# List of top-scoring protein chains for t06-100-30-dssp-ehl2-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 1gz8A 299 4.62e-34 d.144.1.7 83405 2evaA 307 6.42e-31 1rdqE 350 1.05e-30 d.144.1.7 97314 1ia8A 289 5.69e-30 1ia8A d.144.1.7 62112 1j1bA 420 2.34e-29 d.144.1.7 90758 1p4oA 322 2.40e-29 d.144.1.7 87775 1fgkA 310 3.04e-29 1fgkA d.144.1.7 41693 1t4hA 290 5.00e-29 d.144.1.7 106420 2bikB 313 1.80e-27 1z57A 339 2.79e-27 1csn 298 2.26e-21 1csn d.144.1.7 41664 1cjaA 342 4.11e-02 1cjaA d.144.1.3 41708 1e7uA 961 9.80e-02 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1e8yA 966 1.04e-01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1e8aA 91 1.12e+00 1b4cA a.39.1.2 17188 1b8aA 438 1.21e+00 1b8aA b.40.4.1,d.104.1.1 25244,40765 1gnlA 544 1.23e+00 e.26.1.1 70287 1n4wA 504 1.99e+00 c.3.1.2,d.16.1.1 91676,91677 1g7sA 594 2.51e+00 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1gw5S 142 2.75e+00 d.110.4.2 70633 1uebA 184 2.93e+00 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1g0cA 364 3.32e+00 7a3hA c.1.8.3 60165 1cliA 345 3.71e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1bjt 793 4.95e+00 1bjt e.11.1.1 43249 1x7dA 350 5.04e+00 1f8rA 498 5.19e+00 1f8rA c.3.1.2,d.16.1.5 30410,37974 1w1oA 534 5.51e+00 d.58.32.4,d.145.1.1 109071,109072 1ako 268 5.55e+00 1ako d.151.1.1 41779 1je0A 236 5.65e+00 c.56.2.1 66581 1i9zA 347 5.90e+00 1i9yA d.151.1.2 62102 1jb3A 131 5.91e+00 1jc7A b.40.3.2 62833 1huxA 270 6.57e+00 1huxA c.55.1.5 61278 1t6cA 315 6.62e+00 c.55.1.8,c.55.1.8 106558,106559 1xfsA 178 7.16e+00 d.129.3.5 109589 1g8iA 190 7.21e+00 1rec a.39.1.5 60363 1inlA 296 7.49e+00 c.66.1.17 66220 1e2kA 331 7.59e+00 1qhiA c.37.1.1 31854 1e4fT 419 7.74e+00 1e4fT c.55.1.1,c.55.1.1 33453,33454 1a0cA 438 8.12e+00 1a0cA c.1.15.3 29529 1x8gA 227 8.65e+00 1w2fA 276 8.90e+00 d.143.1.3 109125 1eu8A 409 9.05e+00 1eu8A c.94.1.1 59502 1ia9A 280 9.69e+00 1ia9A d.144.1.5 62113 1vhwA 253 9.73e+00 c.56.2.1 100706 1epxA 370 9.98e+00 1fbaA c.1.10.1 29150 1tvxA 75 1.01e+01 1tvxA d.9.1.1 37441 1dqaA 467 1.09e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 2gk9A 426 1.12e+01 1i2sA 282 1.20e+01 e.3.1.1 71104 1tqhA 247 1.22e+01 c.69.1.29 107225 1f3vA 179 1.23e+01 1f3vA d.58.22.1 39382 1bupA 386 1.34e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1i27A 73 1.35e+01 1i27A a.4.5.30 61555 1jfrA 262 1.41e+01 1jfrA c.69.1.16 34724 1c3pA 375 1.43e+01 1c3pA c.42.1.2 32606 1qksA 567 1.47e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1whzA 70 1.48e+01 1ej6D 418 1.55e+01 i.7.1.1 45970 1jl2A 156 1.58e+01 c.55.3.1 66822 1ggzA 148 1.58e+01 a.39.1.5 70176 1gvnB 287 1.63e+01 c.37.1.21 76354 1gvfA 286 1.66e+01 