# List of top-scoring protein chains for t06-100-30-n_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 1s5uA 138 1.94e-07 d.38.1.1 98573 1z54A 132 2.98e-07 2cyeA 133 6.39e-07 2aliA 158 2.82e-06 1yliA 153 4.54e-06 1vpmA 169 4.68e-06 1lo7A 141 1.56e-05 d.38.1.1 74144 2gf6A 135 3.51e-05 2essA 248 3.99e-05 2gvhA 288 1.99e-04 2h4uA 145 1.15e-03 1zkiA 133 3.70e-03 1wluA 136 3.92e-03 1j1yA 136 4.21e-03 d.38.1.5 90776 2fs2A 151 1.18e-02 2cwzA 141 1.28e-02 1q4uA 151 5.71e-02 d.38.1.5 95828 1vh5A 148 6.25e-02 d.38.1.5 100642 1ixlA 131 8.96e-02 d.38.1.5 90717 1o0iA 138 1.18e-01 d.38.1.5 86532 2b3nA 159 2.55e-01 1c8uA 285 2.61e-01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1t82A 155 3.27e-01 d.38.1.5 106639 1iq6A 134 3.88e-01 d.38.1.4 76755 1z6bA 154 8.66e-01 1yocA 147 1.00e+00 1c0pA 363 1.38e+00 1an9A c.4.1.2,d.16.1.3 30647,37934 1sh8A 154 1.52e+00 d.38.1.5 105549 2d0oA 610 1.73e+00 1xf1A 926 1.95e+00 1dfmA 223 2.70e+00 1d2iA c.52.1.5 33295 2bdvA 231 3.01e+00 1bsg 266 3.08e+00 1btl e.3.1.1 42729 2bcgG 453 3.25e+00 1jndA 420 3.35e+00 c.1.8.5,d.26.3.1 71757,71758 1ojrA 274 3.37e+00 c.74.1.1 93147 2gdnA 267 3.45e+00 1ixh 321 3.87e+00 1ixh c.94.1.1 35761 1x7dA 350 4.79e+00 1r6vA 671 5.44e+00 1c7sA 858 5.78e+00 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1moq 368 5.79e+00 1moq c.80.1.1 35302 1e8yA 966 6.14e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1s95A 333 6.59e+00 d.159.1.3 105375 1xeoA 168 6.72e+00 1cs0A 1073 6.81e+00 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1pguA 615 6.96e+00 b.69.4.1,b.69.4.1 88069,88070 1nnwA 252 7.07e+00 d.159.1.5 80674 1nbaA 264 7.42e+00 1nbaA c.33.1.3 31753 2c2xA 281 7.48e+00 1mwvA 714 7.79e+00 a.93.1.3,a.93.1.3 85161,85162 1djxA 624 7.81e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 2ew0A 192 7.83e+00 2fh7A 595 8.18e+00 1wdeA 294 8.34e+00 1qxyA 252 8.62e+00 d.127.1.1 96565 1ga6A 372 8.94e+00 1ga1A c.41.1.2 32556 2bwvA 440 9.24e+00 1wyuA 438 9.87e+00 1ogsA 497 1.01e+01 b.71.1.2,c.1.8.3 86997,86998 1pn0A 665 1.03e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1mxgA 435 1.04e+01 b.71.1.1,c.1.8.1 85193,85194 2bcfA 276 1.04e+01 1uylA 236 1.09e+01 d.122.1.1 108147 2fnuA 375 1.10e+01 1wqaA 455 1.11e+01 1w7lA 422 1.14e+01 c.67.1.1 109226 1vcoA 550 1.16e+01 c.23.16.1,c.37.1.10 108508,108509 1b0uA 262 1.18e+01 1b0uA c.37.1.12 32370 1xovA 326 1.19e+01 1yifA 533 1.22e+01 1wy2A 351 1.23e+01 1erjA 393 1.27e+01 1erjA b.69.4.1 27660 2bf6A 449 1.29e+01 1f1xA 322 1.29e+01 d.32.1.3,d.32.1.3 83208,83209 1y4wA 518 1.30e+01 1hm9A 468 1.30e+01 b.81.1.4,c.68.1.5 65866,65867 1nu5A 370 1.33e+01 c.1.11.2,d.54.1.1 92183,92184 1heiA 451 1.38e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1hx0A 496 1.40e+01 b.71.1.1,c.1.8.1 61346,61347 2mprA 421 1.41e+01 2mprA f.4.3.2 43788 1vl2A 421 1.42e+01 c.26.2.1,d.210.1.1 108708,108709 1wl4A 397 1.42e+01 1f1uA 323 1.44e+01 d.32.1.3,d.32.1.3 83200,83201 1k32A 1045 1.48e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1rhs 296 1.49e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1zowA 