# 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 1q4mA 221 1.16e-01 unknown_sccs -1910 1pq1A 196 1.89e-01 f.1.4.1 -12055 1bxlA 181 2.36e-01 1maz f.1.4.1 43396 1h5uA 842 3.20e-01 1a8i c.87.1.4 60655 1nrfA 262 3.20e-01 e.3.1.1 -11780 1rqjA 299 3.39e-01 a.128.1.1 -1774 1jcrA 377 4.73e-01 a.118.6.1 66506 1c8kA 842 4.86e-01 1a8i c.87.1.4 35491 2bidA 197 6.64e-01 2bidA f.1.4.1 43398 1hg2A 289 7.23e-01 1hg5A unknown_sccs -401 unknown_sccs -1630 1jf0A 195 8.31e-01 1ej3A a.39.1.5 62926 1ld8A 382 8.68e-01 a.118.6.1 73838 1a8i 842 8.74e-01 1a8i c.87.1.4 35490 1t7pA 698 8.91e-01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1jcqA 382 8.93e-01 a.118.6.1 66504 1af3 196 9.25e-01 1maz f.1.4.1 43397 1d8dA 377 1.10e+00 1ft1A a.118.6.1 19185 1l2iA 261 1.12e+00 a.123.1.1 73503 1gpb 842 1.16e+00 1a8i c.87.1.4 35478 1mgn 154 1.24e+00 1a6m a.1.1.2 15097 1ft1A 377 1.29e+00 1ft1A a.118.6.1 19186 1qv1A 195 1.35e+00 a.39.1.5 -830 1ezwA 349 1.39e+00 1ezwA c.1.16.3 29558 1kn1A 160 1.55e+00 a.1.1.3 77455 1el4A 195 1.62e+00 1ej3A a.39.1.5 59453 1hf8A 289 1.71e+00 1hg5A unknown_sccs -399 unknown_sccs -1628 2spo 154 1.83e+00 1a6m a.1.1.2 15053 1bzpA 153 1.85e+00 1a6m a.1.1.2 15020 1miwA 404 1.91e+00 a.173.1.1 79162 d.218.1.4 79163 1tbmA 326 1.95e+00 1n97A 389 1.98e+00 a.104.1.1 80335 3erdA 261 2.14e+00 3erdA a.123.1.1 19293 3ertA 261 2.33e+00 3erdA a.123.1.1 19292 1qbqA 333 2.34e+00 1ft1A a.118.6.1 19187 1hg4A 279 2.47e+00 1lbd a.123.1.1 19333 1rfmA 344 2.57e+00 c.122.1.1 -8032 1l6nA 289 2.62e+00 a.61.1.1 73624 a.73.1.1 73625 1j9aA 184 2.65e+00 c.55.3.5 84135 1cnt1 187 2.85e+00 1cnt3 1mhyB 395 2.98e+00 1mtyB a.25.1.2 16781 1evsA 187 3.01e+00 1evsA a.26.1.1 16845 1cnt3 187 3.36e+00 1cnt3 1foeA 377 3.41e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 1ddbA 195 3.48e+00 1ddbA f.1.4.1 43399 1qcrC 378 3.49e+00 1be3C f.32.1.1 75931 f.21.1.2 75932 1flcB 175 3.58e+00 1flcB h.3.1.1 45716 1csc 433 3.69e+00 1csh a.103.1.1 18886 1jf2A 195 3.72e+00 1ej3A a.39.1.5 62930 1l7vA 326 3.78e+00 f.22.1.1 73672 1v92A 46 3.83e+00 a.5.2.3 -357 1iwgA 1053 4.05e+00 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 1maz 221 4.06e+00 1maz f.1.4.1 43393 1cnt2 187 4.07e+00 1cnt3 1allA 160 4.31e+00 1qgwC a.1.1.3 15647 1hg5A 289 4.48e+00 1hg5A unknown_sccs -400 unknown_sccs -1629 1amz 435 4.59e+00 1csh a.103.1.1 18884 1ks8A 433 4.63e+00 a.102.1.2 77519 1csh 435 4.63e+00 1csh a.103.1.1 18880 1ihgA 370 4.64e+00 2cpl a.118.8.1 62380 b.62.1.1 62381 1n00A 321 4.71e+00 a.65.1.1 85241 1mldA 314 4.75e+00 2cmd c.2.1.5 30122 d.162.1.1 42089 1jdc 429 5.09e+00 1jdc b.71.1.1 27789 c.1.8.1 28776 1vk3A 615 5.10e+00 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1cg5A 141 5.30e+00 1abwA a.1.1.2 15406 1lh1 153 5.59e+00 2gdm a.1.1.2 15222 2lh2 153 5.59e+00 2gdm a.1.1.2 15220 1gdj 153 5.61e+00 2gdm a.1.1.2 15213 1fjgM 126 5.63e+00 1fjfM a.156.1.1 16293 1dbhA 354 5.74e+00 1awe a.87.1.1 18514 b.55.1.1 26967 1i7wA 538 5.86e+00 3bct a.118.1.1 61909 2gdm 153 6.40e+00 2gdm a.1.1.2 15212 1k4wA 252 6.71e+00 