# List of top-scoring protein chains for t06-100-30-bys-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 1wqaA 455 1.21e-01 1qo0D 196 1.50e-01 1qo0D c.23.1.3 31125 2dbbA 151 2.35e-01 1fcyA 236 2.97e-01 2lbd a.123.1.1 19282 2gj8A 172 3.91e-01 1s96A 219 4.81e-01 c.37.1.1 98740 2an9A 207 8.52e-01 1o7nA 449 1.70e+00 b.33.1.2,d.129.3.3 81162,81163 2f5gA 133 1.97e+00 2faoA 309 2.10e+00 1u7lA 392 2.14e+00 1wdtA 665 2.43e+00 2ffuA 501 2.97e+00 1ursA 402 3.05e+00 c.94.1.1 99833 1kicA 339 3.23e+00 c.70.1.1 72510 1zu4A 320 3.48e+00 1jmtA 104 3.67e+00 d.58.7.3 63180 1e9rA 437 3.83e+00 c.37.1.11 64827 2cpgA 45 4.60e+00 2cpgA a.43.1.3 17455 1id1A 153 5.26e+00 1id1A c.2.1.9 62286 2fu0A 160 5.45e+00 2fckA 181 5.73e+00 1wn5A 130 6.11e+00 1ko6A 187 6.30e+00 b.119.1.1 77471 1tfr 305 6.55e+00 1tfr a.60.7.1,c.120.1.2 18081,33351 2g2dA 193 6.64e+00 1qysA 106 6.91e+00 k.41.1.1 96603 1xahA 354 7.18e+00 1odkA 235 7.30e+00 c.56.2.1 86863 1t0fA 276 7.40e+00 2eifA 136 7.69e+00 1bkb b.34.5.2,b.40.4.5 24607,25339 1rq2A 382 7.91e+00 c.32.1.1,d.79.2.1 105048,105049 1jndA 420 8.09e+00 c.1.8.5,d.26.3.1 71757,71758 1u8sA 192 8.29e+00 d.58.18.5,d.58.18.5 107737,107738 1ysrA 150 8.55e+00 1q6zA 528 8.63e+00 1vjeA 166 8.70e+00 d.185.1.2 100807 1pvvA 315 8.98e+00 c.78.1.1,c.78.1.1 95190,95191 1qwdA 177 9.06e+00 b.60.1.1 96471 1r5tA 142 9.58e+00 c.97.1.1 104812 1xtmA 175 1.01e+01 1m1hA 248 1.02e+01 b.114.1.1,d.58.42.1 78415,78416 1r9cA 139 1.07e+01 d.32.1.2 97255 1qy1A 174 1.07e+01 b.60.1.1 96568 1nu4A 97 1.09e+01 d.58.7.1 80731 1bazA 53 1.09e+01 1bazA a.43.1.1 17421 1pu6A 218 1.10e+01 a.96.1.5 95123 1ftrA 296 1.12e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1cg5A 141 1.13e+01 1abwA a.1.1.2 15406 1twfK 120 1.13e+01 1kyhA 276 1.13e+01 c.72.1.4 73222 2al2A 436 1.13e+01 1pot 325 1.13e+01 1pot c.94.1.1 35807 1r3sA 367 1.15e+01 c.1.22.1 96963 1xewY 172 1.16e+01 1zndA 174 1.17e+01 2al1A 436 1.18e+01 1b8oA 284 1.19e+01 1b8oA c.56.2.1 33762 1pzxA 289 1.20e+01 c.119.1.1 95484 1fi4A 416 1.23e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 1qb5D 99 1.24e+01 b.40.2.1 88357 2cviA 83 1.26e+01 1czfA 362 1.29e+01 1czfA b.80.1.3 28031 1uirA 314 1.31e+01 c.66.1.17 99429 1bqk 124 1.31e+01 1bqk b.6.1.1 22889 2cxcA 144 1.34e+01 1wzlA 585 1.36e+01 1oneA 436 1.38e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1r5lA 262 1.40e+01 a.5.3.1,c.13.1.1 97099,97100 1h1nA 305 1.41e+01 c.1.8.3 