313 1.50e+01 1ytvA 366 1.50e+01 1qwoA 442 1.52e+01 c.60.1.2 104620 2bb6A 414 1.53e+01 2f3yA 148 1.54e+01 1u94A 356 1.57e+01 c.37.1.11,d.48.1.1 107743,107744 1v5dA 386 1.58e+01 1ohfA 644 1.66e+01 b.121.4.8 93014 1o26A 232 1.68e+01 d.207.1.1 86566 1ku0A 388 1.70e+01 c.69.1.18 72994 1oyjA 231 1.71e+01 a.45.1.1,c.47.1.5 87597,87598 1g6aA 271 1.72e+01 1btl e.3.1.1 42704 1i19A 561 1.72e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1vr5A 547 1.76e+01 1hg8A 349 1.76e+01 b.80.1.3 65830 1k2xB 143 1.79e+01 1tbuA 118 1.93e+01 1th0A 226 1.97e+01 d.3.1.7 106903 1u8vA 490 2.00e+01 1r2jA 366 2.01e+01 a.29.3.1,e.6.1.1 96869,96870 1poiA 317 2.05e+01 1poiA c.124.1.2 34153 1a4iA 301 2.10e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1ed8A 449 2.10e+01 1b8jA c.76.1.1 34988 1vemA 516 2.12e+01 1o7eA 276 2.14e+01 e.3.1.1 92622 2ddfA 257 2.19e+01 2as0A 396 2.22e+01 1kt6A 183 2.23e+01 b.60.1.1 84466 1ghpA 258 2.29e+01 1btl e.3.1.1 60520 1ylxA 103 2.31e+01 1nr0A 611 2.37e+01 b.69.4.1,b.69.4.1 86078,86079 1lj8A 493 2.37e+01 a.100.1.9,c.2.1.6 90392,90393 1m15A 357 2.40e+01 a.83.1.1,d.128.1.2 78368,78369 1kqfA 1015 2.41e+01 b.52.2.2,c.81.1.1 72871,72872 1n7vA 555 2.43e+01 b.126.1.1 85377 1ycsB 239 2.49e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1ep0A 185 2.49e+01 1dzrA b.82.1.1 28080 1lldA 319 2.51e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1aym1 285 2.56e+01 1aym1 1w2wB 191 2.60e+01 1h09A 338 2.61e+01 b.109.1.1,c.1.8.8 83420,83421 1tqyA 424 2.67e+01 c.95.1.1,c.95.1.1 107245,107246 1f6yA 262 2.68e+01 1f6yA c.1.21.2 29673 1fepA 724 2.69e+01 1fepA f.4.3.3 43808 1ks8A 433 2.71e+01 a.102.1.2 77519 1pieA 419 2.74e+01 d.14.1.5,d.58.26.7 94706,94707 1te5A 257 2.74e+01 d.153.1.1 106795 1bu6O 501 2.77e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1y8aA 332 2.81e+01 1l1lA 739 2.81e+01 c.7.1.4 73470 1hfuA 503 2.83e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 2a74A 643 2.85e+01 1hzoA 271 2.89e+01 e.3.1.1 71092 1rwrA 301 2.90e+01 b.80.1.11 97990 1k7iA 479 2.91e+01 b.80.7.1,d.92.1.6 77281,77282 1qhxA 178 2.92e+01 1qhsA c.37.1.3 31936 2rmcA 182 2.95e+01 2cpl b.62.1.1 27491 1q7eA 428 3.02e+01 c.123.1.1 96035 1xc1A 309 3.15e+01 c.94.1.1 109543 7taa 478 3.15e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1f8vA 355 3.17e+01 2bbvA b.121.4.4 23329 1pj5A 830 3.23e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1zz1A 369 3.24e+01 2eifA 136 3.27e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 2csgA 424 3.27e+01 1zxxA 319 3.30e+01 1vf8A 377 3.32e+01 2f96A 224 3.33e+01 2b5eA 504 3.35e+01 1aohA 147 3.39e+01 1aohA b.2.2.2 22401 1l6sA 323 3.40e+01 c.1.10.3 73627 1zxkA 98 3.40e+01 1zd3A 555 3.52e+01 1fmtA 314 3.57e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 2f8mA 244 3.62e+01 1rl4A 188 3.62e+01 d.167.1.1 97636 1oz2A 331 3.65e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1n8fA 350 3.67e+01 c.1.10.4 85397 1jeoA 180 3.68e+01 c.80.1.3 66611 1hf2A 210 3.70e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1ylhA 560 3.71e+01 1zruA 264 3.73e+01 