# 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 1vp4A 425 1.94e-01 1wqaA 455 1.97e-01 2dbbA 151 2.64e-01 1e9rA 437 4.66e-01 c.37.1.11 64827 4enl 436 5.49e-01 4enl c.1.11.1,d.54.1.1 29202,38846 2al2A 436 6.33e-01 1aszB 490 7.01e-01 1b8aA b.40.4.1,d.104.1.1 25241,40762 2al1A 436 7.45e-01 1oneA 436 7.78e-01 4enl c.1.11.1,d.54.1.1 29200,38844 2gj8A 172 9.61e-01 1ymqA 261 1.06e+00 1bqk 124 1.06e+00 1bqk b.6.1.1 22889 1lc5A 364 1.55e+00 c.67.1.1 73827 1jztA 246 1.60e+00 c.104.1.1 63319 2ffuA 501 1.93e+00 1yb0A 159 1.96e+00 1amy 403 2.14e+00 1jdc b.71.1.1,c.1.8.1 27799,28786 1qo0D 196 2.43e+00 1qo0D c.23.1.3 31125 1te6A 439 2.46e+00 c.1.11.1,d.54.1.1 106797,106798 1w77A 228 2.59e+00 2g5cA 281 2.76e+00 1lvwA 295 2.90e+00 c.68.1.6 84723 1uirA 314 2.94e+00 c.66.1.17 99429 1r5tA 142 3.15e+00 c.97.1.1 104812 1wduA 245 3.38e+00 d.151.1.1 109286 2akzA 439 3.44e+00 1avaA 403 3.49e+00 1jdc b.71.1.1,c.1.8.1 27797,28784 2gzaA 361 3.87e+00 1wstA 417 4.39e+00 1yovA 537 4.48e+00 1vl6A 388 4.64e+00 c.2.1.7,c.58.1.3 108724,108725 1yr0A 175 4.78e+00 1vggA 161 4.96e+00 1v60A 123 5.02e+00 2av4A 162 5.53e+00 2fuvA 549 5.57e+00 1qysA 106 5.71e+00 k.41.1.1 96603 1fcyA 236 6.24e+00 2lbd a.123.1.1 19282 1u7lA 392 6.52e+00 1ko6A 187 6.91e+00 b.119.1.1 77471 1slqA 278 6.99e+00 f.47.1.1 105719 1dar 691 7.41e+00 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1ht6A 405 7.63e+00 b.71.1.1,c.1.8.1 83629,83630 1xwyA 264 7.79e+00 1f2tB 148 8.01e+00 1f2tB 1xhbA 472 8.08e+00 1wi1A 126 8.18e+00 2c1cA 312 8.62e+00 1phk 298 8.75e+00 1cdkA d.144.1.7 41635 2fckA 181 8.78e+00 1tfr 305 8.81e+00 1tfr a.60.7.1,c.120.1.2 18081,33351 1rq2A 382 9.21e+00 c.32.1.1,d.79.2.1 105048,105049 1sviA 195 1.01e+01 c.37.1.8 106048 1ltoA 245 1.02e+01 b.47.1.2 84707 1ri7A 171 1.04e+01 a.4.5.32,d.58.4.2 97504,97505 1ve0A 134 1.06e+01 2b0jA 358 1.06e+01 1x7oA 287 1.07e+01 1w1wA 430 1.17e+01 1ng4A 390 1.20e+01 c.3.1.2,d.16.1.3 85666,85667 2f5gA 133 1.21e+01 1b8oA 284 1.26e+01 1b8oA c.56.2.1 33762 1rwzA 245 1.33e+01 d.131.1.2,d.131.1.2 98005,98006 1u2zA 433 1.33e+01 c.66.1.31 107626 1d8wA 426 1.35e+01 1de5A c.1.15.2 29394 1zd9A 188 1.36e+01 1pzxA 289 1.37e+01 c.119.1.1 95484 2cviA 83 1.39e+01 1vjeA 166 1.43e+01 d.185.1.2 100807 2f9nA 245 1.49e+01 1ryiA 382 1.50e+01 1xbsA 149 1.53e+01 1w6uA 302 1.53e+01 1cl8A 276 1.54e+01 1ckqA c.52.1.1 33230 1p0iA 529 1.55e+01 c.69.1.1 93867 1d3yA 301 1.59e+01 1d3yA e.12.1.1 43252 1iyxA 432 1.62e+01 c.1.11.1,d.54.1.1 83815,83816 