70855 2a5dA 175 1.42e+01 2glfA 450 1.42e+01 2a7mA 250 1.44e+01 1jmsA 381 1.49e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1wr8A 231 1.52e+01 1vkhA 273 1.53e+01 c.69.1.32 108662 2fxaA 207 1.55e+01 1e6uA 321 1.56e+01 1bsvA c.2.1.2 29805 2akzA 439 1.57e+01 1mwmA 320 1.60e+01 c.55.1.1,c.55.1.1 79580,79581 1oc2A 348 1.61e+01 c.2.1.2 92765 1xc3A 302 1.64e+01 1iu8A 206 1.64e+01 c.56.4.1 71436 1aba 87 1.64e+01 1aba c.47.1.1 32760 1k8rB 110 1.65e+01 d.15.1.5 72180 1wstA 417 1.66e+01 1g3qA 237 1.66e+01 1hyqA c.37.1.10 60237 2ivyA 101 1.68e+01 2fuvA 549 1.69e+01 1vheA 373 1.73e+01 b.49.3.1,c.56.5.4 100669,100670 1pa7A 130 1.79e+01 a.40.1.1 94410 1rwzA 245 1.81e+01 d.131.1.2,d.131.1.2 98005,98006 1kt6A 183 1.82e+01 b.60.1.1 84466 1vbkA 307 1.84e+01 1mzbA 136 1.87e+01 a.4.5.42 91497 1f2tB 148 1.87e+01 1f2tB 1x7oA 287 1.89e+01 1dekA 241 1.89e+01 1dekA c.37.1.1 31842 1xnzA 264 1.90e+01 1xubA 298 1.90e+01 1vecA 206 1.97e+01 c.37.1.19 100575 1us5A 314 1.97e+01 c.94.1.1 99856 1eo6A 117 1.99e+01 1eo6A d.15.1.3 37609 3tmkA 216 2.02e+01 3tmkA c.37.1.1 31920 1g66A 207 2.05e+01 1bs9 c.69.1.30 31329 1nq7A 244 2.05e+01 a.123.1.1 92047 2gzaA 361 2.05e+01 2evaA 307 2.07e+01 1ymqA 261 2.11e+01 1ob8A 135 2.11e+01 1em8A 147 2.13e+01 c.128.1.1 90457 2arhA 203 2.20e+01 1lmiA 131 2.29e+01 b.1.19.1 78098 2dlbA 80 2.31e+01 1jfzA 154 2.36e+01 a.149.1.1 66655 1pc6A 146 2.37e+01 d.262.1.1 94430 7odcA 424 2.39e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1ec7A 446 2.40e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1yj7A 171 2.42e+01 2cxkA 95 2.44e+01 1qjcA 158 2.45e+01 1b6tA c.26.1.3 63328 1c0pA 363 2.46e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1xg8A 111 2.48e+01 1gtvA 214 2.48e+01 c.37.1.1 70537 1s4iA 175 2.49e+01 2bsxA 253 2.57e+01 1zpvA 91 2.59e+01 2fiqA 420 2.63e+01 2bo4A 397 2.64e+01 1sviA 195 2.70e+01 c.37.1.8 106048 1omzA 293 2.70e+01 c.68.1.15 87093 1r6uA 437 2.73e+01 c.26.1.1 97163 2c0nA 203 2.75e+01 1yemA 179 2.78e+01 1auiB 169 2.82e+01 1auiB a.39.1.5 17325 1h70A 255 2.82e+01 1h70A d.126.1.3 60711 1v8hA 107 2.83e+01 1z4rA 168 2.93e+01 1q3iA 214 2.93e+01 d.220.1.1 104524 1e6yC 247 2.95e+01 1mroC d.58.31.1 39441 1zsyA 357 2.99e+01 2bj7A 138 2.99e+01 1ws0A 156 3.02e+01 1eu1A 780 3.04e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 3sdhA 146 3.06e+01 3sdhA a.1.1.2 14984 1oz9A 150 3.08e+01 d.92.1.15 93808 1lucB 324 3.12e+01 1lucA c.1.16.1 