2bsjA 133 3.76e+01 1d2nA 272 3.81e+01 1d2nA c.37.1.20 32428 1qh4A 380 3.81e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1t5oA 351 3.81e+01 c.124.1.5 106459 1jsdA 319 3.88e+01 b.19.1.2 63258 1lfwA 470 3.91e+01 c.56.5.4,d.58.19.1 77942,77943 1ntyA 311 3.93e+01 a.87.1.1,b.55.1.1 103873,103874 1rcqA 357 3.94e+01 b.49.2.2,c.1.6.1 104882,104883 1h4pA 408 3.98e+01 c.1.8.3 90617 1iyeA 309 3.98e+01 e.17.1.1 83786 1dykA 394 3.99e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1xnzA 264 4.03e+01 2f2hA 773 4.04e+01 1atg 231 4.06e+01 1atg c.94.1.1 35834 1sg0A 230 4.06e+01 1goiA 499 4.08e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1hxxA 340 4.08e+01 2omf f.4.3.1 61385 1p4kA 295 4.13e+01 d.153.1.5 87772 2aaoA 166 4.16e+01 1olmA 403 4.17e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1zvdA 380 4.17e+01 2ccmA 191 4.19e+01 1wleA 501 4.19e+01 1nrwA 288 4.24e+01 c.108.1.10 86128 1gjwA 637 4.24e+01 b.71.1.1,c.1.8.1 60582,60583 1iv8A 720 4.25e+01 b.71.1.1,c.1.8.1 76842,76843 1q3iA 214 4.27e+01 d.220.1.1 104524 1r6fA 310 4.27e+01 e.46.1.1 97149 1k3bB 164 4.28e+01 d.3.1.1 72015 1s4bP 674 4.29e+01 d.92.1.5 105252 1k7kA 221 4.33e+01 c.51.4.1 72104 1gc0A 398 4.33e+01 c.67.1.3 70168 1jb7A 495 4.34e+01 1otcA b.40.4.3,b.40.4.3,b.40.4.3 62836,62837,62838 1jixA 351 4.37e+01 1c3jA c.87.1.1 63081 1j31A 262 4.37e+01 d.160.1.2 90808 1wdpA 495 4.38e+01 2ch4A 320 4.44e+01 1jmsA 381 4.46e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 2ffcA 353 4.49e+01 2cfeA 162 4.49e+01 1p3cA 215 4.49e+01 b.47.1.1 93996 1yqgA 263 4.50e+01 1mrzA 293 4.51e+01 b.43.5.1,c.26.1.3 91452,91453 1qx4A 274 4.52e+01 b.43.4.2,c.25.1.1 104624,104625 1xocA 520 4.58e+01 1r0mA 375 4.60e+01 c.1.11.2,d.54.1.1 104747,104748 1juvA 193 4.62e+01 c.71.1.1 90912 2a9dA 372 4.63e+01 1ncwL 219 4.66e+01 b.1.1.1,b.1.1.2 85557,85558 1u04A 771 4.69e+01 b.34.14.1,c.55.3.10 107539,107540 2cioA 212 4.76e+01 1wxxA 382 4.76e+01 1wkyA 464 4.78e+01 1e0tA 470 4.80e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1uedA 406 4.81e+01 a.104.1.1 99256 2bllA 345 4.82e+01 2g9zA 348 4.83e+01 1sflA 238 4.85e+01 1wdyA 285 4.89e+01 1w66A 232 4.89e+01 1sw5B 275 4.93e+01 c.94.1.1 106070 1vyfA 135 4.95e+01 b.60.1.2 108902 1ggzA 148 4.98e+01 a.39.1.5 70176 1a9xA 1058 5.03e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1sw5A 275 5.05e+01 c.94.1.1 106069 2ar0A 541 5.06e+01 1k94A 165 5.10e+01 a.39.1.8 68333 1twiA 434 5.11e+01 b.49.2.3,c.1.6.1 107399,107400 1i60A 278 5.12e+01 c.1.15.4 71118 1qmeA 702 5.14e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2aq5A 402 5.18e+01 1tedA 393 5.22e+01 c.95.1.2 106807 1xo0A 324 5.24e+01 2b6nA 278 5.25e+01 2bmaA 470 5.34e+01 1sc6A 404 5.36e+01 1flcA 432 5.38e+01 1flcA b.19.1.3,c.23.10.2 23837,31337 1jbeA 128 5.53e+01 3chy c.23.1.1 62845 1dqeA 137 5.56e+01 1dqeA a.39.2.1 17388 1a99A 344 5.58e+01 1pot c.94.1.1 35812 1bquA 215 5.65e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 1qy5A 269 5.66e+01 d.122.1.1 96573 1txqA 93 5.68e+01 1y7wA 291 5.72e+01 1p2xA 159 5.75e+01 a.40.1.1 104062 1v97A 