# List of top-scoring protein chains for t06-100-30-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 1hq0A 295 8.35e-02 1hzgA d.194.1.1 61122 1r6wA 322 1.31e-01 c.1.11.2,d.54.1.1 97165,97166 1o5kA 306 2.21e-01 c.1.10.1 92504 1tfr 305 2.24e-01 1tfr a.60.7.1,c.120.1.2 18081,33351 2bkrA 212 2.89e-01 1gw5S 142 3.42e-01 d.110.4.2 70633 1kfcA 268 5.25e-01 c.1.2.4 77371 1qopA 268 6.05e-01 2tysA c.1.2.4 28570 1p5dX 463 7.07e-01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1m1hA 248 8.23e-01 b.114.1.1,d.58.42.1 78415,78416 2ap1A 327 8.40e-01 1wa3A 205 8.48e-01 1jx4A 352 9.33e-01 d.240.1.1,e.8.1.7 90378,90379 1lba 146 1.01e+00 1lba d.118.1.1 41062 1e2kA 331 1.04e+00 1qhiA c.37.1.1 31854 1qz9A 416 1.09e+00 c.67.1.3 96621 1o2dA 371 1.14e+00 e.22.1.2 86591 1vicA 262 1.14e+00 c.68.1.13 100756 1dc1A 323 1.20e+00 1dc1A c.52.1.11 33321 3cla 213 1.21e+00 3cla c.43.1.1 32610 1z57A 339 1.26e+00 1rjdA 334 1.26e+00 c.66.1.37 97558 1q8yA 373 1.40e+00 d.144.1.7 96234 2az4A 429 1.41e+00 1o4sA 389 1.49e+00 c.67.1.1 86620 1lqaA 346 1.62e+00 c.1.7.1 84674 1n8fA 350 1.70e+00 c.1.10.4 85397 2eu9A 355 1.80e+00 1wxxA 382 1.86e+00 1w9cA 321 1.87e+00 1vl4A 447 1.90e+00 d.283.1.1 108718 1ofuX 119 1.91e+00 c.37.1.22 86976 1nw3A 416 1.96e+00 c.66.1.31 86288 2f9lA 199 2.17e+00 1wsrA 375 2.28e+00 2bo9A 308 2.36e+00 2b49A 287 2.36e+00 1hruA 188 2.39e+00 1hruA d.115.1.1 40926 1z7aA 308 2.40e+00 1hw6A 278 2.41e+00 1frb c.1.7.1 61296 1io1A 398 2.43e+00 1io1A e.32.1.1 62611 1tmxA 293 2.47e+00 2cxxA 190 2.50e+00 1d7uA 433 2.51e+00 2dkb c.67.1.4 34439 5nul 138 2.56e+00 5nul c.23.5.1 31191 1y88A 199 2.76e+00 1yw5A 177 2.78e+00 1x72A 334 2.89e+00 d.126.1.6 109495 1s2wA 295 2.94e+00 c.1.12.7 98407 1y74A 57 2.97e+00 2a10A 125 3.02e+00 1h4vB 421 3.04e+00 1adjA c.51.1.1,d.104.1.1 60624,60625 2fn0A 437 3.07e+00 2g8yA 385 3.34e+00 1t0iA 191 3.35e+00 c.23.5.4 106209 2atzA 180 3.53e+00 2cmuA 342 3.65e+00 1hh1A 143 3.68e+00 1gefA c.52.1.18 61036 1earA 147 3.77e+00 b.107.1.1,d.58.38.1 64875,64876 1svdM 110 3.85e+00 1ua4A 455 4.03e+00 c.72.1.3 99128 2cvbA 188 4.04e+00 2b6nA 278 4.10e+00 1e19A 314 4.31e+00 1b7bA c.73.1.1 34967 1h2eA 207 4.36e+00 c.60.1.1 70857 2fhzA 109 4.40e+00 1va4A 279 4.44e+00 c.69.1.12 108458 1wnaA 131 4.55e+00 1ob8A 135 4.70e+00 1ycoA 279 4.99e+00 2gtrA 261 4.99e+00 1zkrA 153 5.17e+00 1yb3A 175 5.21e+00 1to2E 281 5.24e+00 1rypA 243 5.28e+00 1pmaA d.153.1.4 41932 1rybA 212 5.42e+00 c.56.3.1 98098 1twdA 256 