29548 1wvfA 520 3.12e+01 2cyeA 133 3.16e+01 2gcuA 245 3.20e+01 1aun 208 3.27e+01 1thv b.25.1.1 23900 2cw5A 255 3.27e+01 1np7A 489 3.29e+01 a.99.1.1,c.28.1.1 80677,80678 1jljA 189 3.31e+01 c.57.1.1 63169 1wa3A 205 3.39e+01 1e8cA 498 3.41e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 2cxxA 190 3.47e+01 1wi1A 126 3.47e+01 1vp4A 425 3.48e+01 1qqfA 277 3.48e+01 1c3d a.102.4.4 18875 1wwzA 159 3.48e+01 1yovA 537 3.48e+01 1yvoA 172 3.49e+01 1x6mA 196 3.52e+01 1l2tA 235 3.52e+01 c.37.1.12 73514 1geqA 248 3.58e+01 2tysA c.1.2.4 28589 2gukA 120 3.61e+01 1xo5A 183 3.61e+01 2b4aA 138 3.62e+01 1hnjA 317 3.63e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1bj7 156 3.64e+01 1bj7 b.60.1.1 27113 1twiA 434 3.65e+01 b.49.2.3,c.1.6.1 107399,107400 1mqiA 263 3.70e+01 c.94.1.1 91398 1i9gA 280 3.73e+01 c.66.1.13 62090 1w6uA 302 3.75e+01 1t2dA 322 3.79e+01 c.2.1.5,d.162.1.1 99084,99085 2f6kA 307 3.80e+01 1ne8A 117 3.80e+01 b.34.6.2 80424 1f89A 291 3.83e+01 d.160.1.1 64988 1n83A 270 3.85e+01 a.123.1.1 80276 1hqz1 141 3.87e+01 1ru3A 732 3.91e+01 e.26.1.3 97835 1s99A 200 3.91e+01 1j0dA 341 3.92e+01 c.79.1.1 83902 1r8sA 164 3.93e+01 c.37.1.8 97247 1wqwA 235 3.95e+01 1mml 265 3.97e+01 1mml e.8.1.2 43015 2bfwA 200 3.97e+01 1cvrA 435 3.99e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1ryiA 382 4.05e+01 1xdfA 157 4.09e+01 1l6rA 227 4.09e+01 c.108.1.10 77768 2ca6A 386 4.14e+01 1im3D 95 4.16e+01 1im3D b.1.18.5 62568 2gaxA 135 4.18e+01 1rl4A 188 4.22e+01 d.167.1.1 97636 1ro5A 201 4.27e+01 d.108.1.3 105023 1zz1A 369 4.34e+01 1yc5A 246 4.35e+01 1bykA 255 4.38e+01 1bykA c.93.1.1 35706 1qstA 160 4.39e+01 1yghA d.108.1.1 40804 1irdA 141 4.39e+01 a.1.1.2 66286 1erw 105 4.39e+01 1erv c.47.1.1 32745 1ve0A 134 4.42e+01 1bkpA 278 4.43e+01 1bkpA d.117.1.1 41029 1v74B 87 4.46e+01 a.24.20.1 100443 2fa8A 105 4.49e+01 1vehA 92 4.50e+01 2h3bA 494 4.57e+01 1vl5A 260 4.59e+01 c.66.1.41 108720 1pu1A 94 4.63e+01 d.266.1.1 104307 2d1sA 548 4.70e+01 1u7gA 385 4.71e+01 f.44.1.1 107723 1l8bA 190 4.71e+01 d.86.1.1 73683 1ve3A 227 4.80e+01 2be4A 272 4.83e+01 1kjlA 146 4.87e+01 1zd9A 188 4.87e+01 2b99A 156 4.88e+01 1h5rA 293 4.90e+01 c.68.1.6 65623 2gnoA 305 4.91e+01 2b7kA 200 4.93e+01 1y8aA 332 4.95e+01 1tr8A 102 4.96e+01 1xwyA 264 4.97e+01 1bdfA 235 5.03e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1x1eA 239 5.05e+01 2hvm 273 5.08e+01 1cnv c.1.8.5 28985 1b3aA 67 5.09e+01 1b3aA