# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1r5qA 102 8.73e-05 unknown_sccs -965 1v2zA 111 9.12e-04 1q6aA 107 1.09e-03 unknown_sccs -960 1dvpA 220 3.59e-02 1dvpA a.118.9.2 19216 g.50.1.1 45358 1a87 321 4.01e-02 1a87 f.1.1.1 43380 1jfiB 179 4.71e-02 1jfiB a.22.1.3 62937 1gvhA 396 7.00e-02 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1flp 142 9.73e-02 1flp a.1.1.2 15011 1moh 142 9.73e-02 1flp a.1.1.2 15012 1aj8A 371 1.18e-01 1aj8A a.103.1.1 18900 1b0b 142 1.37e-01 2fal a.1.1.2 15010 1p8cA 145 2.21e-01 unknown_sccs -1927 1sxjE 354 2.39e-01 1vkeA 133 3.74e-01 1kktA 511 3.86e-01 a.102.2.1 68687 1gwiA 411 3.95e-01 a.104.1.1 76364 1dlyA 164 5.02e-01 1dlyA a.1.1.1 14983 1kmmA 424 5.30e-01 1adjA c.51.1.1 33174 d.104.1.1 40723 1k8eA 345 5.37e-01 1o17A 345 5.37e-01 a.46.2.1 80765 c.27.1.1 80766 1f5xA 208 6.62e-01 1f5xA a.87.1.1 18516 1hsr 344 6.72e-01 1arv a.93.1.1 18592 1aru 344 6.92e-01 1arv a.93.1.1 18589 1arv 344 6.95e-01 1arv a.93.1.1 18590 1hz4A 373 7.53e-01 a.118.8.2 65960 1gntA 553 8.02e-01 e.26.1.1 70290 1e2uA 553 8.07e-01 1e1dA e.26.1.1 43362 1axn 323 8.12e-01 1avc a.65.1.1 18149 1ufaA 520 9.15e-01 unknown_sccs -421 unknown_sccs -6065 1omwA 689 9.73e-01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1lycA 343 1.00e+00 a.93.1.1 74344 1iomA 377 1.13e+00 a.103.1.1 83698 1qqiA 104 1.63e+00 1opc a.4.6.1 16233 1fnnA 389 1.70e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1p49A 562 1.72e+00 c.76.1.2 -8432 1jf0A 195 1.78e+00 1ej3A a.39.1.5 62926 1on0A 158 1.90e+00 d.108.1.1 87095 1uzxA 169 2.11e+00 d.20.1.2 -9409 1j7lA 264 2.11e+00 d.144.1.6 62697 2mysB 166 2.12e+00 1wdcB a.39.1.5 17308 1qwlA 505 2.15e+00 e.5.1.1 -11823 1tlqA 189 2.20e+00 1s9pA 227 2.31e+00 1mi1A 414 2.58e+00 a.169.1.1 79137 b.55.1.6 79138 1jdhA 529 2.73e+00 a.118.1.1 66549 1qv1A 195 2.80e+00 a.39.1.5 -830 1keiA 316 2.82e+00 d.92.1.2 77349 1iqpA 327 2.86e+00 a.80.1.1 62649 c.37.1.20 62650 1csc 433 2.89e+00 1csh a.103.1.1 18886 1qusA 322 2.89e+00 1ltm d.2.1.6 36991 1sctB 151 2.91e+00 3sdhA a.1.1.2 15003 1ltm 320 2.96e+00 1ltm d.2.1.6 36992 1tbmA 326 3.02e+00 1e5rA 290 3.03e+00 1e5rA b.82.2.4 59276 1cqxA 403 3.08e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1trlA 62 3.24e+00 1hyt j.78.1.1 18263 1g3jA 532 3.32e+00 3bct a.118.1.1 19114 1k5hA 398 3.41e+00 a.69.3.1 68192 c.2.1.3 68193 d.81.1.3 68194 2tmnE 316 3.47e+00 1hyt d.92.1.2 59055 1gk4C 84 3.54e+00 h.1.20.1 70205 6tmnE 316 3.59e+00 1hyt d.92.1.2 59071 8tlnE 316 3.59e+00 