# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1jcrA 377 2.15e-01 a.118.6.1 66506 1jcqA 382 2.24e-01 a.118.6.1 66504 1ld8A 382 2.24e-01 a.118.6.1 73838 1d8dA 377 4.16e-01 1ft1A a.118.6.1 19185 1qbqA 333 4.86e-01 1ft1A a.118.6.1 19187 1hg2A 289 5.96e-01 1hg5A unknown_sccs -401 unknown_sccs -1630 1ft1A 377 7.02e-01 1ft1A a.118.6.1 19186 1pq1A 196 7.64e-01 f.1.4.1 -12055 1hf8A 289 8.02e-01 1hg5A unknown_sccs -399 unknown_sccs -1628 1q4mA 221 8.05e-01 unknown_sccs -1910 1t7pA 698 1.10e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1nrfA 262 1.16e+00 e.3.1.1 -11780 1bxlA 181 1.26e+00 1maz f.1.4.1 43396 1rqjA 299 1.31e+00 a.128.1.1 -1774 1hg5A 289 1.40e+00 1hg5A unknown_sccs -400 unknown_sccs -1629 1kn1A 160 1.50e+00 a.1.1.3 77455 1af3 196 2.02e+00 1maz f.1.4.1 43397 1miwA 404 2.03e+00 a.173.1.1 79162 d.218.1.4 79163 1ks8A 433 2.60e+00 a.102.1.2 77519 2bidA 197 2.76e+00 2bidA f.1.4.1 43398 1i7wA 538 3.22e+00 3bct a.118.1.1 61909 1jf0A 195 3.24e+00 1ej3A a.39.1.5 62926 1maz 221 3.63e+00 1maz f.1.4.1 43393 1gpb 842 3.84e+00 1a8i c.87.1.4 35478 1lrzA 426 3.96e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1l2iA 261 4.10e+00 a.123.1.1 73503 1f3aA 222 4.23e+00 1pgtA a.45.1.1 17701 c.47.1.5 32995 3bct 457 4.69e+00 3bct a.118.1.1 19112 3ertA 261 4.94e+00 3erdA a.123.1.1 19292 1c8kA 842 5.00e+00 1a8i c.87.1.4 35491 3erdA 261 5.30e+00 3erdA a.123.1.1 19293 1evsA 187 5.46e+00 1evsA a.26.1.1 16845 1qv1A 195 5.76e+00 a.39.1.5 -830 1flcB 175 5.96e+00 1flcB h.3.1.1 45716 1g3jA 532 6.46e+00 3bct a.118.1.1 19114 1dbhA 354 6.62e+00 1awe a.87.1.1 18514 b.55.1.1 26967 1foeA 377 6.74e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 1ezwA 349 6.93e+00 1ezwA c.1.16.3 29558 1ua4A 455 7.25e+00 c.72.1.3 -8416 1qcrC 378 7.48e+00 1be3C f.32.1.1 75931 f.21.1.2 75932 1l6nA 289 7.60e+00 a.61.1.1 73624 a.73.1.1 73625 1el4A 195 7.84e+00 1ej3A a.39.1.5 59453 1cnt3 187 7.85e+00 1cnt3 1h5uA 842 8.37e+00 1a8i c.87.1.4 60655 1mswD 883 8.46e+00 e.8.1.3 79427 1rfmA 344 8.57e+00 c.122.1.1 -8032 1hg4A 279 8.67e+00 1lbd a.123.1.1 19333 1tbmA 326 8.83e+00 1cnt2 187 9.06e+00 1cnt3 1vk3A 615 9.30e+00 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1k9dA 679 9.42e+00 c.1.8.10 77292 d.92.2.2 77293 1n00A 321 9.68e+00 a.65.1.1 85241 1taq 832 1.02e+01 1taq a.60.7.1 18082 c.120.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1qo0D 196 1.02e+01 1qo0D c.23.1.3 31125 1l8nA 679 1.02e+01 c.1.8.10 84564 d.92.2.2 84565 1a8i 842 1.03e+01 1a8i c.87.1.4 35490 1ow4A 129 1.04e+01 a.39.2.1 -876 1aj3 110 1.06e+01 1cunA a.7.1.1 16319 1odfA 290 1.09e+01 c.37.1.6 -7045 1odoA 408 1.10e+01 a.104.1.1 -1463 1htjF 210 1.17e+01 1htjF a.91.1.1 61254 1e6qM 501 1.21e+01 1e70M c.1.8.4 28920 1hiwA 133 1.22e+01 1hiwA a.61.1.1 18122 1mhyB 395 1.29e+01 1mtyB a.25.1.2 16781 1cnt1 187 1.30e+01 1cnt3 1fcbA 511 1.33e+01 1gox c.1.4.1 28620 d.120.1.1 41087 1aihA 170 1.34e+01 1aihA d.163.1.1 42149 1jdhA 529 1.37e+01 a.118.1.1 66549 1avqA 228 1.40e+01 1avqA c.52.1.13 33326 1e70M 501 1.40e+01 1e70M c.1.8.4 28926 1e4mM 501 1.40e+01 1e70M c.1.8.4 59226 