5.42e+00 c.1.30.1 107397 1nriA 306 5.45e+00 c.80.1.3 86123 1r7cA 31 5.49e+00 j.35.1.1 104831 1xngA 268 5.79e+00 2a0mA 316 5.83e+00 1ek9A 428 5.84e+00 1ek9A f.5.1.1 43809 1zxuA 217 6.12e+00 1l1eA 287 6.13e+00 c.66.1.18 73454 1r5mA 425 6.17e+00 2a6hC 1119 6.29e+00 2aebA 322 6.38e+00 1lehA 364 6.55e+00 1bw9A c.2.1.7,c.58.1.1 30268,33916 1p57A 114 6.56e+00 d.170.1.2 94125 1k07A 263 6.71e+00 d.157.1.1 77218 1bm4A 32 6.98e+00 1bm4A j.47.1.1 46325 1geeA 261 7.01e+00 c.2.1.2 90509 1jhgA 101 7.04e+00 1jhgA a.4.12.1 19009 2bmeA 186 7.06e+00 1vraB 215 7.08e+00 4tmkA 213 7.11e+00 5tmpA c.37.1.1 31930 2f2hA 773 7.53e+00 1us0A 316 7.57e+00 c.1.7.1 99850 1odzA 386 7.60e+00 c.1.8.3 86889 1pfvA 551 7.68e+00 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1k47A 337 7.77e+00 d.14.1.5,d.58.26.4 72040,72041 1tuoA 464 7.92e+00 1ayoA 130 8.07e+00 1ayoA b.2.4.1 22431 1nc5A 373 8.12e+00 a.102.1.6 85548 1h32A 261 8.12e+00 a.3.1.8,a.3.1.8 76618,76619 1bdfA 235 8.20e+00 1bdfA d.74.3.1,d.181.1.1 39727,42602 2cayA 145 8.33e+00 2afbA 351 8.41e+00 1rypG 244 8.67e+00 d.153.1.4 41938 1vqoR 155 8.67e+00 1qbjA 81 8.70e+00 1qbjA a.4.5.19 16155 2al1A 436 8.77e+00 1c3cA 429 8.85e+00 1c3cA a.127.1.1 19425 1yqzA 438 9.02e+00 1xfkA 336 9.07e+00 2b7aA 293 9.28e+00 1zxfA 155 9.43e+00 1v54E 109 9.48e+00 a.118.11.1 100326 1pbwA 216 9.68e+00 1pbwA a.116.1.1 19103 2beiA 170 9.71e+00 1gci 269 9.80e+00 1gci c.41.1.1 32503 1pme 380 9.81e+00 1hcl d.144.1.7 41653 1j6wA 175 9.85e+00 1j98A d.185.1.2 62663 1ep3A 311 9.90e+00 2dorA c.1.4.1 28597 1t95A 240 9.94e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1tuaA 191 1.01e+01 d.51.1.1,d.51.1.1 107321,107322 1ia9A 280 1.01e+01 1ia9A d.144.1.5 62113 1vmbA 140 1.02e+01 1usgA 346 1.03e+01 c.93.1.1 99864 2gx9A 129 1.06e+01 3pviA 157 1.06e+01 3pviA c.52.1.6 33300 1frb 315 1.07e+01 1frb c.1.7.1 28665 1tn6A 382 1.08e+01 1zbfA 142 1.11e+01 1ohvA 472 1.12e+01 c.67.1.4 93031 1zgyA 272 1.17e+01 1uanA 227 1.18e+01 c.134.1.1 99135 1x6oA 174 1.18e+01 b.34.5.2,b.40.4.5 109493,109494 1nd4A 264 1.18e+01 d.144.1.6 91815 1i1qA 520 1.19e+01 1qdlA d.161.1.1 61543 1t1gA 364 1.19e+01 c.41.1.2 106246 1ne9A 335 1.21e+01 d.108.1.4,d.108.1.4 91839,91840 1oc2A 348 1.22e+01 c.2.1.2 92765 1u9tA 354 1.22e+01 2a33A 215 1.23e+01 1xb4A 202 1.24e+01 1kjkA 64 1.24e+01 d.10.1.4 72613 1jlvA 209 1.25e+01 a.45.1.1,c.47.1.5 71729,71730 2a7kA 250 1.27e+01 1e8yA 966 1.28e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1xd8A 