# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 8.35e-02 1vp4A 425 3.24e-01 1aszB 490 3.89e-01 1b8aA b.40.4.1,d.104.1.1 25241,40762 2dbbA 151 4.43e-01 1e9rA 437 5.94e-01 c.37.1.11 64827 4enl 436 8.73e-01 4enl c.1.11.1,d.54.1.1 29202,38846 1qo0D 196 8.92e-01 1qo0D c.23.1.3 31125 2al2A 436 9.61e-01 1ymqA 261 1.02e+00 1bqk 124 1.02e+00 1bqk b.6.1.1 22889 2al1A 436 1.19e+00 1oneA 436 1.22e+00 4enl c.1.11.1,d.54.1.1 29200,38844 1jztA 246 1.27e+00 c.104.1.1 63319 1uirA 314 1.38e+00 c.66.1.17 99429 2ffuA 501 1.89e+00 1yr0A 175 2.22e+00 1qysA 106 2.99e+00 k.41.1.1 96603 1te6A 439 3.18e+00 c.1.11.1,d.54.1.1 106797,106798 1u7lA 392 3.45e+00 1yb0A 159 3.89e+00 2g5cA 281 4.37e+00 1wduA 245 4.46e+00 d.151.1.1 109286 2akzA 439 4.50e+00 1r5tA 142 5.06e+00 c.97.1.1 104812 1v60A 123 5.27e+00 1ng4A 390 5.35e+00 c.3.1.2,d.16.1.3 85666,85667 1lvwA 295 5.39e+00 c.68.1.6 84723 1phk 298 5.49e+00 1cdkA d.144.1.7 41635 1ltoA 245 5.50e+00 b.47.1.2 84707 1w1wA 430 5.68e+00 1ko6A 187 5.80e+00 b.119.1.1 77471 1lc5A 364 5.85e+00 c.67.1.1 73827 1d8wA 426 6.10e+00 1de5A c.1.15.2 29394 2f5gA 133 6.45e+00 2fckA 181 6.48e+00 1tfr 305 6.54e+00 1tfr a.60.7.1,c.120.1.2 18081,33351 1w77A 228 6.87e+00 1kv7A 488 7.02e+00 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1xwyA 264 7.05e+00 1fcyA 236 7.16e+00 2lbd a.123.1.1 19282 1ryiA 382 7.26e+00 1yovA 537 7.39e+00 1x7oA 287 7.41e+00 1gegA 256 7.70e+00 1ybvA c.2.1.2 29888 1fzyA 149 7.91e+00 d.20.1.1 65072 2f9nA 245 7.97e+00 1vggA 161 8.24e+00 1slqA 278 8.37e+00 f.47.1.1 105719 1vl6A 388 8.40e+00 c.2.1.7,c.58.1.3 108724,108725 1bo1A 416 8.98e+00 1bo1A d.143.1.2 41591 2fuvA 549 9.26e+00 1dar 691 9.30e+00 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1amy 403 9.43e+00 1jdc b.71.1.1,c.1.8.1 27799,28786 1q9uA 130 9.63e+00 d.129.7.1 96314 1sviA 195 9.70e+00 c.37.1.8 106048 1eceA 358 1.04e+01 1eceA c.1.8.3 28813 1wstA 417 1.04e+01 1d3yA 301 1.05e+01 1d3yA e.12.1.1 43252 1k8rB 110 1.09e+01 d.15.1.5 72180 1ri7A 171 1.14e+01 a.4.5.32,d.58.4.2 97504,97505 2c1cA 312 1.17e+01 1rq2A 382 1.18e+01 c.32.1.1,d.79.2.1 105048,105049 1f2tB 148 1.21e+01 1f2tB 2a5dA 175 1.23e+01 2gkeA 274 1.37e+01 2av4A 162 1.38e+01 1avaA 403 1.38e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1xhbA 472 1.40e+01 2f4nA 273 1.41e+01 2arhA 203 1.43e+01 1nrfA 262 1.45e+01 e.3.1.1 92086 2fqxA 318 1.53e+01 1o3yA 166 1.53e+01 c.37.1.8 86618 2glfA 450 1.53e+01 1vr9A 213 1.54e+01 1wvfA 520 1.60e+01 1ohtA 215 1.62e+01 d.118.1.1 87036 2an9A 207 1.67e+01 1pzxA 289 1.71e+01 c.119.1.1 95484 2b0jA 358 1.74e+01 1zd9A 188 1.77e+01 1i9gA 280 1.77e+01 c.66.1.13 62090 2cw5A 255 1.77e+01 1r8sA 164 1.81e+01 c.37.1.8 97247 1wjuA 100 1.86e+01 1u1hA 765 1.86e+01 c.1.22.2,c.1.22.2 107580,107581 1u2zA 433 1.90e+01 c.66.1.31 107626 1mp9A 198 1.97e+01 d.129.1.1,d.129.1.1 91385,91386 1fo8A 343 1.99e+01 1foaA c.68.1.10 59927 1wi1A 126 2.09e+01 1geqA 248 