c.1.10.2 70599 1g6aA 271 1.67e+01 1btl e.3.1.1 42704 1j6qA 136 1.69e+01 b.40.9.1 77091 1obdA 306 1.72e+01 d.143.1.1 86767 1dtdA 303 1.73e+01 1aye c.56.5.1 33823 1iy8A 267 1.76e+01 c.2.1.2 83774 1cjcA 460 1.76e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1ifqA 138 1.81e+01 1ifqA d.110.4.1 62350 1f0lA 535 1.88e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1dkzA 219 1.91e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1r2qA 170 1.92e+01 c.37.1.8 96874 1nu0A 138 1.95e+01 c.55.3.8 92165 1lzlA 323 1.96e+01 c.69.1.2 78306 1qnrA 344 1.97e+01 1qnoA c.1.8.3 28834 1aquA 297 1.98e+01 1aquA c.37.1.5 31942 1m4lA 307 2.01e+01 c.56.5.1 78604 1edt 271 2.01e+01 2ebn c.1.8.5 28993 1rl0A 255 2.04e+01 2gkpA 167 2.04e+01 1c93A 265 2.05e+01 2ebn c.1.8.5 28998 1gsoA 431 2.06e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1y0hA 105 2.11e+01 1jdpA 441 2.12e+01 c.93.1.1 62906 1ceo 343 2.13e+01 1ceo c.1.8.3 28808 1hi9A 274 2.13e+01 1hi9A c.99.1.1 61063 1fepA 724 2.14e+01 1fepA f.4.3.3 43808 1hztA 190 2.21e+01 1i9aA d.113.1.2 61459 1dcoA 104 2.21e+01 1dcpA d.74.1.1 39680 1gudA 288 2.29e+01 c.93.1.1 83326 1w6uA 302 2.33e+01 1dbqA 289 2.38e+01 1qpzA c.93.1.1 35666 1m40A 263 2.39e+01 e.3.1.1 74437 1a8y 367 2.42e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1v2bA 177 2.46e+01 d.107.1.2 108279 1c75A 71 2.51e+01 451c a.3.1.1 15796 1hf2A 210 2.53e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1kw4A 89 2.57e+01 a.60.1.2 73077 1h5wA 309 2.59e+01 e.27.1.1 65635 1y0yA 353 2.59e+01 1uzvA 114 2.60e+01 1yiiA 320 2.61e+01 1vpt 348 2.62e+01 3mag c.66.1.25 34207 1g5cA 170 2.63e+01 1g5cA c.53.2.1 60264 1ex2A 189 2.69e+01 1ex2A c.51.4.2 33225 1eg5A 384 2.70e+01 1ecxA c.67.1.3 34429 1hzoA 271 2.70e+01 e.3.1.1 71092 1g0sA 209 2.71e+01 1g0sA d.113.1.1 60187 1gveA 327 2.72e+01 c.1.7.1 70597 1nykA 165 2.79e+01 b.33.1.1 86408 1fxkC 133 2.80e+01 1fxkC a.2.5.1 15702 1wddS 128 2.83e+01 1ej0A 180 2.83e+01 1ej0A c.66.1.2 34179 1g3mA 294 2.86e+01 c.37.1.5 83268 1lv7A 257 2.90e+01 c.37.1.20 78232 1btkA 169 2.90e+01 1btkA b.55.1.1 26959 1kwfA 363 2.92e+01 a.102.1.2 73078 1nxuA 333 2.93e+01 c.122.1.1 86389 1szhA 161 3.00e+01 a.226.1.1 106157 1ifrA 121 3.02e+01 b.1.16.1 71203 1dv1A 449 3.02e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1i76A 163 3.10e+01 1hfc d.92.1.11 61877 1ejdA 419 3.11e+01 1uae d.68.2.2 39576 1q52A 314 3.16e+01 c.14.1.3 95846 1m93B 245 3.16e+01 1oygA 447 3.24e+01 b.67.2.2 93726 1sfxA 109 3.27e+01 a.4.5.50 105505 1rwiA 270 3.27e+01 b.68.9.1 97987 1hxhA 253 3.28e+01 c.2.1.2 76725 1k94A 165 3.30e+01 a.39.1.8 68333 1h8eA 510 3.32e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1kr4A 125 3.32e+01 d.58.5.2 