1hyt d.92.1.2 59075 1hyt 316 3.59e+00 1hyt d.92.1.2 59005 1ufhA 180 3.65e+00 d.108.1.1 88485 1qc7A 101 3.89e+00 1qc7A a.118.14.1 18456 1iznA 286 3.94e+00 e.43.1.1 83847 1hr6A 475 4.00e+00 1hr6A d.185.1.1 61164 d.185.1.1 61165 1e1dA 553 4.03e+00 1e1dA e.26.1.1 43363 1fo3A 460 4.30e+00 1dl2A a.102.2.1 18845 1a8h 500 4.36e+00 1a8h a.27.1.1 16922 c.26.1.1 31589 1m33A 258 4.38e+00 c.69.1.26 78514 1g73A 162 4.52e+00 1fewA a.7.4.1 16332 1r71A 178 4.83e+00 1odoA 408 5.02e+00 a.104.1.1 -1463 2occE 109 5.16e+00 2occE a.118.11.1 19224 1o0uA 429 5.20e+00 c.118.1.1 80743 1hu4A 288 5.20e+00 1hu4A 1n5dA 288 5.20e+00 c.2.1.2 80030 1dm5A 315 5.34e+00 1avc a.65.1.1 18186 1gxqA 106 5.39e+00 a.4.6.1 70721 1i7wA 538 5.56e+00 3bct a.118.1.1 61909 1v54E 109 5.61e+00 a.118.11.1 -1652 1b0nB 57 5.71e+00 1b0nB a.34.1.1 17002 1hbnA 549 5.72e+00 1mroA a.89.1.1 60898 d.58.31.2 60899 1jvsA 400 5.86e+00 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1iatA 557 6.04e+00 1dqrA c.80.1.2 62123 1mroA 548 6.20e+00 1mroA a.89.1.1 18525 d.58.31.2 39443 1j7iA 264 6.28e+00 1j7iA d.144.1.6 62694 1ofcX 304 6.37e+00 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 1or7A 194 6.49e+00 a.4.13.2 87332 a.177.1.1 87333 1rqjA 299 6.51e+00 a.128.1.1 -1774 2abk 211 6.56e+00 2abk a.96.1.1 18743 1muyA 225 7.12e+00 1mun a.96.1.2 18745 1f07A 321 7.13e+00 1ezwA c.1.16.3 59560 1s35A 214 7.28e+00 a.7.1.1 -391 a.7.1.1 -392 1rw2A 152 7.35e+00 unknown_sccs -1645 3bct 457 7.35e+00 3bct a.118.1.1 19112 1gk4D 84 7.56e+00 h.1.20.1 70206 1no4A 97 7.58e+00 h.1.24.1 85918 1i27A 73 7.60e+00 1i27A a.4.5.30 61555 1mun 225 7.78e+00 1mun a.96.1.2 18744 1hm5A 558 7.87e+00 c.80.1.2 76717 1m7vA 363 7.90e+00 d.174.1.1 78748 1qwoA 442 7.94e+00 1rh5C 53 7.96e+00 unknown_sccs -12204 3sdhA 146 7.99e+00 3sdhA a.1.1.2 14984 1s3jA 155 7.99e+00 a.4.5.28 -227 1qb2A 109 8.37e+00 1qb2A a.36.1.1 17125 1kyqA 274 8.43e+00 c.2.1.11 73281 e.37.1.1 73282 1f88A 348 8.55e+00 1f88A f.13.1.2 43429 1d1dA 262 8.58e+00 1d1dA a.28.3.1 16958 a.73.1.1 18335 1j97A 211 8.59e+00 1f5sA c.108.1.4 62753 1f5sA 211 8.59e+00 1f5sA c.108.1.4 59656 1l7mA 211 8.61e+00 c.108.1.4 73664 6cts 433 8.70e+00 1csh a.103.1.1 18891 1fm2A 169 8.81e+00 1fm2A d.153.1.2 59877 1jmeA 455 8.88e+00 a.104.1.1 66885 1keaA 221 8.93e+00 a.96.1.2 68491 1or0A 160 8.99e+00 d.153.1.2 -11415 1vkmA 297 9.06e+00 1kpsB 171 9.23e+00 a.118.12.1 68787 1hzxA 349 9.26e+00 1f88A f.13.1.2 61466 1iawA 317 9.40e+00 c.52.1.9 62126 1kkhA 317 9.41e+00 d.14.1.5 72645 