d.9.1.1 37410 1wvqA 167 5.11e+01 1xqaA 113 5.11e+01 1oxxK 353 5.18e+01 b.40.6.3,c.37.1.12 93715,93716 1jb7B 260 5.23e+01 1otcB b.40.4.3 62839 1tuaA 191 5.24e+01 d.51.1.1,d.51.1.1 107321,107322 1e8gA 560 5.25e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1r6xA 395 5.27e+01 b.122.1.3,c.26.1.5 97167,97168 1dzkA 157 5.30e+01 1obpA b.60.1.1 27096 1wxiA 275 5.31e+01 1vggA 161 5.35e+01 2ge3A 170 5.35e+01 2agmA 167 5.36e+01 1kk1A 410 5.37e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2mprA 421 5.42e+01 2mprA f.4.3.2 43788 1nd4A 264 5.43e+01 d.144.1.6 91815 1sc6A 404 5.44e+01 1u2cA 246 5.45e+01 b.1.6.2,d.272.1.1 107610,107611 1xi3A 215 5.46e+01 c.1.3.1 109601 1eu8A 409 5.47e+01 1eu8A c.94.1.1 59502 1p7tA 731 5.51e+01 c.1.13.1 94319 1senA 164 5.53e+01 c.47.1.1 105465 1cnzA 363 5.56e+01 1cnzA c.77.1.1 35061 1in0A 163 5.58e+01 d.58.49.1,d.58.49.1 83694,83695 1yp2A 451 5.62e+01 1ng6A 148 5.68e+01 a.182.1.1 85670 1ukuA 102 5.69e+01 d.58.5.2 99533 1i52A 236 5.69e+01 1i52A c.68.1.13 61767 2g2cA 167 5.70e+01 1z7xW 461 5.70e+01 2ez6A 221 5.84e+01 1jh6A 189 5.86e+01 d.61.1.1 66707 2ap1A 327 5.87e+01 2ew8A 249 5.89e+01 1mh1 186 5.92e+01 1eesA c.37.1.8 32002 2bmoA 447 5.94e+01 1erv 105 5.97e+01 1erv c.47.1.1 32743 1u7pA 164 6.03e+01 2bkrA 212 6.07e+01 1vhuA 211 6.08e+01 c.50.1.2 100703 1t3tA 1303 6.19e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1z6nA 167 6.21e+01 2gsq 202 6.25e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1q9uA 130 6.25e+01 d.129.7.1 96314 1wdvA 152 6.26e+01 1rm8A 169 6.26e+01 d.92.1.11 97660 1wyzA 242 6.32e+01 1c1dA 355 6.33e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1iow 306 6.33e+01 1iow c.30.1.2,d.142.1.1 31713,41481 2g5cA 281 6.34e+01 1eluA 390 6.38e+01 1elqA c.67.1.3 34434 2fiyA 309 6.39e+01 1zljA 78 6.39e+01 1fo8A 343 6.39e+01 1foaA c.68.1.10 59927 1o0iA 138 6.51e+01 d.38.1.5 86532 1hb6A 86 6.51e+01 a.11.1.1 70959 2f2eA 146 6.53e+01 1w8iA 156 6.59e+01 1wdjA 187 6.63e+01 1ka1A 357 6.63e+01 e.7.1.1 68369 1svy 114 6.64e+01 1svy d.109.1.1 40831 2chnA 716 6.64e+01 1yhtA 367 6.65e+01 1qwgA 251 6.67e+01 c.1.27.1 96473 2cbiA 594 6.68e+01 1l5wA 796 6.68e+01 c.87.1.4 73605 2ab5A 269 6.71e+01 1v60A 123 6.72e+01 2aeeA 211 6.74e+01 1hfc 169 6.75e+01 1hfc d.92.1.11 40335 1f15A 218 6.76e+01 1f15B b.121.4.5 23320 1o3yA 166 6.78e+01 c.37.1.8 86618 1p1mA 406 6.87e+01 b.92.1.4,c.1.9.9 87696,87697 1fvgA 199 6.92e+01 1fvaA