2.11e+01 2tysA c.1.2.4 28589 3pmgA 561 2.12e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1v8hA 107 2.16e+01 1yghA 164 2.18e+01 1yghA d.108.1.1 40802 1ve0A 134 2.22e+01 1a0i 348 2.23e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1t8tA 271 2.25e+01 c.37.1.5 106685 1yp2A 451 2.34e+01 1szqA 483 2.36e+01 e.44.1.1 99045 2bitX 165 2.39e+01 2a7mA 250 2.42e+01 1odkA 235 2.43e+01 c.56.2.1 86863 2faoA 309 2.44e+01 1cl8A 276 2.46e+01 1ckqA c.52.1.1 33230 2cx5A 158 2.54e+01 1zu4A 320 2.56e+01 1m1hA 248 2.58e+01 b.114.1.1,d.58.42.1 78415,78416 2gcfA 73 2.59e+01 1c3yA 108 2.59e+01 1c3yA a.39.2.1 17387 1f52A 468 2.72e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1j0dA 341 2.72e+01 c.79.1.1 83902 1frpA 335 2.73e+01 1frpA e.7.1.1 42875 1i7nA 309 2.81e+01 c.30.1.5,d.142.1.3 83681,83682 1id1A 153 2.82e+01 1id1A c.2.1.9 62286 1sqsA 242 2.84e+01 c.23.5.5 98968 1w6uA 302 2.85e+01 1fsz 372 2.87e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1y9aA 360 2.89e+01 1ws0A 156 2.92e+01 1b7gO 340 2.94e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1vfrA 218 3.00e+01 1vfrA d.90.1.1 40247 1rwzA 245 3.04e+01 d.131.1.2,d.131.1.2 98005,98006 1u2wA 122 3.06e+01 1qe5A 266 3.09e+01 1b8oA c.56.2.1 33784 2fmr 65 3.09e+01 2fmr d.51.1.1 38808 1pdz 434 3.09e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1bykA 255 3.10e+01 1bykA c.93.1.1 35706 2cviA 83 3.10e+01 1hurA 180 3.13e+01 1hurA c.37.1.8 32052 1oz9A 150 3.13e+01 d.92.1.15 93808 1o9gA 250 3.15e+01 c.66.1.29 86692 2b7kA 200 3.15e+01 1ursA 402 3.16e+01 c.94.1.1 99833 1y81A 138 3.22e+01 1i60A 278 3.25e+01 c.1.15.4 71118 1i2aA 219 3.25e+01 e.24.1.1 90660 1nrzA 164 3.27e+01 c.38.1.1 86131 1s96A 219 3.31e+01 c.37.1.1 98740 1b8oA 284 3.36e+01 1b8oA c.56.2.1 33762 2g2cA 167 3.37e+01 1o5iA 249 3.37e+01 c.2.1.2 92499 1fvgA 199 3.38e+01 1fvaA d.58.28.1 39408 1r7aA 504 3.39e+01 b.71.1.1,c.1.8.1 97192,97193 1bco 327 3.39e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1a05A 358 3.44e+01 1cnzA c.77.1.1 35059 1ghsA 306 3.47e+01 1aq0A c.1.8.3 28840 1fa0A 537 3.51e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1wvqA 167 3.54e+01 1svy 114 3.57e+01 1svy d.109.1.1 40831 1zpvA 91 3.63e+01 1pcfA 66 3.64e+01 1pcfA d.18.1.1 38142 1vjeA 166 3.66e+01 d.185.1.2 100807 1ojxA 263 3.68e+01 c.1.10.1 93164 2erfA 209 3.68e+01 1dywA 173 3.70e+01 2cpl b.62.1.1 27505 1v7zA 260 3.71e+01 c.125.1.1 100488 2exrA 524 3.72e+01 1kt6A 183 3.81e+01 b.60.1.1 84466 1mup 166 3.88e+01 1mup b.60.1.1 27133 1sjiA 350 3.88e+01 1ftrA 296 3.91e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1ht6A 405 3.92e+01 b.71.1.1,c.1.8.1 83629,83630 1n4qB 377 3.93e+01 a.102.4.3 91636 1hynP 379 3.97e+01 1hynP d.112.1.2 61408 1dzkA 157 3.97e+01 1obpA b.60.1.1 27096 1yckA 175 4.02e+01 1g0cA 364 4.03e+01 7a3hA c.1.8.3 60165 1innA 166 4.05e+01 1j98A d.185.1.2 62608 1nx8A 273 4.07e+01 b.82.2.8 86374 1pc6A 146 4.07e+01 