1be3C 379 1.44e+01 1be3C f.32.1.1 75805 f.21.1.2 75806 1bbhA 131 1.45e+01 1bbhA a.24.3.2 16546 1p9bA 442 1.52e+01 c.37.1.10 -7115 1v92A 46 1.53e+01 a.5.2.3 -357 1fjgM 126 1.58e+01 1fjfM a.156.1.1 16293 1ho8A 480 1.64e+01 1ho8A a.118.1.9 61107 1qs1A 462 1.73e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1huw 166 1.74e+01 1huw a.26.1.1 16831 1jf2A 195 1.74e+01 1ej3A a.39.1.5 62930 1iwgA 1053 1.79e+01 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1n46A 258 1.79e+01 a.123.1.1 85315 1ash 150 1.88e+01 1ash a.1.1.2 15622 1mv8A 436 1.90e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1aj8A 371 2.00e+01 1aj8A a.103.1.1 18900 1qo7A 394 2.01e+01 1qo7A c.69.1.11 34697 1umvX 122 2.05e+01 a.133.1.2 -1994 1ez3A 127 2.07e+01 1dn1B a.47.2.1 17768 1k4wA 252 2.11e+01 a.123.1.1 72068 1iv8A 720 2.11e+01 b.71.1.1 76842 c.1.8.1 76843 1ql3A 99 2.12e+01 1ycc a.3.1.1 15822 1eg5A 384 2.14e+01 1ecxA c.67.1.3 34429 1ihgA 370 2.15e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 1d9cA 121 2.25e+01 1d9cA a.26.1.3 16901 1qcwA 410 2.25e+01 1gox c.1.4.1 28622 1g9zA 152 2.28e+01 1bp7A d.95.2.1 60408 1imvA 398 2.31e+01 e.1.1.1 62591 1bp7A 152 2.32e+01 1bp7A d.95.2.1 40568 1fnnA 389 2.33e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1a32 88 2.35e+01 1a32 a.16.1.2 16384 1qjbA 245 2.44e+01 1qjaA a.118.7.1 19202 1iwhB 146 2.45e+01 a.1.1.2 76883 1a99A 344 2.53e+01 1pot c.94.1.1 35812 1n97A 389 2.60e+01 a.104.1.1 80335 1ltdA 506 2.69e+01 1gox c.1.4.1 28618 d.120.1.1 41086 1hkcA 917 2.72e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1hkbA 917 2.76e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1gm7A 209 2.77e+01 d.153.1.2 65302 1oc2A 348 2.81e+01 c.2.1.2 -5753 1kx9A 112 2.82e+01 unknown_sccs 77602 1czaN 917 2.83e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1r88A 280 2.84e+01 c.69.1.3 -8298 1kepA 348 2.86e+01 c.2.1.2 68536 1iygA 133 2.91e+01 a.118.8.1 76947 1nq7A 244 2.93e+01 a.123.1.1 -1682 1qkmA 255 2.96e+01 3erdA a.123.1.1 19309 1li5A 461 2.97e+01 a.27.1.1 73912 c.26.1.1 73913 1clc 639 2.97e+01 1clc a.102.1.2 18835 b.1.18.2 21872 1hwyA 501 3.13e+01 1hwyA c.2.1.7 30262 c.58.1.1 33910 1ecxA 384 3.21e+01 1ecxA c.67.1.3 34431 1dguA 183 3.25e+01 1dguA a.39.1.5 17333 1dk5A 322 3.26e+01 1dk5A a.65.1.1 18192 1m2oA 768 3.29e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1hwxA 501 3.31e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1ddbA 195 3.39e+01 1ddbA f.1.4.1 43399 1nf1A 333 3.40e+01 1nf1A a.116.1.2 19110 1vjs 483 3.40e+01 1bli b.71.1.1 27714 c.1.8.1 28701 1mldA 314 3.46e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1n0uA 842 3.47e+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 5cpp 414 3.49e+01 1phd a.104.1.1 18935 1q8iA 783 3.57e+01 c.55.3.5 -7635 e.8.1.1 -11885 1fd9A 213 3.62e+01 1fd9A d.26.1.1 59771 1dn1B 267 3.70e+01 1dn1B a.47.2.1 17771 1b4uA 139 3.84e+01 1bouA a.88.1.1 18523 1sr7A 259 3.86e+01 1allA 160 3.86e+01 1qgwC a.1.1.3 15647 1aisA 182 3.89e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1on2A 142 3.93e+01 a.4.5.24 87103 a.76.1.1 87104