d.58.28.1 39408 2choA 716 6.96e+01 1jysA 242 6.97e+01 c.56.2.1 77216 1k47A 337 6.99e+01 d.14.1.5,d.58.26.4 72040,72041 1it2A 146 7.00e+01 a.1.1.2 66365 1ghhA 81 7.04e+01 1ghhA d.57.1.1 38940 1nrzA 164 7.06e+01 c.38.1.1 86131 1q2lA 939 7.07e+01 1rfyA 102 7.09e+01 1xmxA 385 7.11e+01 1s2dA 167 7.17e+01 c.23.14.1 98377 2erbA 125 7.18e+01 1i4wA 353 7.20e+01 c.66.1.24 66028 2b61A 377 7.20e+01 1lvwA 295 7.20e+01 c.68.1.6 84723 1ja9A 274 7.24e+01 c.2.1.2 62817 1mhqA 148 7.25e+01 a.118.9.2 84973 2bgkA 278 7.28e+01 1zud1 251 7.30e+01 1gt1A 159 7.31e+01 b.60.1.1 90515 1qu9A 128 7.32e+01 1qu9A d.79.1.1 39755 1s6cA 183 7.32e+01 a.39.1.5 98594 2vhbA 146 7.34e+01 2vhbA a.1.1.2 15629 1vkbA 161 7.35e+01 d.269.1.1 108643 1ylxA 103 7.41e+01 2cx5A 158 7.44e+01 1z54A 132 7.47e+01 1i1rB 181 7.52e+01 1i1rB a.26.1.1 61548 2g7gA 213 7.55e+01 1n5nA 180 7.57e+01 d.167.1.1 85336 2a72A 146 7.57e+01 1w41A 101 7.61e+01 1ccwB 483 7.61e+01 1cb7B c.1.19.2 29646 1n4qB 377 7.72e+01 a.102.4.3 91636 1yzvA 204 7.81e+01 1r7mA 235 7.81e+01 1y80A 210 7.83e+01 1ufwA 95 7.84e+01 d.58.7.1 99358 1f5vA 240 7.87e+01 1bkjA d.90.1.1 40255 1sh8A 154 7.87e+01 d.38.1.5 105549 1yw5A 177 7.87e+01 2au3A 407 7.88e+01 1j3bA 529 7.89e+01 c.91.1.1,c.109.1.1 77071,77072 1dbiA 280 7.97e+01 1gci c.41.1.1 32543 1q45A 391 7.99e+01 c.1.4.1 95780 2d00A 109 8.03e+01 2gcfA 73 8.04e+01 1ehiA 377 8.06e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1w77A 228 8.11e+01 2bkyX 89 8.16e+01 1mr3F 181 8.20e+01 c.37.1.8 79422 2fv1A 377 8.20e+01 1o26A 232 8.28e+01 d.207.1.1 86566 2fokA 579 8.28e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1fthA 122 8.30e+01 d.150.1.2 60028 2gnxA 365 8.31e+01 1tvfA 369 8.33e+01 b.105.1.2,e.3.1.1 107358,107359 1p3qQ 54 8.35e+01 a.5.2.4 87748 2av4A 162 8.35e+01 1o9gA 250 8.50e+01 c.66.1.29 86692 1ekeA 230 8.53e+01 1ekeA c.55.3.1 33572 1zuwA 272 8.55e+01 1avqA 228 8.59e+01 1avqA c.52.1.13 33326 1usgA 346 8.61e+01 c.93.1.1 99864 1qahA 136 8.62e+01 d.79.1.1 96338 1zx4A 192 8.65e+01 1m4vA 204 8.66e+01 b.40.2.2,d.15.6.1 74459,74460 2aeuA 374 8.71e+01 2b8nA 429 8.72e+01 8dfr 189 8.73e+01 1aoeA c.71.1.1 34895 1rqpA 299 8.75e+01 b.141.1.1,c.132.1.1 97754,97755 1vjqA 79 8.77e+01 k.43.1.1 100830 1tadA 324 8.79e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 1iz6A 138 8.87e+01 b.34.5.2,b.40.4.5 76976,76977 1ie9A 259 8.91e+01 1db1A a.123.1.1 62318 1i76A 163 8.97e+01 1hfc d.92.1.11 61877