.79e+00 1o8xA 146 3.83e+00 c.47.1.10 86681 2bzoB 79 3.90e+00 1ads 315 3.92e+00 1frb c.1.7.1 28671 1j34B 123 3.92e+00 d.169.1.1 84049 1wvfA 520 3.93e+00 1nt4A 391 3.97e+00 c.60.1.2 92102 1pvvA 315 4.00e+00 c.78.1.1,c.78.1.1 95190,95191 1innA 166 4.06e+00 1j98A d.185.1.2 62608 1vk8A 106 4.06e+00 d.58.48.1 108636 1l1qA 186 4.07e+00 c.61.1.1 77653 1us0A 316 4.07e+00 c.1.7.1 99850 1pwmA 316 4.08e+00 c.1.7.1 95231 8abp 306 4.11e+00 8abp c.93.1.1 35647 2a7oA 112 4.12e+00 2bgsA 344 4.27e+00 1gqpA 221 4.30e+00 b.18.1.9 70372 1nzjA 298 4.36e+00 c.26.1.1 92377 1ooeA 236 4.40e+00 c.2.1.2 87196 1j97A 211 4.41e+00 1f5sA c.108.1.4 62753 2ae0X 345 4.52e+00 5abp 306 4.53e+00 8abp c.93.1.1 35651 1fg7A 356 4.58e+00 1gewA c.67.1.1 59819 2a4aA 281 4.60e+00 1hr6B 443 4.62e+00 1be3A d.185.1.1,d.185.1.1 61166,61167 1m2oA 768 4.65e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1ta3B 303 4.67e+00 c.1.8.3 106732 1yzbA 182 4.68e+00 1xxlA 239 4.69e+00 4mbp 370 4.77e+00 4mbp c.94.1.1 35777 1xf1A 926 4.81e+00 1vd4A 62 4.84e+00 1yovA 537 4.85e+00 1i05A 180 4.86e+00 1mup b.60.1.1 27130 2dclA 127 4.88e+00 2axiA 115 4.89e+00 1l7mA 211 4.89e+00 c.108.1.4 73664 1amf 233 4.92e+00 1wod c.94.1.1 35833 1iukA 140 4.95e+00 c.2.1.8 83712 1tfe 145 4.95e+00 1tfe d.43.1.1 38680 1jidA 128 4.97e+00 d.201.1.1 66735 1gmlA 178 5.00e+00 c.8.5.2 70273 2d5cA 263 5.01e+00 2gu1A 361 5.04e+00 1okjA 251 5.08e+00 c.55.1.9,c.55.1.9 103998,103999 2ah5A 210 5.10e+00 1jl3A 139 5.17e+00 c.44.1.1 66826 1kcxA 518 5.21e+00 b.92.1.3,c.1.9.6 90953,90954 1wxdA 263 5.31e+00 1vjeA 166 5.35e+00 d.185.1.2 100807 2bznA 351 5.36e+00 1wa3A 205 5.37e+00 1qmpA 130 5.40e+00 1dz3A c.23.1.1 31106 2ivyA 101 5.43e+00 3il8 72 5.46e+00 1tvxA d.9.1.1 37356 1s68A 249 5.50e+00 d.142.2.4 98591 1htqA 477 5.51e+00 d.15.9.1,d.128.1.1 71035,71036 1k38A 254 5.63e+00 e.3.1.1 84303 1vhoA 346 5.64e+00 b.49.3.1,c.56.5.4 100694,100695 2agtA 319 5.64e+00 1v8gA 329 5.65e+00 a.46.2.1,c.27.1.1 100505,100506 2c6qA 351 5.70e+00 2cthA 107 5.71e+00 3cyr a.138.1.1 19652 1jbeA 128 5.78e+00 3chy c.23.1.1 62845 2fb6A 117 5.81e+00 1zowA 313 6.00e+00 2genA 197 6.17e+00 1xkzA 255 6.19e+00 1u20A 212 6.23e+00 2fulA 178 6.25e+00 1anf 370 6.27e+00 4mbp c.94.1.1 35776 2dtr 226 6.27e+00 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 2bj7A 138 6.31e+00 1vf8A 377 6.37e+00 1v25A 541 6.47e+00 e.23.1.1 108275 3chy 128 6.52e+00 3chy c.23.1.1 31038 1h7mA 102 6.63e+00 d.79.3.1 83485 2gaeA 346 6.66e+00 1jv4A 162 6.80e+00 b.60.1.1 67343 1dj7A 117 6.83e+00 1dj7A g.36.1.1 44997 1k2eA 156 6.83e+00 d.113.1.1 72010 1oahA 519 6.94e+00 a.138.1.3 86736 1n13B 113 6.96e+00 1hnjA 317 7.05e+00 1hn9A c.95.1.2,c.95.1.2 35969,35970 2b30A 301 