289 1.31e+01 2h1tA 188 1.31e+01 1j5pA 253 1.32e+01 d.81.1.3,c.2.1.3 71577,83092 1s8nA 205 1.32e+01 c.23.1.1 105374 1r0rE 274 1.32e+01 c.41.1.1 96735 1j0dA 341 1.34e+01 c.79.1.1 83902 2sak 121 1.35e+01 2sak d.15.5.1 37711 1vk8A 106 1.35e+01 d.58.48.1 108636 1zmdA 474 1.36e+01 1woqA 267 1.36e+01 c.55.1.10,c.55.1.10 109462,109463 2ag4A 164 1.36e+01 1vljA 407 1.37e+01 e.22.1.2 108832 1ooeA 236 1.37e+01 c.2.1.2 87196 1z15A 344 1.39e+01 2fm8A 135 1.41e+01 1lam 484 1.41e+01 1lam c.50.1.1,c.56.5.3 33166,33829 2evaA 307 1.44e+01 1wqaA 455 1.45e+01 1oneA 436 1.45e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1xfiA 367 1.47e+01 e.50.1.1 109584 3fapB 94 1.47e+01 1nsgB a.24.7.1 16612 1xnzA 264 1.47e+01 1q0pA 223 1.48e+01 c.62.1.1 95507 1r31A 428 1.50e+01 d.58.20.1,d.179.1.1 96897,96898 1za0A 275 1.53e+01 1z8gA 372 1.53e+01 1pch 88 1.53e+01 1ptf d.94.1.1 40564 1nnwA 252 1.55e+01 d.159.1.5 80674 1pc3A 350 1.55e+01 c.94.1.1 104102 1puoA 170 1.63e+01 a.101.1.1,a.101.1.1 95134,95135 1qj4A 257 1.63e+01 1qj4A c.69.1.20 34796 1ckaA 57 1.64e+01 1ckaA b.34.2.1 24459 1vjzA 341 1.65e+01 c.1.8.3 100838 1w15A 153 1.66e+01 b.7.1.2 109041 1vqoB 338 1.67e+01 1v54J 59 1.69e+01 f.23.4.1 100331 2ex3B 264 1.69e+01 2ak3A 226 1.70e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1mpxA 615 1.72e+01 b.18.1.13,c.69.1.21 85041,85042 1xkzA 255 1.73e+01 2bw0A 329 1.74e+01 1spgA 144 1.75e+01 1abwA a.1.1.2 15409 2gi3A 476 1.75e+01 1u7zA 226 1.76e+01 1hulA 108 1.77e+01 1hulA a.26.1.2 16865 1b06A 210 1.77e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1a5t 334 1.79e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1m2dA 110 1.82e+01 c.47.1.11 78476 1hziA 129 1.82e+01 1rcb a.26.1.2 61449 1ppjA 446 1.85e+01 d.185.1.1,d.185.1.1 104252,104253 1xp8A 366 1.85e+01 1xviA 275 1.86e+01 1rxdA 159 1.86e+01 2a5yB 549 1.88e+01 1pinA 163 1.88e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1ox0A 430 1.90e+01 c.95.1.1,c.95.1.1 87495,87496 1gpmA 525 1.90e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2ccmA 191 1.91e+01 1uj6A 227 1.91e+01 c.124.1.4,d.58.40.1 107898,107899 1auk 489 1.94e+01 1auk c.76.1.2 35030 1sfxA 109 1.95e+01 a.4.5.50 105505 1e8cA 498 1.95e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1sz2A 332 1.97e+01 2cvjA 180 1.99e+01 1v4aA 440 2.00e+01 a.24.16.4,d.218.1.9 108350,108351 2aioA 269 2.01e+01 1z6oM 191 2.04e+01 1kqpA 271 2.04e+01 c.26.2.1 72883 1udxA 416 2.05e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1omrA 