# List of top-scoring protein chains for t2k-100-30-alpha-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 1sumB 235 3.43e-05 a.7.12.1 106025 1xwmA 217 6.22e-03 1vctA 205 8.68e-02 1n81A 186 9.34e-01 a.185.1.1 85388 1wwpA 119 9.85e-01 1ofcX 304 1.07e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1tffA 234 1.14e+00 d.3.1.11 106854 1vljA 407 1.14e+00 e.22.1.2 108832 1wkbA 810 1.41e+00 1hx1B 114 2.07e+00 1hx1B a.7.7.1 61350 1ithA 141 2.37e+00 1ithA a.1.1.2 15623 2b05A 246 2.65e+00 1z72A 225 2.66e+00 2fupA 168 2.68e+00 1e2xA 243 2.69e+00 1e2xA a.4.5.6,a.78.1.1 16113,18443 1jk0A 419 2.77e+00 a.25.1.2 63142 2dc3A 193 2.80e+00 1hw1A 239 3.02e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1urvA 190 3.35e+00 1ut0A 190 3.35e+00 a.1.1.2 108012 2c6cA 707 3.48e+00 1twfA 1733 3.96e+00 1xqrA 296 4.78e+00 2ayuA 417 5.21e+00 1ka2A 499 5.39e+00 d.92.1.5 77305 1orjA 130 5.43e+00 a.24.19.1 93456 1xqsA 280 5.60e+00 1ylmA 144 5.76e+00 2ethA 154 5.83e+00 1i50A 1733 6.04e+00 e.29.1.2 61754 1us6A 102 6.21e+00 a.2.13.1 107999 1mtyB 384 6.86e+00 1mtyB a.25.1.2 16740 2fcjA 119 7.19e+00 1dt6A 473 7.71e+00 1dt6A a.104.1.1 18977 2awiA 317 8.17e+00 1eerA 166 8.18e+00 1eerA a.26.1.2 16846 1oq9A 363 8.50e+00 a.25.1.2 87257 1brd 248 8.69e+00 1c3wA f.13.1.1 43404 2db0A 253 8.83e+00 2ligA 164 9.21e+00 1vls a.24.2.1 16530 1dowA 205 9.32e+00 1dovA a.24.9.1 16626 1j1vA 94 9.94e+00 a.4.12.2 83981 1afrA 345 1.01e+01 1afrA a.25.1.2 16805 1sig 339 1.01e+01 1sig a.177.1.1 19068 1wqgA 185 1.03e+01 1oshA 232 1.03e+01 a.123.1.1 93496 2br9A 234 1.05e+01 2btdA 210 1.07e+01 1qkmA 255 1.10e+01 3erdA a.123.1.1 19309 1elkA 157 1.11e+01 1dvpA a.118.9.2 19217 1wcrA 103 1.11e+01 1nr6A 473 1.12e+01 a.104.1.1 92085 2ch7A 309 1.21e+01 2es4D 332 1.22e+01 1sgmA 191 1.24e+01 a.4.1.9,a.121.1.1 105537,105538 1sd4A 126 1.25e+01 a.4.5.39 105428 1ee4A 423 1.31e+01 1ee4A a.118.1.1 19128 1n6bA 473 1.32e+01 a.104.1.1 85359 1l2iA 261 1.32e+01 a.123.1.1 73503 1cn4C 166 1.36e+01 1eerA a.26.1.2 16847 1rfyA 102 1.37e+01 1jq0A 84 1.41e+01 h.3.2.1 71786 1fz1C 389 1.47e+01 1mtyB a.25.1.2 16746 1orsC 132 1.56e+01 f.14.1.1 87353 1zgmA 248 1.57e+01 2fnoA 248 1.57e+01 2ashA 381 1.59e+01 2f6hX 419 1.61e+01 1vj7A 393 1.62e+01 a.211.1.1,d.218.1.8 100801,100802 1t5oA 351 1.65e+01 c.124.1.5 106459 1k6iA 352 1.71e+01 c.2.1.2 68223 1bbhA 131 1.74e+01 1bbhA a.24.3.2 16546 1g2cL 43 