d.58.26.3 72646 1dl2A 511 9.41e+00 1dl2A a.102.2.1 18844 1hiwA 133 9.49e+00 1hiwA a.61.1.1 18122 1m6kA 251 9.52e+00 e.3.1.1 78695 1hlb 158 9.57e+00 1hlb a.1.1.2 15625 1el4A 195 9.66e+00 1ej3A a.39.1.5 59453 1hta 69 9.67e+00 1a7w a.22.1.2 16476 1oq9A 363 9.71e+00 a.25.1.2 87257 1lc0A 294 9.91e+00 c.2.1.3 73823 d.81.1.4 73824 1kw4A 89 1.02e+01 a.60.1.2 73077 1gxyA 226 1.03e+01 d.166.1.3 76380 1kx5A 135 1.04e+01 a.22.1.1 77593 1mzgA 146 1.05e+01 d.224.1.1 79696 1n0uA 842 1.06e+01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1l9hA 349 1.10e+01 f.13.1.2 73720 1fyhA 258 1.12e+01 1d9cA a.26.1.3 16907 a.26.1.3 16908 1gcuA 295 1.15e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1dqrA 557 1.16e+01 1dqrA c.80.1.2 35305 1ornA 226 1.17e+01 a.96.1.1 87342 1sr7A 259 1.18e+01 1dqsA 393 1.18e+01 1dqsA e.22.1.1 43347 1b4pA 217 1.20e+01 a.45.1.1 83158 c.47.1.5 83159 1ursA 402 1.23e+01 c.94.1.1 -8651 1ht9A 76 1.25e+01 4icb a.39.1.1 61252 1dd5A 185 1.26e+01 1dd5A d.67.3.1 39564 1ev7B 317 1.29e+01 1ev7B c.52.1.9 33316 2mhr 118 1.29e+01 2mhr a.24.4.1 16581 1em9A 154 1.30e+01 1d1dA a.73.1.1 18333 1kl1A 419 1.32e+01 c.67.1.4 72663 1gk4A 84 1.33e+01 h.1.20.1 70203 1hq3D 103 1.33e+01 1aoiB a.22.1.1 16464 1jq5A 370 1.36e+01 e.22.1.2 67084 1jqaA 370 1.36e+01 e.22.1.2 67085 1afrA 345 1.37e+01 1afrA a.25.1.2 16805 1fkx 349 1.40e+01 1a4mA c.1.9.1 29018 1uedA 406 1.40e+01 a.104.1.1 -1459 1jf2A 195 1.42e+01 1ej3A a.39.1.5 62930 1csh 435 1.44e+01 1csh a.103.1.1 18880 1rfmA 344 1.44e+01 c.122.1.1 -8032 1tgoA 773 1.45e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1f24A 402 1.46e+01 1rom a.104.1.1 18953 1amz 435 1.47e+01 1csh a.103.1.1 18884 1rom 403 1.49e+01 1rom a.104.1.1 18963 1us6A 102 1.49e+01 1ukfA 188 1.54e+01 unknown_sccs -8886 1a28A 256 1.57e+01 1a28A a.123.1.1 19290 1j8yF 297 1.57e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1j8mF 297 1.58e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1ah7 245 1.58e+01 1ah7 a.124.1.1 19339 1l4aD 87 1.60e+01 h.1.15.1 73562 1hq3C 136 1.62e+01 1aoiA a.22.1.1 16454 1d9cA 121 1.63e+01 1d9cA a.26.1.3 16901 3tmkA 216 1.64e+01 3tmkA c.37.1.1 31920 1khdA 345 1.64e+01 a.46.2.1 77400 c.27.1.1 77401 1cmnA 402 1.68e+01 1rom a.104.1.1 18958 1jfbA 404 1.69e+01 a.104.1.1 66624 2tmkA 216 1.69e+01 3tmkA c.37.1.1 31928 1dceA 567 1.69e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1q3eA 207 1.72e+01 b.82.3.2 -4922 1eqcA 394 1.77e+01 1cz1A c.1.8.3 28811 1qlaC 256 1.77e+01 1qlaC f.21.2.1 