1q9uA 130 1.64e+01 d.129.7.1 96314 1k8rB 110 1.68e+01 d.15.1.5 72180 1i9gA 280 1.72e+01 c.66.1.13 62090 3pmgA 561 1.72e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1nrfA 262 1.75e+01 e.3.1.1 92086 1bo1A 416 1.75e+01 1bo1A d.143.1.2 41591 1fo8A 343 1.75e+01 1foaA c.68.1.10 59927 1xahA 354 1.76e+01 1fzyA 149 1.77e+01 d.20.1.1 65072 1vr9A 213 1.79e+01 1m1hA 248 1.80e+01 b.114.1.1,d.58.42.1 78415,78416 1o7nA 449 1.81e+01 b.33.1.2,d.129.3.3 81162,81163 1b7gO 340 1.89e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 2c1lA 358 1.90e+01 1wjuA 100 1.90e+01 1kv7A 488 1.90e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1innA 166 1.91e+01 1j98A d.185.1.2 62608 1eg9A 449 1.92e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 2fqxA 318 1.92e+01 1qe5A 266 1.95e+01 1b8oA c.56.2.1 33784 2gcfA 73 2.07e+01 1pdz 434 2.07e+01 4enl c.1.11.1,d.54.1.1 29215,38859 2fmr 65 2.11e+01 2fmr d.51.1.1 38808 1g55A 343 2.11e+01 1g55A c.66.1.26 34247 2a5dA 175 2.12e+01 1y81A 138 2.12e+01 1sqsA 242 2.20e+01 c.23.5.5 98968 2faoA 309 2.20e+01 2arhA 203 2.21e+01 1yp2A 451 2.22e+01 2a7mA 250 2.22e+01 1tcvA 287 2.28e+01 1o3yA 166 2.31e+01 c.37.1.8 86618 1pvvA 315 2.45e+01 c.78.1.1,c.78.1.1 95190,95191 2an9A 207 2.48e+01 1guzA 310 2.50e+01 c.2.1.5,d.162.1.1 65586,65587 1yghA 164 2.54e+01 1yghA d.108.1.1 40802 1o9gA 250 2.57e+01 c.66.1.29 86692 1t3cA 421 2.59e+01 d.92.1.7 106343 1ojxA 263 2.61e+01 c.1.10.1 93164 1p8kZ 254 2.62e+01 d.95.2.1,d.95.2.1 94361,94362 1mp9A 198 2.65e+01 d.129.1.1,d.129.1.1 91385,91386 1zu4A 320 2.67e+01 1ws0A 156 2.71e+01 1ohtA 215 2.72e+01 d.118.1.1 87036 1a4yA 460 2.72e+01 1a4yA c.10.1.1 30852 2cw5A 255 2.74e+01 1v8hA 107 2.77e+01 1r8sA 164 2.77e+01 c.37.1.8 97247 1hqz1 141 2.83e+01 1eceA 358 2.87e+01 1eceA c.1.8.3 28813 1ru3A 732 2.88e+01 e.26.1.3 97835 1nrzA 164 2.98e+01 c.38.1.1 86131 1pcfA 66 3.01e+01 1pcfA d.18.1.1 38142 1wdtA 665 3.02e+01 2glfA 450 3.04e+01 2ab5A 269 3.12e+01 1xewY 172 3.14e+01 1gegA 256 3.15e+01 1ybvA c.2.1.2 29888 1wvqA 167 3.16e+01 2cx5A 158 3.17e+01 1y8qA 346 3.18e+01 1u2wA 122 3.18e+01 1w8sA 263 3.21e+01 1w36B 1180 3.22e+01 2bitX 165 3.23e+01 2b4aA 138 3.26e+01 1yc5A 246 3.27e+01 1jb7B 260 3.30e+01 1otcB b.40.4.3 62839 1fsz 372 3.33e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 2fiqA 420 3.36e+01 1fvgA 199 3.38e+01 1fvaA d.58.28.1 39408 1pc6A 146 3.40e+01 d.262.1.1 94430 1zbsA 291 3.40e+01 2cxxA 190 3.45e+01 1frpA 335 3.52e+01 1frpA e.7.1.1 42875 2bo4A 397 3.55e+01 