1.79e+01 1g2cL 1rpl 251 1.81e+01 1bpyA a.60.12.1,d.218.1.2 75933,75934 1hbnA 549 1.81e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1vls 146 1.82e+01 1vls a.24.2.1 16532 1mroA 548 1.82e+01 1mroA a.89.1.1,d.58.31.2 18525,39443 1i1iP 681 1.83e+01 1i1iP d.92.1.5 40297 2ah6A 208 1.84e+01 1tqgA 105 1.84e+01 a.24.10.3 107224 1a8h 500 1.88e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1eumA 165 1.89e+01 1eumA a.25.1.1 59507 1b48A 221 1.90e+01 1pgtA a.45.1.1,c.47.1.5 17703,32997 1c3wA 222 1.91e+01 1c3wA f.13.1.1 43405 2fmpA 335 1.92e+01 1eyyA 510 1.93e+01 1eyyA c.82.1.1 35389 2gmyA 153 1.94e+01 1yozA 116 1.96e+01 1zejA 293 1.99e+01 1ciy 590 2.00e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1ez0A 510 2.01e+01 1eyyA c.82.1.1 35385 1eguA 731 2.10e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1g2cB 43 2.11e+01 1g2cB 1bpb 248 2.12e+01 1bpyA a.60.12.1,d.218.1.2 75811,75812 1is1A 185 2.13e+01 d.67.3.1 83704 1r9jA 673 2.23e+01 1i6zA 135 2.23e+01 a.7.7.1 61861 1kq4A 232 2.28e+01 d.207.1.1 68791 1o5hA 214 2.31e+01 a.191.1.1 92497 1m93A 55 2.37e+01 e.1.1.1 91235 1o26A 232 2.44e+01 d.207.1.1 86566 2cfuA 658 2.45e+01 2g38A 99 2.54e+01 1s4bP 674 2.54e+01 d.92.1.5 105252 1tv9A 335 2.54e+01 2chnA 716 2.57e+01 1kgbA 231 2.58e+01 f.13.1.1 68581 1kpkA 473 2.67e+01 f.20.1.1 68776 1otsA 465 2.68e+01 f.20.1.1 87415 1z1lA 345 2.68e+01 1kgnA 329 2.69e+01 a.25.1.2 68584 1k6xA 352 2.70e+01 c.2.1.2 68238 1xgkA 352 2.71e+01 1n7oA 721 2.72e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 2bk9A 153 2.80e+01 1go3F 107 2.84e+01 a.60.8.2 65407 1np3A 338 2.87e+01 a.100.1.2,c.2.1.6 85946,85947 1bpyA 335 2.90e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1ash 150 2.92e+01 1ash a.1.1.2 15622 1l4aD 87 2.95e+01 h.1.15.1 73562 1iseA 185 2.95e+01 d.67.3.1 90691 2choA 716 2.96e+01 1txdA 385 2.98e+01 a.87.1.1,b.55.1.1 107422,107423 1mmoB 384 3.01e+01 1mtyB a.25.1.2 16768 1vg5A 73 3.05e+01 1woyA 500 3.06e+01 1m0kA 262 3.12e+01 f.13.1.1 78344 1ouvA 273 3.12e+01 a.118.18.1 93570 1nom 248 3.30e+01 1bpyA a.60.12.1,d.218.1.2 75929,75930 1ohfA 644 3.34e+01 b.121.4.8 93014 1k3lA 221 3.35e+01 a.45.1.1,c.47.1.5 77229,77230 1iqpA 327 3.36e+01 a.80.1.1,c.37.1.20 62649,62650 1jadA 251 3.37e+01 h.4.10.1 66461 1na3A 91 3.40e+01 k.38.1.1 85481 1xg7A 250 3.43e+01 1yoyA 175 3.49e+01 1xv5A 401 3.65e+01 1dovA 181 3.68e+01 1dovA a.24.9.1 16627 