43722 1eu8A 409 1.79e+01 1eu8A c.94.1.1 59502 1binA 143 1.79e+01 2gdm a.1.1.2 15231 1kx5B 102 1.82e+01 a.22.1.1 77594 1aoiF 87 1.83e+01 1aoiB a.22.1.1 16471 4rnpA 883 1.83e+01 1cezA e.8.1.3 43113 1ay7B 89 1.84e+01 1ay7B c.9.1.1 30836 1uddA 226 1.84e+01 1brsD 89 1.84e+01 1ay7B c.9.1.1 30825 1j2jB 45 1.86e+01 a.7.8.1 84017 1add 349 1.86e+01 1a4mA c.1.9.1 29020 1a4mA 349 1.87e+01 1a4mA c.1.9.1 29014 1kkjA 419 1.87e+01 c.67.1.4 72647 1aoiB 87 1.89e+01 1aoiB a.22.1.1 16470 1rfzA 168 1.93e+01 unknown_sccs -1206 1ljrA 244 1.95e+01 1ljrA a.45.1.1 17707 c.47.1.5 33001 1kzhA 555 1.96e+01 c.89.1.1 73361 1lwdA 413 2.00e+01 c.77.1.1 78265 1k30A 368 2.05e+01 c.112.1.1 68067 1np3A 338 2.07e+01 a.100.1.2 85946 c.2.1.6 85947 1giqA 413 2.08e+01 d.166.1.1 76224 d.166.1.1 76225 1colA 204 2.09e+01 1a87 f.1.1.1 43378 1mijA 152 2.11e+01 a.4.1.1 79150 1aoiA 116 2.17e+01 1aoiA a.22.1.1 16462 1hu3A 260 2.20e+01 1hu3A unknown_sccs 19137 1sedA 117 2.21e+01 1cz1A 394 2.21e+01 1cz1A c.1.8.3 28839 1g2nA 264 2.26e+01 1lbd a.123.1.1 60227 1pw4A 451 2.27e+01 unknown_sccs -12259 1b2sD 90 2.31e+01 1ay7B c.9.1.1 30837 1hy0A 466 2.31e+01 1auwA a.127.1.1 61392 1uw4B 248 2.31e+01 unknown_sccs -1560 1q59A 172 2.32e+01 f.1.4.1 -12062 1hekA 131 2.34e+01 a.61.1.5 65818 1a8b 318 2.36e+01 1avc a.65.1.1 18171 1ikpA 613 2.40e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1m5yA 408 2.40e+01 a.167.1.1 78664 d.26.1.1 78665 d.26.1.1 78666 1iuqA 367 2.41e+01 c.112.1.1 -8440 1pmnA 364 2.43e+01 d.144.1.7 -11297 1ni4A 365 2.43e+01 c.36.1.7 85728 1dc1A 323 2.43e+01 1dc1A c.52.1.11 33321 6gsvA 217 2.47e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 1izoA 417 2.51e+01 a.104.1.1 83851 1hvd 319 2.52e+01 1avc a.65.1.1 18154 1hzfA 367 2.52e+01 a.102.4.4 76731 1ltdA 506 2.57e+01 1gox c.1.4.1 28618 d.120.1.1 41086 1qwiA 143 2.61e+01 d.227.1.1 -11183 1jgsA 138 2.62e+01 a.4.5.28 66683 1nw1A 429 2.62e+01 d.144.1.8 86286 1jplA 171 2.62e+01 a.118.9.2 67027 1pq1A 196 2.64e+01 f.1.4.1 -12055 1jwgA 147 2.65e+01 a.118.9.2 71911 1nu5A 370 2.65e+01 c.1.11.2 -5565 d.54.1.1 -9823 1io7A 368 2.66e+01 1f4tA a.104.1.1 18971 1ujkA 147 2.67e+01 a.118.9.2 -1623 1avc 673 2.67e+01 1avc a.65.1.1 18178 a.65.1.1 18179 1a8a 318 2.75e+01 1avc a.65.1.1 18169 2ran 316 2.80e+01 1avc a.65.1.1 18170 1ca1 370 2.82e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1j6rA 214 2.82e+01 d.173.1.2 71598 1k04A 162 2.82e+01 a.24.14.1 67904 1fzaB 328 2.86e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1qcwA 