72889 1j55A 95 3.35e+01 a.39.1.2 77078 1gtfA 74 3.39e+01 b.82.5.1 70460 1m45A 148 3.45e+01 a.39.1.5 78598 1fmjA 351 3.48e+01 c.37.1.5 59879 1gntA 553 3.50e+01 e.26.1.1 70290 1us5A 314 3.53e+01 c.94.1.1 99856 1lfpA 249 3.56e+01 e.39.1.1 73885 1rm6A 769 3.61e+01 1fp2A 352 3.72e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1woqA 267 3.74e+01 c.55.1.10,c.55.1.10 109462,109463 2dpmA 284 3.75e+01 2dpmA c.66.1.28 34246 1u4gA 301 3.77e+01 d.92.1.2 107670 1alvA 173 3.82e+01 1alvA a.39.1.8 17370 1hzdA 272 3.97e+01 c.14.1.3 65969 1dciA 275 4.10e+01 1dciA c.14.1.3 30918 1ne9A 335 4.10e+01 d.108.1.4,d.108.1.4 91839,91840 1kolA 398 4.10e+01 b.35.1.2,c.2.1.1 77474,77475 1xszA 356 4.13e+01 1usgA 346 4.14e+01 c.93.1.1 99864 1v8yA 170 4.17e+01 1f20A 435 4.17e+01 b.43.4.1,c.25.1.4 64932,64933 1eejA 216 4.18e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1j1iA 296 4.22e+01 c.69.1.10 83977 1jtvA 327 4.23e+01 c.2.1.2 84230 1oi7A 288 4.25e+01 c.2.1.8,c.23.4.1 87049,87050 1j6oA 268 4.27e+01 c.1.9.12 77088 1z8kA 193 4.28e+01 1cojA 212 4.30e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1id0A 152 4.36e+01 d.122.1.3 66111 1sxrA 183 4.38e+01 d.118.1.1 106101 1omrA 201 4.47e+01 a.39.1.5 93349 1e43A 483 4.50e+01 1bli b.71.1.1,c.1.8.1 59217,59218 1eljA 381 4.52e+01 4mbp c.94.1.1 35791 1byfA 125 4.54e+01 1byfA d.169.1.1 42419 1vlyA 338 4.57e+01 b.44.2.1,d.250.1.1 108871,108872 1cf7B 95 4.58e+01 1cf7B a.4.5.17 16152 1ls1A 295 4.63e+01 a.24.13.1,c.37.1.10 78170,78171 1bif 469 4.68e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1oafA 261 4.72e+01 a.93.1.1 86734 1ixh 321 4.77e+01 1ixh c.94.1.1 35761 1pot 325 4.78e+01 1pot c.94.1.1 35807 1xkpB 124 4.80e+01 1jubA 311 4.88e+01 c.1.4.1 90908 1jw9B 249 4.91e+01 c.111.1.1 67377 1cpt 412 4.92e+01 1cpt a.104.1.1 18968 1vybA 238 4.93e+01 d.151.1.1 108897 1bgp 309 4.95e+01 1bgp a.93.1.1 18690 1oywA 523 4.95e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1qgvA 142 5.00e+01 1qgvA c.47.1.8 33056 1d0qA 103 5.02e+01 1d0qA g.41.3.2 45208 1w3iA 293 5.06e+01 c.1.10.1 109152 1dbiA 280 5.09e+01 1gci c.41.1.1 32543 1a99A 344 5.10e+01 1pot c.94.1.1 35812 1a2zA 220 5.10e+01 1a2zA c.56.4.1 33794 1eyeA 280 5.12e+01 1aj2 c.1.21.1 29672 1gz2A 142 5.16e+01 d.169.1.1 83392 1b0uA 262 5.21e+01 1b0uA c.37.1.12 32370 1a3c 181 5.22e+01 1a3c c.61.1.1 34095 1j54A 186 5.25e+01 c.55.3.5 77077 1ju3A 583 5.26e+01 b.18.1.13,c.69.1.21 67300,67301 1pwgA 349 5.27e+01 e.3.1.1 104340 1s2wA 295 5.36e+01 c.1.12.7 98407 1juhA 350 5.36e+01 b.82.1.5 71884 1oc7A 364 5.46e+01 c.6.1.1 86794 1i9gA 280 5.51e+01 c.66.1.13 62090 1iq8A 582 5.55e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1i6aA 219 5.58e+01 