1yviA 149 3.72e+01 1fqiA 147 3.76e+01 1agrE a.91.1.1 18542 1buyA 166 3.80e+01 1eerA a.26.1.2 16848 1oqcA 125 4.05e+01 a.24.15.1 87264 1k47A 337 4.06e+01 d.14.1.5,d.58.26.4 72040,72041 1q1fA 151 4.09e+01 a.1.1.2 104476 1qjbA 245 4.09e+01 1qjaA a.118.7.1 19202 1q0gA 117 4.12e+01 a.24.22.1 104428 1lxkA 721 4.14e+01 a.102.3.2,b.24.1.1,b.30.5.2 74331,74332,74333 1oj6A 151 4.16e+01 a.1.1.2 93088 1lf6A 684 4.16e+01 a.102.1.5,b.30.5.5 77918,77919 1td5A 202 4.16e+01 d.110.2.2 106767 1z5hA 780 4.16e+01 1q15A 503 4.18e+01 c.26.2.1,d.153.1.1 95538,95539 1ev7A 317 4.29e+01 1ev7B c.52.1.9 33315 1o7xD 377 4.47e+01 a.103.1.1 81174 1gmjA 84 4.49e+01 h.4.8.1 65310 1q06A 135 4.51e+01 a.6.1.3 95493 2avpA 70 4.51e+01 1f0cA 305 4.53e+01 1c8oA e.1.1.1 42676 1a52A 258 4.53e+01 3erdA a.123.1.1 19296 1r9dA 787 4.54e+01 c.7.1.1 104865 1wrdA 103 4.57e+01 1f4tA 368 4.63e+01 1f4tA a.104.1.1 18973 1v4eA 299 4.63e+01 a.128.1.1 100296 1jcqA 382 4.68e+01 a.118.6.1 66504 1n7sA 63 4.71e+01 h.1.15.1 80271 1or4A 178 4.95e+01 a.1.1.2 93447 1ppjA 446 4.98e+01 d.185.1.1,d.185.1.1 104252,104253 1vcsA 102 4.98e+01 1gseA 221 5.02e+01 1pgtA a.45.1.1,c.47.1.5 17667,32961 2gtsA 86 5.03e+01 2bnxA 386 5.09e+01 3crxA 343 5.17e+01 4crxA a.60.9.1,d.163.1.1 18101,42161 1r1hA 696 5.18e+01 d.92.1.4 104756 1ek8A 185 5.26e+01 1ek8A d.67.3.1 59444 1k3yA 221 5.26e+01 a.45.1.1,c.47.1.5 77245,77246 1l0lA 446 5.30e+01 d.185.1.1,d.185.1.1 84482,84483 1y1nA 291 5.31e+01 1xwrA 97 5.32e+01 2fpqA 444 5.34e+01 1v4xB 146 5.42e+01 a.1.1.2 108364 1vjlA 164 5.43e+01 d.257.1.1 100822 1s0pA 176 5.59e+01 a.192.1.1 98300 1qdbA 473 5.59e+01 1qdbA a.138.1.3 19688 1mzeA 351 5.61e+01 b.82.2.6 79694 1vgoA 253 5.63e+01 1o17A 345 5.66e+01 a.46.2.1,c.27.1.1 80765,80766 1bcfA 158 5.78e+01 1bcfA a.25.1.1 16648 1zu4A 320 5.79e+01 1dkxA 219 5.84e+01 1dkzA a.8.4.1,b.130.1.1 90339,90340 1g2rA 100 5.85e+01 1g2rA d.192.1.1 60231 1r2fA 319 5.87e+01 1r2fA a.25.1.2 16800 2e2aA 105 5.88e+01 a.7.2.1 88499 1rp4A 389 5.90e+01 a.227.1.1 105027 1jmxA 494 5.93e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1gtmA 419 5.97e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1o5kA 306 6.00e+01 c.1.10.1 92504 1f7cA 231 6.04e+01 1f7cA a.116.1.1 19107 1umnA 165 6.05e+01 a.25.1.1 99607 1myo 118 6.05e+01 2myo d.211.1.1 19174 1c8oA 300 6.22e+01 1c8oA e.1.1.1 42677 1sfcA 96 6.23e+01 1sfcA h.1.15.1 45643 2au5A 139 