2c0nA 203 3.61e+01 1wdvA 152 3.61e+01 1z7mA 344 3.66e+01 7odcA 424 3.68e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1pyoA 167 3.69e+01 c.17.1.1 95370 1zhhB 242 3.69e+01 1vheA 373 3.70e+01 b.49.3.1,c.56.5.4 100669,100670 1g0cA 364 3.73e+01 7a3hA c.1.8.3 60165 2f1fA 164 3.75e+01 2g2cA 167 3.76e+01 1i52A 236 3.85e+01 1i52A c.68.1.13 61767 1om1A 332 3.97e+01 d.144.1.7 93347 2dlbA 80 3.99e+01 1bqyA 234 4.05e+01 5ptp b.47.1.2 26332 1qo3C 137 4.07e+01 1qo3C d.169.1.1 42350 1qahA 136 4.07e+01 d.79.1.1 96338 1id1A 153 4.10e+01 1id1A c.2.1.9 62286 2erfA 209 4.12e+01 1a0i 348 4.12e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1n4qB 377 4.15e+01 a.102.4.3 91636 1bykA 255 4.17e+01 1bykA c.93.1.1 35706 2av5A 120 4.17e+01 1iuz 98 4.17e+01 1plc b.6.1.1 22861 1fa0A 537 4.20e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1gefA 123 4.20e+01 1gefA c.52.1.18 60465 1gs5A 258 4.28e+01 c.73.1.2 70395 2gkeA 274 4.34e+01 1ftrA 296 4.34e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1ursA 402 4.36e+01 c.94.1.1 99833 2b7kA 200 4.36e+01 1r5lA 262 4.43e+01 a.5.3.1,c.13.1.1 97099,97100 2f4nA 273 4.47e+01 1hurA 180 4.49e+01 1hurA c.37.1.8 32052 2a0jA 149 4.54e+01 1t8tA 271 4.57e+01 c.37.1.5 106685 1e8cA 498 4.57e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1uouA 474 4.59e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1bazA 53 4.61e+01 1bazA a.43.1.1 17421 1w6tA 444 4.61e+01 1tljA 213 4.66e+01 d.282.1.1 107126 1kepA 348 4.67e+01 c.2.1.2 68536 1oz9A 150 4.67e+01 d.92.1.15 93808 1sjiA 350 4.67e+01 1vfrA 218 4.71e+01 1vfrA d.90.1.1 40247 1rfmA 344 4.77e+01 c.122.1.1 97385 2bfwA 200 4.81e+01 1bdfA 235 4.84e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 2akoA 251 4.88e+01 1whtA 256 4.91e+01 1ivyA c.69.1.5 34646 1j0dA 341 4.99e+01 c.79.1.1 83902 1zpvA 91 5.01e+01 1q0sA 259 5.03e+01 c.66.1.28 95509 2g40A 224 5.05e+01 1y9aA 360 5.09e+01 2aebA 322 5.11e+01 2fymA 431 5.12e+01 1r7aA 504 5.12e+01 b.71.1.1,c.1.8.1 97192,97193 1n3bA 216 5.18e+01 c.37.1.1 79959 1bco 327 5.21e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1f08A 148 5.22e+01 1f08A d.89.1.2 59564 2cfxA 144 5.22e+01 2bznA 351 5.28e+01 1i2aA 219 5.30e+01 e.24.1.1 90660 1kt6A 183 5.32e+01 b.60.1.1 84466 2gcuA 245 5.34e+01 3sdhA 146 5.36e+01 3sdhA a.1.1.2 14984 1z4rA 168 5.37e+01 2gnxA 365 5.44e+01 1vecA 206 5.48e+01 c.37.1.19 100575 1vd6A 224 5.51e+01 1c0pA 363 5.53e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 2chnA 716 5.53e+01 