c.94.1.1 61827 1jnyA 435 5.59e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1tukA 67 5.62e+01 1vhnA 318 5.65e+01 c.1.4.1 100693 1lxjA 104 5.76e+01 d.58.48.1 84736 1bob 320 5.79e+01 1bob d.108.1.1 40816 1vqqA 646 5.87e+01 1gheA 177 5.95e+01 d.108.1.1 76222 1fpzA 212 5.97e+01 1fpzA c.45.1.1 59976 1hd7A 318 6.08e+01 1bix d.151.1.1 41780 1nkiA 135 6.10e+01 d.32.1.2 91941 1dk8A 147 6.26e+01 1agrE a.91.1.1 18548 1h99A 224 6.27e+01 a.142.1.1,a.142.1.1 60814,60815 1cp2A 269 6.37e+01 1cp2A c.37.1.10 32269 1xx1A 285 6.40e+01 1vyrA 364 6.46e+01 c.1.4.1 108906 1ftrA 296 6.49e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1iow 306 6.51e+01 1iow c.30.1.2,d.142.1.1 31713,41481 2ddrA 306 6.51e+01 1epuA 591 6.54e+01 1dn1A e.25.1.1 43358 1fiqC 763 6.55e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1a6q 382 6.57e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1j7gA 144 6.59e+01 c.110.1.1 84130 1j98A 157 6.61e+01 1j98A d.185.1.2 62755 2nacA 393 6.63e+01 2nadA c.2.1.4,c.23.12.1 30088,31348 1xdzA 240 6.65e+01 1ayoA 130 6.75e+01 1ayoA b.2.4.1 22431 1fs5A 266 6.92e+01 c.124.1.1 65044 1f5vA 240 6.97e+01 1bkjA d.90.1.1 40255 3bamA 213 6.98e+01 1bam c.52.1.3 33288 1auiB 169 7.00e+01 1auiB a.39.1.5 17325 1cruA 454 7.00e+01 1c9uA b.68.2.1 27617 1v5dA 386 7.03e+01 1ixkA 315 7.05e+01 c.66.1.38 90716 1e5rA 290 7.05e+01 1e5rA b.82.2.4 59276 1p5zB 263 7.19e+01 c.37.1.1 87815 1nq7A 244 7.31e+01 a.123.1.1 92047 1rhcA 330 7.36e+01 c.1.16.3 97468 1dzkA 157 7.43e+01 1obpA b.60.1.1 27096 3eipA 84 7.45e+01 3eipA d.26.2.1 38434 1dm9A 133 7.52e+01 1dm9A d.66.1.3 39560 1gky 187 7.54e+01 1gky c.37.1.1 31839 1q7zA 566 7.56e+01 c.1.21.2,c.1.26.1 96090,96091 1bli 483 7.60e+01 1bli b.71.1.1,c.1.8.1 27715,28702 1byrA 155 7.60e+01 1byrA d.136.1.1 41450 1vd5A 377 7.61e+01 a.102.1.7 108518 1atlA 202 7.66e+01 1atlA d.92.1.9 40322 1s9uA 207 7.69e+01 a.184.1.1 105390 1em2A 229 7.76e+01 1em2A d.129.3.2 41321 1k7cA 233 7.77e+01 c.23.10.4 68267 1b24A 188 7.78e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1gqiA 708 7.85e+01 c.1.8.10,d.92.2.2 76279,76280 1ea7A 310 7.85e+01 c.41.1.1 70086 1pdo 135 8.08e+01 1pdo c.54.1.1 33376 1j93A 353 8.08e+01 c.1.22.1 66454 1ts9A 102 8.11e+01 1r5mA 425 8.18e+01 1b4pA 217 8.25e+01 a.45.1.1,c.47.1.5 83158,83159 1dlwA 116 8.34e+01 1dlyA a.1.1.1 14982 1c17M 177 8.42e+01 1c17M f.18.1.1 43648 1qq5A 253 8.43e+01 1qq5A c.108.1.1 43327 1icpA 376 8.48e+01 1oyc c.1.4.1 62270 1xe0A 114 8.56e+01 1qv9A 283 8.57e+01 c.127.1.1 96356 1l7aA 318 8.60e+01 c.69.1.25 77772 1oboA 169 8.62e+01 c.23.5.1 86776 1gnkA 112 8.69e+01 2pii d.58.5.1 39073 1kid 203 8.82e+01 1derA c.8.5.1 30771 1twdA 256 8.86e+01 c.1.30.1 107397