6.30e+01 1cnt2 187 6.32e+01 1cnt3 1dd5A 185 6.39e+01 1dd5A d.67.3.1 39564 2d2mC 147 6.41e+01 1v93A 296 6.50e+01 c.1.23.1 100532 1xlyA 234 6.50e+01 1dofA 403 6.54e+01 1c3cA a.127.1.1 19429 3erdA 261 6.55e+01 3erdA a.123.1.1 19293 1vh6A 145 6.59e+01 a.24.19.1 100644 1qbqA 333 6.63e+01 1ft1A a.118.6.1 19187 1zs4A 83 6.63e+01 1xioA 261 6.63e+01 1f44A 324 6.70e+01 a.60.9.1,d.163.1.1 64982,64983 2bptA 861 6.72e+01 1jdpA 441 6.83e+01 c.93.1.1 62906 2occA 514 6.84e+01 2occA f.24.1.1 43518 1kbuA 349 6.86e+01 a.60.9.1,d.163.1.1 72284,72285 1rfzA 168 6.89e+01 a.195.1.1 97411 1p4xA 250 6.90e+01 a.4.5.28,a.4.5.28 87784,87785 1z6aA 500 6.94e+01 1wa5B 530 7.02e+01 1yceA 89 7.11e+01 1txqB 86 7.11e+01 1h6oA 204 7.17e+01 a.146.1.1 60689 2c07A 285 7.21e+01 1z57A 339 7.26e+01 1wleA 501 7.31e+01 1dkzA 219 7.39e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1v54A 514 7.39e+01 f.24.1.1 100321 1glqA 209 7.41e+01 1pgtA a.45.1.1,c.47.1.5 17588,32882 1sedA 117 7.44e+01 a.219.1.1 105449 1jpxA 84 7.48e+01 h.3.2.1 71783 2aplA 157 7.51e+01 1z96A 40 7.69e+01 1o7xB 377 7.78e+01 a.103.1.1 81172 1h2kA 349 7.79e+01 b.82.2.6 76572 1pz1A 333 7.86e+01 c.1.7.1 95390 1ovnA 248 7.89e+01 a.71.1.1,c.47.1.7 93602,93603 2dh4A 340 7.89e+01 1pk5A 248 7.90e+01 a.123.1.1 88139 1cpt 412 7.91e+01 1cpt a.104.1.1 18968 1n6zA 105 8.00e+01 d.263.1.1 85369 1s2xA 206 8.00e+01 a.47.3.1 105229 2minB 522 8.11e+01 1qguB c.92.2.3 35610 1ge9A 184 8.12e+01 1dd5A d.67.3.1 60463 1iawA 317 8.21e+01 c.52.1.9 62126 1be3A 446 8.22e+01 1be3A d.185.1.1,d.185.1.1 58950,58951 1qcrA 446 8.24e+01 1be3A d.185.1.1,d.185.1.1 59025,59026 2cb5A 453 8.25e+01 3gcb d.3.1.1 37035 2azeB 106 8.26e+01 1qqeA 292 8.42e+01 1qqeA a.118.8.1 19210 1rj1A 151 8.44e+01 a.29.6.1 97526 1h6pA 203 8.46e+01 a.146.1.1 60690 3minB 522 8.48e+01 1qguB c.92.2.3 35606 1t7sA 137 8.55e+01 a.7.7.1 106636 1pgtA 210 8.56e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1zbpA 273 8.58e+01 2cj4A 150 8.60e+01 2myo 118 8.62e+01 2myo d.211.1.1 19175 1io7A 368 8.65e+01 1f4tA a.104.1.1 18971 2fd5A 180 8.66e+01 1p4dA 330 8.67e+01 d.89.1.5 94101 1y8aA 332 8.75e+01 1gumA 222 8.77e+01 1pgtA a.45.1.1,c.47.1.5 17683,32977 1wucA 250 8.77e+01 1tfe 145 8.77e+01 1tfe d.43.1.1 38680 1a17 166 8.78e+01 1a17 a.118.8.1 19206 1wu9A 80 8.83e+01 1o7xC 377 8.83e+01 a.103.1.1 81173 1u7zA 226 8.84e+01 1sfcE 96 8.84e+01 1sfcE h.1.15.1 45647