7.13e+00 1ihoA 283 7.23e+00 1ihoA c.26.1.4 62390 1dl5A 317 7.28e+00 1dl5A c.66.1.7,d.197.1.1 64720,64721 1k20A 310 7.35e+00 c.107.1.1 68027 1brwA 433 7.39e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2acy 98 7.39e+00 2acy d.58.10.1 39298 1ispA 181 7.47e+00 c.69.1.18 76778 2bvcA 486 7.48e+00 1r1dA 247 7.52e+00 c.69.1.29 96813 2bmaA 470 7.55e+00 1zgdA 312 7.56e+00 1zbqA 327 7.60e+00 2bx2L 517 7.60e+00 1ignA 246 7.66e+00 1ignA a.4.1.6,a.4.1.6 16048,16049 1xa1A 255 7.79e+00 e.3.1.1 109529 1y81A 138 7.85e+00 1gnkA 112 7.87e+00 2pii d.58.5.1 39073 1j09A 468 7.95e+00 a.97.1.1,c.26.1.1 77025,77026 1v7oA 165 7.99e+00 d.67.1.2 100480 1kr4A 125 7.99e+00 d.58.5.2 72889 1vp8A 201 8.14e+00 1hrdA 449 8.16e+00 1k89 c.2.1.7,c.58.1.1 30219,33867 1krhA 338 8.29e+00 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1qz5A 375 8.30e+00 c.55.1.1,c.55.1.1 96614,96615 1kqpA 271 8.32e+00 c.26.2.1 72883 2c30A 321 8.36e+00 1j5yA 187 8.40e+00 a.4.5.1,d.94.2.1 71592,71593 1eq6A 189 8.45e+00 1eq6A d.107.1.1 40796 1ht6A 405 8.48e+00 b.71.1.1,c.1.8.1 83629,83630 1ia8A 289 8.56e+00 1ia8A d.144.1.7 62112 1edzA 320 8.61e+00 1ee9A c.2.1.7,c.58.1.2 30287,33935 2mhr 118 8.64e+00 2mhr a.24.4.1 16581 2fi0A 81 8.65e+00 1wuaA 375 8.67e+00 2fxuA 375 8.83e+00 2b9eA 303 8.83e+00 1i1qA 520 8.92e+00 1qdlA d.161.1.1 61543 1r89A 437 8.93e+00 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1atg 231 8.95e+00 1atg c.94.1.1 35834 1omp 370 8.96e+00 4mbp c.94.1.1 35778 1no5A 114 9.02e+00 d.218.1.5 92014 1vzyA 291 9.15e+00 1ww8A 439 9.18e+00 1s3aA 102 9.23e+00 1fp2A 352 9.23e+00 1fpxA a.4.5.29,c.66.1.12 59941,59942 1reqB 637 9.33e+00 1reqB c.1.19.1,c.23.6.1 29621,31248 1vhzA 198 9.33e+00 d.113.1.1 100718 1oz9A 150 9.38e+00 d.92.1.15 93808 2btfA 375 9.46e+00 1yagA c.55.1.1,c.55.1.1 33429,33430 1xmrA 243 9.49e+00 2ewcA 126 9.50e+00 1bd3A 243 9.53e+00 1bd3A c.61.1.1 34098 1z9tA 255 9.55e+00 1kkoA 413 9.60e+00 c.1.11.2,d.54.1.1 68675,68676 1a0i 348 9.62e+00 1a0i b.40.4.6,d.142.2.1 25363,41577 1zndA 174 9.65e+00 1qqfA 277 9.75e+00 1c3d a.102.4.4 18875 1pjqA 457 9.96e+00 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1hh1A 143 1.00e+01 1gefA c.52.1.18 61036 2cchB 260 1.00e+01 1m6sA 347 1.01e+01 c.67.1.1 78701 1qy1A 174 1.01e+01 b.60.1.1 96568 1wz7A 111 1.02e+01 1uiuA 502 1.02e+01 c.94.1.1 99434 1riqA 465 1.03e+01 a.203.1.1,d.104.1.1 97516,97517 1vin 268 1.03e+01 1vin a.74.1.1,a.74.1.1 18354,18355 1rypL 212 1.03e+01 d.153.1.4 41880 1o22A 170 1.03e+01 d.238.1.1 86557 1y60A 169 1.05e+01 1wod 233 1.05e+01 1wod c.94.1.1 35832 2b25A 336 1.05e+01 1k4iA 233 1.06e+01 d.115.1.2 72056 1j0pA 108 1.06e+01 a.138.1.1 90743 1z5hA 780 1.06e+01 1i8oA 114 1.07e+01 1ycc a.3.1.1 