d.262.1.1 94430 1wdvA 152 4.10e+01 1f2dA 341 4.18e+01 1f2dA c.79.1.1 35298 1iyxA 432 4.27e+01 c.1.11.1,d.54.1.1 83815,83816 1kk1A 410 4.28e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2av5A 120 4.30e+01 1kepA 348 4.31e+01 c.2.1.2 68536 1hbq 183 4.31e+01 1aqb b.60.1.1 27078 1om1A 332 4.32e+01 d.144.1.7 93347 1ec7A 446 4.34e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1ru3A 732 4.35e+01 e.26.1.3 97835 1xahA 354 4.47e+01 2bhwA 232 4.49e+01 1aqb 183 4.49e+01 1aqb b.60.1.1 27084 1wdtA 665 4.52e+01 1w36B 1180 4.59e+01 2gnxA 365 4.59e+01 1xewY 172 4.61e+01 2b4aA 138 4.61e+01 1a4yA 460 4.61e+01 1a4yA c.10.1.1 30852 1bdfA 235 4.63e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 2ab5A 269 4.82e+01 1lbu 213 4.82e+01 1lbu a.20.1.1,d.65.1.1 16416,39549 1o7nA 449 4.83e+01 b.33.1.2,d.129.3.3 81162,81163 1iuz 98 4.85e+01 1plc b.6.1.1 22861 4crxA 322 4.86e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1uouA 474 4.87e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 2bo4A 397 4.89e+01 1j27A 102 4.91e+01 d.58.50.1 90778 1i1dA 161 5.00e+01 1i21A d.108.1.1 61526 1eg9A 449 5.01e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1v3rA 116 5.01e+01 1guzA 310 5.02e+01 c.2.1.5,d.162.1.1 65586,65587 1c0pA 363 5.04e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1w8sA 263 5.08e+01 2fiqA 420 5.09e+01 1i52A 236 5.09e+01 1i52A c.68.1.13 61767 1quqB 121 5.10e+01 1quqB b.40.4.3 25305 1sw6A 327 5.23e+01 1sw6A d.211.1.1 19176 1g55A 343 5.26e+01 1g55A c.66.1.26 34247 1o26A 232 5.27e+01 d.207.1.1 86566 1qahA 136 5.30e+01 d.79.1.1 96338 1t7lA 766 5.36e+01 2c1lA 358 5.37e+01 1i12A 160 5.38e+01 1i21A d.108.1.1 61515 1r5lA 262 5.40e+01 a.5.3.1,c.13.1.1 97099,97100 3tgl 269 5.41e+01 3tgl c.69.1.17 34733 1rwtA 232 5.42e+01 f.43.1.1 97992 2g40A 224 5.52e+01 1tcvA 287 5.53e+01 1oc2A 348 5.54e+01 c.2.1.2 92765 1q0vA 81 5.57e+01 j.105.1.1 95514 1t3cA 421 5.62e+01 d.92.1.7 106343 1ooeA 236 5.64e+01 c.2.1.2 87196 1p8kZ 254 5.66e+01 d.95.2.1,d.95.2.1 94361,94362 1xg8A 111 5.67e+01 1p0iA 529 5.68e+01 c.69.1.1 93867 1f8yA 157 5.69e+01 1f8xA c.23.14.1 31395 1vecA 206 5.77e+01 c.37.1.19 100575 1vd6A 224 5.80e+01 2cxxA 190 5.81e+01 1fcdA 401 5.82e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1pyoA 167 5.84e+01 c.17.1.1 95370 1w6tA 444 5.85e+01 1o0uA 429 5.89e+01 c.118.1.1 80743 1q2lA 939 5.95e+01 1m2rA 327 5.97e+01 d.144.1.7 84760 2bfwA 200 5.98e+01 1np7A 489 5.99e+01 a.99.1.1,c.28.1.1 80677,80678 1g3qA 237 6.00e+01 1hyqA c.37.1.10 60237 3sdhA 146 6.01e+01 3sdhA a.1.1.2 14984 7odcA 424 6.03e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1obwA 175 6.05e+01 2prd b.40.5.1 25416 1xbsA 149 6.06e+01 1ej1A 190 6.09e+01 1ejhA d.86.1.1 40144 1mzbA 136 6.09e+01 a.4.5.42 91497 1zhhB 242 6.10e+01 1zud1 251 6.19e+01 1zbsA 291 6.21e+01 1y8qA 346 6.24e+01 1v8eA 224 6.25e+01 1l2tA 235 6.27e+01 c.37.1.12 73514 2fliA 220 6.28e+01 2bhuA 