1sw6A 327 5.54e+01 1sw6A d.211.1.1 19176 2bfgA 503 5.54e+01 1o5iA 249 5.58e+01 c.2.1.2 92499 1yr2A 741 5.62e+01 1s96A 219 5.62e+01 c.37.1.1 98740 1oqvA 192 5.69e+01 d.24.1.2 87320 1n5nA 180 5.70e+01 d.167.1.1 85336 1f52A 468 5.76e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1g3qA 237 5.76e+01 1hyqA c.37.1.10 60237 2choA 716 5.79e+01 1hwxA 501 5.79e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1dywA 173 5.80e+01 2cpl b.62.1.1 27505 1b77A 228 5.84e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1okgA 373 5.85e+01 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 1dssG 333 5.85e+01 1dssG c.2.1.3,d.81.1.1 30022,39937 1b43A 340 5.87e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1zvdA 380 5.90e+01 1nx8A 273 5.92e+01 b.82.2.8 86374 1oc2A 348 5.98e+01 c.2.1.2 92765 1v8eA 224 5.99e+01 1geqA 248 6.04e+01 2tysA c.1.2.4 28589 1pmy 123 6.05e+01 1bqk b.6.1.1 22888 1z0sA 278 6.09e+01 1nxiA 132 6.15e+01 d.58.47.1 86381 1j27A 102 6.17e+01 d.58.50.1 90778 1quqB 121 6.19e+01 1quqB b.40.4.3 25305 1r4wA 226 6.23e+01 c.47.1.13 97050 1kicA 339 6.23e+01 c.70.1.1 72510 1s2dA 167 6.24e+01 c.23.14.1 98377 1m7yA 435 6.28e+01 c.67.1.4 78761 1odkA 235 6.28e+01 c.56.2.1 86863 1lci 550 6.34e+01 1lci e.23.1.1 43349 1svy 114 6.39e+01 1svy d.109.1.1 40831 1f8yA 157 6.40e+01 1f8xA c.23.14.1 31395 1z7xW 461 6.43e+01 1vig 71 6.46e+01 1vih d.51.1.1 38806 1hbq 183 6.49e+01 1aqb b.60.1.1 27078 1ej1A 190 6.49e+01 1ejhA d.86.1.1 40144 1m2rA 327 6.51e+01 d.144.1.7 84760 1hynP 379 6.51e+01 1hynP d.112.1.2 61408 1pieA 419 6.52e+01 d.14.1.5,d.58.26.7 94706,94707 2c6qA 351 6.53e+01 1szqA 483 6.57e+01 e.44.1.1 99045 3tgl 269 6.60e+01 3tgl c.69.1.17 34733 1g2rA 100 6.63e+01 1g2rA d.192.1.1 60231 1o0uA 429 6.65e+01 c.118.1.1 80743 2d1sA 548 6.65e+01 1rkuA 206 6.69e+01 c.108.1.11 97627 2ge3A 170 6.70e+01 2gu2A 312 6.75e+01 1ppjB 439 6.81e+01 d.185.1.1,d.185.1.1 104254,104255 1dyr 206 6.83e+01 1aoeA c.71.1.1 34916 1k2fA 190 6.83e+01 b.8.1.2 68054 1f2dA 341 6.84e+01 1f2dA c.79.1.1 35298 1eu8A 409 6.86e+01 1eu8A c.94.1.1 59502 1xg8A 111 6.88e+01 1yckA 175 6.91e+01 1mzgA 146 6.96e+01 d.224.1.1 79696 2d09A 407 6.96e+01 1wggA 96 6.98e+01 1fg7A 356 7.01e+01 1gewA c.67.1.1 59819 1j9yA 385 7.02e+01 1j9yA c.1.8.3 62791 1ztdA 133 7.05e+01 1zud1 251 7.18e+01 1f35A 162 7.18e+01 1f35A b.94.1.1 59628 2atxA 194 7.24e+01 1c3yA 108 7.32e+01 1c3yA a.39.2.1 17387 2bs9A 503 7.33e+01 1in0A 163 7.35e+01 d.58.49.1,d.58.49.1 83694,83695 1nt4A 391 7.35e+01 