61979 1gdeA 389 1.08e+01 c.67.1.1 60456 1ve3A 227 1.08e+01 2fr1A 486 1.08e+01 2baa 243 1.08e+01 1cnsA d.2.1.1 36243 1q7zA 566 1.09e+01 c.1.21.2,c.1.26.1 96090,96091 1l2uA 245 1.09e+01 c.1.2.3 73516 1yfsA 465 1.10e+01 1srb 21 1.11e+01 j.28.1.1 46201 1x74A 360 1.12e+01 2fsjA 346 1.12e+01 1p1lA 102 1.12e+01 d.58.5.2 87695 1gw5S 142 1.12e+01 d.110.4.2 70633 2czvC 120 1.13e+01 1dz3A 130 1.14e+01 1dz3A c.23.1.1 31105 1ny1A 240 1.14e+01 c.6.2.3 86395 1jg8A 347 1.14e+01 1jg8A c.67.1.1 62946 2b0cA 206 1.14e+01 1i6wA 181 1.16e+01 1i6wA c.69.1.18 61859 1tca 317 1.16e+01 1tca c.69.1.17 34726 1vqoU 66 1.20e+01 1n83A 270 1.22e+01 a.123.1.1 80276 1atzA 189 1.23e+01 1atzA c.62.1.1 34132 1jhsA 188 1.24e+01 d.107.1.1 84172 1lucA 355 1.24e+01 1lucA c.1.16.1 29547 1nrwA 288 1.24e+01 c.108.1.10 86128 2gsfA 373 1.25e+01 1zupA 315 1.26e+01 1w41A 101 1.26e+01 1f89A 291 1.27e+01 d.160.1.1 64988 1bgvA 449 1.27e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1np6A 174 1.27e+01 c.37.1.10 85954 4xis 387 1.28e+01 4xis c.1.15.3 29421 2anpA 291 1.28e+01 2gzxA 265 1.29e+01 1tj9A 121 1.30e+01 a.133.1.2 107015 1af3 196 1.31e+01 1maz f.1.4.1 43397 1w9hA 427 1.31e+01 2fcfA 103 1.33e+01 1qnrA 344 1.33e+01 1qnoA c.1.8.3 28834 1tk4A 121 1.33e+01 a.133.1.2 107073 1wzcA 249 1.34e+01 1zwpA 121 1.34e+01 1s72U 66 1.35e+01 g.39.1.6 105340 1f75A 249 1.35e+01 1f75A c.101.1.1 59662 1t9hA 307 1.35e+01 1vkcA 158 1.36e+01 1e8gA 560 1.37e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 2ae6A 166 1.37e+01 2agaA 190 1.38e+01 1z08A 170 1.38e+01 1zljA 78 1.38e+01 3xis 387 1.39e+01 4xis c.1.15.3 29423 1fo3A 460 1.40e+01 1dl2A a.102.2.1 18845 1z2iA 358 1.40e+01 1oapA 109 1.41e+01 d.79.7.1 92706 1qhtA 775 1.42e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1u6pA 56 1.42e+01 1aw7A 194 1.42e+01 1aw7A b.40.2.2,d.15.6.1 25164,37753 1fehA 574 1.43e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1njqA 39 1.43e+01 g.37.1.3 85822 1oi2A 366 1.43e+01 c.119.1.2 103802 1uohA 226 1.43e+01 d.211.1.1 99690 1r0pA 312 1.43e+01 d.144.1.7 96734 1om1A 332 1.44e+01 d.144.1.7 93347 1sqzA 121 1.44e+01 a.133.1.2 98975 1z1zA 131 1.44e+01 1p3dA 475 1.46e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1ir3A 306 1.46e+01 1fmk d.144.1.7 41702 1qo2A 241 1.46e+01 1qo2A c.1.2.1 28533 1jj2T 66 1.47e+01 1ffkR g.39.1.6 63105 1muwA 386 1.48e+01 c.1.15.3 79495 1naqA 112 1.49e+01 d.58.5.2 91761 1b78A 193 1.49e+01 1b78A c.51.4.1 33221 2gi3A 476 1.49e+01 1om4A 422 1.50e+01 d.174.1.1 87067 1y0bA 197 1.51e+01 1nbwA 607 1.52e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1pzxA 289 1.53e+01 c.119.1.1 95484 1w19A 160 1.54e+01 2d9iA 96 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