602 6.39e+01 1b43A 340 6.39e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1hqz1 141 6.42e+01 1r4wA 226 6.43e+01 c.47.1.13 97050 1bwzA 274 6.45e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1b77A 228 6.63e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 2gcuA 245 6.64e+01 1z7mA 344 6.68e+01 1g2rA 100 6.72e+01 1g2rA d.192.1.1 60231 2cfxA 144 6.72e+01 1yr2A 741 6.75e+01 1yc5A 246 6.77e+01 1oqvA 192 6.77e+01 d.24.1.2 87320 1ui0A 205 6.82e+01 c.18.1.2 99411 1v6tA 255 6.83e+01 1jv4A 162 6.84e+01 b.60.1.1 67343 1zvdA 380 6.87e+01 1i40A 175 6.89e+01 b.40.5.1 66024 2aa4A 289 6.90e+01 1bqyA 234 6.90e+01 5ptp b.47.1.2 26332 1em8A 147 6.95e+01 c.128.1.1 90457 1bazA 53 6.96e+01 1bazA a.43.1.1 17421 1he7A 126 6.97e+01 1wwcA b.1.1.4 60970 1wy7A 207 6.99e+01 1jb7B 260 7.01e+01 1otcB b.40.4.3 62839 1vbvA 105 7.01e+01 2d0oA 610 7.06e+01 1q45A 391 7.09e+01 c.1.4.1 95780 2dlbA 80 7.09e+01 2d1sA 548 7.11e+01 2vhbA 146 7.19e+01 2vhbA a.1.1.2 15629 1b56 135 7.25e+01 1hmt b.60.1.2 27183 1tqjA 230 7.28e+01 c.1.2.2 107228 1j5yA 187 7.41e+01 a.4.5.1,d.94.2.1 71592,71593 2ez3A 302 7.48e+01 1xtlA 175 7.52e+01 1pvvA 315 7.55e+01 c.78.1.1,c.78.1.1 95190,95191 1qo3C 137 7.55e+01 1qo3C d.169.1.1 42350 1xt8A 292 7.56e+01 1yxmA 303 7.59e+01 1ub3A 220 7.62e+01 c.1.10.1 88395 1z5nA 242 7.69e+01 1wdjA 187 7.72e+01 1g63A 181 7.74e+01 1g5qA c.34.1.1 60299 1kicA 339 7.80e+01 c.70.1.1 72510 1bj7 156 7.81e+01 1bj7 b.60.1.1 27113 1obfO 335 7.82e+01 c.2.1.3,d.81.1.1 86768,86769 1hfc 169 7.82e+01 1hfc d.92.1.11 40335 2bl1A 172 7.83e+01 1in0A 163 7.84e+01 d.58.49.1,d.58.49.1 83694,83695 2cygA 312 7.84e+01 1rfmA 344 7.84e+01 c.122.1.1 97385 1wa3A 205 7.86e+01 1ppjB 439 7.87e+01 d.185.1.1,d.185.1.1 104254,104255 1bi5A 389 7.87e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1nd4A 264 7.94e+01 d.144.1.6 91815 1rkuA 206 7.98e+01 c.108.1.11 97627 1f44A 324 8.04e+01 a.60.9.1,d.163.1.1 64982,64983 1e8cA 498 8.07e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1tzjA 338 8.08e+01 1j9yA 385 8.12e+01 1j9yA c.1.8.3 62791 1r6uA 437 8.14e+01 c.26.1.1 97163 1xo0A 324 8.14e+01 1wj9A 211 8.18e+01 1on0A 158 8.18e+01 d.108.1.1 87095 1okgA 373 8.18e+01 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 1zz1A 369 8.19e+01 1eu8A 409 8.26e+01 1eu8A c.94.1.1 59502 1r6xA 395 8.33e+01 b.122.1.3,c.26.1.5 97167,97168 2b61A 377 8.36e+01 1tljA 213 8.38e+01 d.282.1.1 107126 1n3bA 216 8.39e+01 c.37.1.1 79959 2cxcA 144 8.41e+01 1nox 205 8.41e+01 1nox d.90.1.1 40242 1s2dA 167 8.45e+01 c.23.14.1 98377 1z4rA 168 8.48e+01 2f1rA 171 8.50e+01 1ywxA 102 8.51e+01 1l0lB 439 8.59e+01 d.185.1.1,d.185.1.1 84484,84485 1ii2A 524 8.69e+01 c.91.1.1,c.109.1.1 66146,66147 2akoA 251 8.76e+01 1k2fA 190 8.82e+01 b.8.1.2 68054 1t3tA 1303 8.92e+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 2bfgA 503 8.96e+01 1vq3A 94 8.97e+01 1lmiA 131 8.98e+01 b.1.19.1 78098 1xrtA 467 8.98e+01