201 2.05e+01 a.39.1.5 93349 1xg8A 111 2.05e+01 1qhfA 240 2.05e+01 1qhfA c.60.1.1 33960 1o20A 427 2.06e+01 c.82.1.1 86556 1uptA 171 2.07e+01 c.37.1.8 99767 1vrbA 342 2.09e+01 1wdtA 665 2.09e+01 1jl0A 334 2.11e+01 1jenA d.156.1.1 63155 1zd8A 227 2.14e+01 1shuX 182 2.14e+01 c.62.1.1 98882 1oxjA 173 2.16e+01 a.60.1.2,a.118.1.13 87517,87518 1in4A 334 2.16e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1x3mA 415 2.16e+01 1xd5A 112 2.18e+01 1yx4A 132 2.19e+01 1jftA 340 2.21e+01 a.35.1.5,c.93.1.1 66652,66653 1vp2A 208 2.21e+01 1lnsA 763 2.21e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1t7lA 766 2.23e+01 1zgkA 308 2.24e+01 1hqz1 141 2.24e+01 1gqnA 252 2.24e+01 c.1.10.1 90514 1zy9A 564 2.25e+01 1txoA 237 2.27e+01 1kjwA 295 2.29e+01 b.34.2.1,c.37.1.1 68643,68644 1gqzA 274 2.30e+01 d.21.1.1,d.21.1.1 83311,83312 1ne2A 200 2.30e+01 c.66.1.32 85586 1pgs 314 2.30e+01 1pgs b.121.1.1,b.121.1.1 23653,23654 1qauA 112 2.31e+01 1qauA b.36.1.1 24779 1oxkB 134 2.31e+01 c.23.1.1 93691 1aop 497 2.33e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1lk5A 229 2.36e+01 c.124.1.4,d.58.40.1 73960,73961 1yemA 179 2.36e+01 1o1zA 234 2.36e+01 c.1.18.3 86555 1nu5A 370 2.36e+01 c.1.11.2,d.54.1.1 92183,92184 1mtzA 293 2.39e+01 c.69.1.7 79467 1tzjA 338 2.39e+01 1t7rA 269 2.39e+01 a.123.1.1 106635 1lzlA 323 2.42e+01 c.69.1.2 78306 1ymiA 334 2.43e+01 1pea 385 2.44e+01 1pea c.93.1.1 35662 1on0A 158 2.44e+01 d.108.1.1 87095 1xwyA 264 2.44e+01 2f7tA 227 2.44e+01 2d48A 129 2.45e+01 1jetA 517 2.46e+01 1jevA c.94.1.1 35718 1kq3A 376 2.46e+01 e.22.1.2 68790 1pwgA 349 2.48e+01 e.3.1.1 104340 2c60A 111 2.48e+01 1oltA 457 2.49e+01 c.1.28.2 93334 1z9zA 60 2.50e+01 1ewkA 490 2.50e+01 1ewkA c.93.1.1 35712 1u04A 771 2.52e+01 b.34.14.1,c.55.3.10 107539,107540 1q7zA 566 2.53e+01 c.1.21.2,c.1.26.1 96090,96091 1u4gA 301 2.56e+01 d.92.1.2 107670 1bg6 359 2.59e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1xx1A 285 2.59e+01 2ga9A 297 2.60e+01 1qc7A 101 2.60e+01 1qc7A a.118.14.1 18456 1ek0A 170 2.64e+01 1ctqA c.37.1.8 32076 1b7yA 350 2.67e+01 1pysA d.104.1.1 40776 1wwpA 119 2.75e+01 1rlhA 173 2.75e+01 d.256.1.1 97646 1vlaA 150 2.75e+01 d.227.1.2 108735 1zvkA 358 2.78e+01 1poiB 260 2.78e+01 1poiB c.124.1.3 34155 1in6A 334 2.79e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 2furA 209 2.79e+01 1s5jA 847 2.79e+01 1x9iA 302 2.80e+01 1yqtA 538 2.81e+01 1zn8A 180 2.81e+01 1zgdA 312 2.82e+01 