410 2.88e+01 1gox c.1.4.1 28622 1us7B 265 2.90e+01 unknown_sccs -1518 1lshA 1056 2.91e+01 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1reoA 486 2.91e+01 c.3.1.2 -5997 d.16.1.5 -9217 1kf6B 243 2.92e+01 a.1.2.1 72397 d.15.4.2 72398 1fcbA 511 2.93e+01 1gox c.1.4.1 28620 d.120.1.1 41087 1bjt 793 3.00e+01 1bjt e.11.1.1 43249 1j7rA 86 3.02e+01 1j7rA a.39.1.5 62701 1fqvJ 149 3.03e+01 1fqvD a.157.1.1 19266 d.42.1.1 38670 1fqvD 149 3.04e+01 1fqvD a.157.1.1 19263 d.42.1.1 38667 1k1vA 41 3.05e+01 a.37.1.1 71999 1o1yA 239 3.05e+01 c.23.16.1 86554 1qsdA 106 3.05e+01 1qsdA a.7.5.1 16335 1kvkA 395 3.06e+01 d.14.1.5 73060 d.58.26.3 73061 1rjdA 334 3.06e+01 unknown_sccs -8079 1kbjA 412 3.07e+01 c.1.4.1 72280 1dlc 584 3.07e+01 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1neyA 247 3.09e+01 c.1.1.1 80449 1av1A 201 3.12e+01 1av1A h.5.1.1 45796 5eat 548 3.16e+01 5eat a.102.4.1 18853 a.128.1.3 19445 1nogA 177 3.19e+01 a.25.2.2 85923 7timA 247 3.24e+01 1amk c.1.1.1 28457 1fchA 368 3.26e+01 1fchA a.118.8.1 19212 1k75A 434 3.27e+01 c.82.1.2 68253 1hh2P 344 3.28e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1r9dA 787 3.28e+01 1q53A 112 3.33e+01 d.58.4.4 -9944 1mfqC 129 3.34e+01 a.36.1.1 79046 5eau 548 3.34e+01 5eat a.102.4.1 18851 a.128.1.3 19443 1koyA 62 3.36e+01 a.164.1.1 77478 1kv9A 668 3.37e+01 a.3.1.6 73056 b.70.1.1 73057 1gwcA 230 3.37e+01 a.45.1.1 70660 c.47.1.5 70661 1ewqA 765 3.40e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1bfmA 69 3.44e+01 1a7w a.22.1.2 16479 1gox 370 3.45e+01 1gox c.1.4.1 28607 1ifl 53 3.48e+01 1ifi h.1.4.1 45566 1i45A 248 3.49e+01 1amk c.1.1.1 61665 1g6uA 48 3.50e+01 1g6uA k.9.1.1 46425 1px5A 349 3.51e+01 unknown_sccs -1139 unknown_sccs -9793 1knvA 293 3.53e+01 c.52.1.7 68707 1q4rA 112 3.54e+01 d.58.4.4 -9943 1sig 339 3.59e+01 1sig a.177.1.1 19068 1ev7A 317 3.60e+01 1ev7B c.52.1.9 33315 1srqA 341 3.64e+01 1fewA 184 3.66e+01 1fewA a.7.4.1 16334 1anxA 319 3.70e+01 1avc a.65.1.1 18161 1e4iA 447 3.71e+01 1e70M c.1.8.4 59225 1spgA 144 3.75e+01 1abwA a.1.1.2 15409 1qhtA 775 3.75e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1v54I 73 3.79e+01 f.23.3.1 -12108 1uurA 473 3.82e+01 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632 1pf5A 131 3.82e+01 d.79.1.1 -10368 1skyB 502 3.89e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1lfkA 398 3.93e+01 a.104.1.1 77926 1h97A 147 3.96e+01 1h97A a.1.1.2 60812 1or7C 90 3.98e+01 a.180.1.1 87336 1rypJ 204 3.98e+01 d.153.1.4 41878