1332 5.76e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1bg6 359 5.76e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1nofA 383 5.80e+01 b.71.1.2,c.1.8.3 92020,92021 1wc2A 181 6.04e+01 3tdt 274 6.13e+01 3tdt b.81.1.2 28053 1u5tA 233 6.14e+01 a.4.5.54,a.4.5.54 107684,107685 1j1lA 290 6.17e+01 b.82.1.12 90766 1q33A 292 6.20e+01 d.113.1.1 95657 1e7uA 961 6.26e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1pgs 314 6.28e+01 1pgs b.121.1.1,b.121.1.1 23653,23654 1m98A 317 6.31e+01 a.175.1.1,d.17.4.6 78866,78867 1qftA 175 6.32e+01 1qftA b.60.1.1 27151 1s6cA 183 6.33e+01 a.39.1.5 98594 1ohlA 342 6.34e+01 c.1.10.3 87035 2bvlA 543 6.35e+01 1pmnA 364 6.40e+01 d.144.1.7 94907 2fu0A 160 6.42e+01 2cvxA 888 6.47e+01 2h3jA 75 6.50e+01 2c0rA 362 6.52e+01 2axtB 510 6.60e+01 1mkfA 382 6.61e+01 b.116.1.1 79232 2c8mA 262 6.76e+01 1hq0A 295 6.78e+01 1hzgA d.194.1.1 61122 1g8lA 411 6.79e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1uteA 313 6.81e+01 1uteA d.159.1.1 42078 1i78A 297 6.81e+01 f.4.4.1 66046 3bamA 213 6.82e+01 1bam c.52.1.3 33288 1wp5A 323 6.83e+01 1oo0A 147 6.87e+01 d.232.1.1 87182 1xc3A 302 6.97e+01 1xfrA 128 6.98e+01 1o0xA 262 6.98e+01 d.127.1.1 80755 1w6sA 599 7.00e+01 1g8aA 227 7.03e+01 c.66.1.3 90506 1yljA 263 7.06e+01 2fupA 168 7.13e+01 1nd4A 264 7.16e+01 d.144.1.6 91815 1pb7A 292 7.22e+01 c.94.1.1 88025 1vlbA 907 7.28e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1rtu 114 7.32e+01 9rnt d.1.1.4 36139 1u1iA 392 7.42e+01 c.2.1.3,d.81.1.3 107582,107583 1twdA 256 7.53e+01 c.1.30.1 107397 1g8kA 825 7.53e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1i2sA 282 7.54e+01 e.3.1.1 71104 1y8tA 324 7.57e+01 2c0hA 353 7.68e+01 2bitX 165 7.69e+01 1pk6A 133 7.72e+01 b.22.1.1 94801 1mqoA 227 7.73e+01 d.157.1.1 103846 2bi0A 337 7.74e+01 1wguA 136 7.83e+01 1jdw 423 7.85e+01 1jdw d.126.1.2 41129 1fxlA 167 7.85e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1vs0A 310 7.98e+01 1rsgA 516 7.99e+01 1efpB 252 8.03e+01 1efvB c.26.2.3 31636 1ci9A 392 8.03e+01 e.3.1.1 64767 1psrA 100 8.03e+01 1psrA a.39.1.2 17180 1j5uA 136 8.04e+01 d.208.1.1 71584 1h30A 422 8.12e+01 b.29.1.4,b.29.1.4 76604,76605 1y42X 392 8.16e+01 1dnlA 199 8.16e+01 1ci0A b.45.1.1 25753 1ktbA 405 8.19e+01 b.71.1.1,c.1.8.1 72960,72961 2fgtA 417 8.19e+01 1o58A 303 8.22e+01 c.79.1.1 92491 1tyjA 170 8.35e+01 1lla 628 8.41e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1a8q 274 8.53e+01 1brt c.69.1.12 34702 1y8qA 346 8.55e+01 2fpnA 216 8.57e+01 1n7oA 721 8.59e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1hjsA 332 8.62e+01 c.1.8.3 83492 1nlbH 218 8.66e+01 b.1.1.1,b.1.1.2 80621,80622 1el5A 389 8.67e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1i9zA 347 8.70e+01 1i9yA d.151.1.2 62102 1czaN 917 8.76e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 2a2cA 478 8.78e+01 2gfsA 372 8.79e+01 2gl5A 410 8.82e+01 1ig3A 263 8.87e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1yfsA 465 8.88e+01 1d5tA 433 8.89e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 2a8jA 420 8.99e+01