c.60.1.2 92102 4crxA 322 7.40e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1yxmA 303 7.41e+01 1o58A 303 7.41e+01 c.79.1.1 92491 1vkjA 285 7.43e+01 c.37.1.5 108666 1i1dA 161 7.44e+01 1i21A d.108.1.1 61526 1jv4A 162 7.47e+01 b.60.1.1 67343 1nd4A 264 7.47e+01 d.144.1.6 91815 1q2lA 939 7.49e+01 1o66A 275 7.52e+01 c.1.12.8 92547 1fgxA 288 7.56e+01 1fgxA c.68.1.2 34508 1u1hA 765 7.56e+01 c.1.22.2,c.1.22.2 107580,107581 1q0vA 81 7.57e+01 j.105.1.1 95514 1blxA 326 7.59e+01 1hcl d.144.1.7 41596 2exrA 524 7.59e+01 1kbjA 412 7.60e+01 c.1.4.1 72280 1l0lB 439 7.61e+01 d.185.1.1,d.185.1.1 84484,84485 1bi5A 389 7.62e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 2bleA 367 7.66e+01 1jmsA 381 7.67e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 2bj7A 138 7.69e+01 1fcdA 401 7.70e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 2bhwA 232 7.77e+01 2eueA 279 7.82e+01 1jmtA 104 7.83e+01 d.58.7.3 63180 1iukA 140 7.85e+01 c.2.1.8 83712 2absA 383 7.93e+01 1i12A 160 7.97e+01 1i21A d.108.1.1 61515 1jndA 420 7.97e+01 c.1.8.5,d.26.3.1 71757,71758 1g63A 181 8.00e+01 1g5qA c.34.1.1 60299 2cygA 312 8.02e+01 1zndA 174 8.06e+01 1poiB 260 8.09e+01 1poiB c.124.1.3 34155 1ywxA 102 8.12e+01 2cxcA 144 8.16e+01 1zz1A 369 8.16e+01 2f2lX 167 8.19e+01 1jy1A 464 8.21e+01 d.136.1.3,d.136.1.3 67438,67439 1i60A 278 8.23e+01 c.1.15.4 71118 1zavA 180 8.28e+01 1rhs 296 8.30e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1on0A 158 8.31e+01 d.108.1.1 87095 1y0zA 330 8.33e+01 1uekA 275 8.34e+01 d.14.1.5,d.58.26.5 88483,88484 1g66A 207 8.34e+01 1bs9 c.69.1.30 31329 1i05A 180 8.35e+01 1mup b.60.1.1 27130 2d0eA 407 8.36e+01 1b3aA 67 8.37e+01 1b3aA d.9.1.1 37410 1aqb 183 8.37e+01 1aqb b.60.1.1 27084 1whsA 255 8.41e+01 1ivyA c.69.1.5 34649 1h5rA 293 8.43e+01 c.68.1.6 65623 1wn5A 130 8.45e+01 1mqiA 263 8.58e+01 c.94.1.1 91398 1obfO 335 8.59e+01 c.2.1.3,d.81.1.1 86768,86769 1mup 166 8.60e+01 1mup b.60.1.1 27133 2gzxA 265 8.61e+01 1q45A 391 8.63e+01 c.1.4.1 95780 1cl1A 395 8.69e+01 1cl2A c.67.1.3 34395 1i06A 180 8.69e+01 1mup b.60.1.1 27131 1tvfA 369 8.69e+01 b.105.1.2,e.3.1.1 107358,107359 3tmkA 216 8.73e+01 3tmkA c.37.1.1 31920 2bhuA 602 8.74e+01 1b56 135 8.75e+01 1hmt b.60.1.2 27183 1v3rA 116 8.75e+01 1k0fA 277 8.76e+01 c.92.2.2 71974 1vc3B 97 8.85e+01 1fiuA 286 8.90e+01 1fiuA c.52.1.10 33317 1xtlA 175 8.90e+01 1dzkA 157 8.94e+01 1obpA b.60.1.1 27096 1umdB 324 8.95e+01 c.36.1.7,c.48.1.2 99600,99601 1of5B 184 8.96e+01 d.17.4.2 86934