1toaA 313 2.83e+01 1toaA c.92.2.2 35598 1o5zA 442 2.84e+01 c.59.1.2,c.72.2.2 92530,92531 1sd4A 126 2.84e+01 a.4.5.39 105428 1g0oA 283 2.85e+01 1ybvA c.2.1.2 60181 1qwkA 317 2.89e+01 c.1.7.1 96482 1z9iA 53 2.90e+01 2bptA 861 2.93e+01 1s3cA 141 2.96e+01 1mj5A 302 2.98e+01 c.69.1.8 91285 2alaA 391 2.99e+01 1k2eA 156 3.00e+01 d.113.1.1 72010 1u02A 239 3.04e+01 c.108.1.15 107538 1yd9A 193 3.04e+01 1tzzA 392 3.06e+01 1aisA 182 3.06e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1ew4A 106 3.08e+01 1ew4A d.82.2.1 40023 1zud1 251 3.09e+01 1tl9A 339 3.09e+01 12asA 330 3.11e+01 12asA d.104.1.1 40783 1i7dA 659 3.12e+01 1d6mA e.10.1.1 61886 1dmhA 311 3.12e+01 1dmhA b.3.6.1 22633 1v8bA 479 3.12e+01 1dbiA 280 3.15e+01 1gci c.41.1.1 32543 2afaA 425 3.15e+01 1tmy 120 3.17e+01 1dbwA c.23.1.1 31083 1z08A 170 3.21e+01 1wb4A 297 3.22e+01 1t0fA 276 3.22e+01 1p7gA 222 3.23e+01 a.2.11.1,d.44.1.1 94223,94224 2ccjA 205 3.25e+01 1nrjA 158 3.28e+01 d.110.4.4 86124 1qlwA 328 3.28e+01 1qlwA c.69.1.15 34722 1id1A 153 3.31e+01 1id1A c.2.1.9 62286 1x3lA 440 3.32e+01 2a74A 643 3.32e+01 1a8s 273 3.35e+01 1brt c.69.1.12 34710 2fymA 431 3.36e+01 1n8vA 112 3.38e+01 a.118.21.1 85457 1l7aA 318 3.39e+01 c.69.1.25 77772 1bh9B 89 3.40e+01 1bh9B a.22.1.3 16485 1nh8A 304 3.41e+01 c.94.1.1,d.58.5.3 80507,80508 2b0aA 186 3.41e+01 1h98A 78 3.42e+01 d.58.1.2 65743 1ppjB 439 3.44e+01 d.185.1.1,d.185.1.1 104254,104255 2bf6A 449 3.44e+01 2bswA 146 3.45e+01 1p90A 145 3.45e+01 c.55.5.2 94377 1w23A 360 3.48e+01 1r5iD 216 3.48e+01 a.202.1.1 97091 1k3yA 221 3.48e+01 a.45.1.1,c.47.1.5 77245,77246 1zcbA 362 3.49e+01 1k0mA 241 3.53e+01 a.45.1.1,c.47.1.5 67949,67950 2a6aA 218 3.54e+01 1zo0A 126 3.56e+01 1zg2A 107 3.57e+01 1euvA 221 3.58e+01 1euvA d.3.1.7 37133 1v93A 296 3.59e+01 c.1.23.1 100532 1rp3B 88 3.60e+01 a.137.11.1 97681 1vp8A 201 3.60e+01 1gveA 327 3.64e+01 c.1.7.1 70597 1usyA 275 3.65e+01 2irfG 113 3.66e+01 2irfG a.4.5.23 16185 1lldA 319 3.67e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 2a61A 145 3.70e+01 1o22A 170 3.71e+01 d.238.1.1 86557 1zaiA 363 3.72e+01 1u0sY 118 3.73e+01 c.23.1.1 107566 1zgzA 122 3.75e+01 2al6A 375 3.77e+01 1k8kC 372 3.78e+01 b.69.4.1 68308 1xqwA 293 3.79e+01 1pi1A 185 3.79e+01 a.29.7.1 94699 1hfuA 503 3.82e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1ttwA 138 3.84e+01 d.198.1.1 107308 1t46A 313 3.85e+01 d.144.1.7 106397 1vpjA 192 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