a.123.1.1 72068 6cts 433 7.01e+00 1csh a.103.1.1 18891 1be3C 379 7.03e+00 1be3C f.32.1.1 75805 f.21.1.2 75806 1lrzA 426 7.04e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1nq7A 244 7.16e+00 a.123.1.1 -1682 1ash 150 7.26e+00 1ash a.1.1.2 15622 1f3aA 222 7.27e+00 1pgtA a.45.1.1 17701 c.47.1.5 32995 1kx9A 112 7.31e+00 unknown_sccs 77602 1n0uA 842 7.43e+00 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 1ka3A 90 7.49e+00 a.150.1.1 72239 1fnnA 389 7.82e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1n46A 258 7.88e+00 a.123.1.1 85315 1yveJ 524 8.44e+00 1qmgA a.100.1.2 18790 c.2.1.6 30187 1iwhB 146 8.53e+00 a.1.1.2 76883 1ua4A 455 8.57e+00 c.72.1.3 -8416 1ez3A 127 8.85e+00 1dn1B a.47.2.1 17768 1kgnA 329 8.87e+00 a.25.1.2 68584 1qmgA 524 9.26e+00 1qmgA a.100.1.2 18785 c.2.1.6 30182 1pieA 419 9.74e+00 d.14.1.5 -9075 unknown_sccs -10120 1huw 166 9.88e+00 1huw a.26.1.1 16831 1qazA 351 9.93e+00 1qazA a.102.3.1 18848 1ca1 370 1.02e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1tys 265 1.03e+01 1bkpA d.117.1.1 40937 1mbd 153 1.03e+01 1a6m a.1.1.2 15033 1q8iA 783 1.07e+01 c.55.3.5 -7635 e.8.1.1 -11885 1eh8A 207 1.10e+01 1sfe a.4.2.1 16077 c.55.7.1 33752 1c3jA 351 1.15e+01 1c3jA c.87.1.1 35459 2bgu 351 1.15e+01 1c3jA c.87.1.1 35460 1jg7A 351 1.16e+01 1c3jA c.87.1.1 62945 1hiwA 133 1.16e+01 1hiwA a.61.1.1 18122 1a6m 151 1.17e+01 1a6m a.1.1.2 15018 1qntA 176 1.17e+01 1sfe a.4.2.1 16074 c.55.7.1 33749 1odoA 408 1.17e+01 a.104.1.1 -1463 1jixA 351 1.17e+01 1c3jA c.87.1.1 63081 1bu7A 455 1.18e+01 1bu7A a.104.1.1 18937 1mumA 295 1.20e+01 c.1.12.7 85108 1j7yB 146 1.24e+01 a.1.1.2 66427 1ow4A 129 1.24e+01 a.39.2.1 -876 1h8eA 510 1.26e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1gcyA 527 1.27e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 2tscA 264 1.28e+01 1bkpA d.117.1.1 40952 1h5zA 455 1.29e+01 a.104.1.1 -1456 1yveI 524 1.39e+01 1qmgA a.100.1.2 18789 c.2.1.6 30186 1oc2A 348 1.42e+01 c.2.1.2 -5753 1aj3 110 1.42e+01 1cunA a.7.1.1 16319 1e79A 510 1.43e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1eh7A 207 1.48e+01 1sfe a.4.2.1 16075 c.55.7.1 33750 1dxtB 147 1.48e+01 1abwA a.1.1.2 15450 1gnlA 544 1.48e+01 e.26.1.1 70287 1babB 146 1.49e+01 1abwA a.1.1.2 15414 1bmfA 510 1.49e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1ogsA 497 1.50e+01 b.71.1.2 86997 c.1.8.3 86998 1cqxA 403 1.51e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1ng6A 148 1.51e+01 a.182.1.1 85670 1fd9A 213 1.57e+01 1fd9A d.26.1.1 59771 1clc 639 1.61e+01 1clc a.102.1.2 18835 b.1.18.2 21872 2bmhA 455 1.65e+01 1bu7A a.104.1.1 18941 1hm6A 346 1.69e+01 1avc a.65.1.1 18147 1pq9A 253 1.71e+01 a.123.1.1 -1687 1gm7A 209 1.74e+01 d.153.1.2 65302 1aijL 281 1.74e+01 6prcL f.26.1.1 43461 1k9dA 679 1.78e+01 c.1.8.10 77292 d.92.2.2 77293 1l8nA 679 1.80e+01 c.1.8.10 84564 d.92.2.2 84565 2abk 211 1.86e+01 2abk a.96.1.1 18743 1hbzA 498 1.89e+01 1cf9A e.5.1.1 60937 1s9pA 227 1.89e+01 1uaaA 673 1.90e+01 1pjr c.37.1.19 32401 c.37.1.19 32402 1gweA 503 1.93e+01 e.5.1.1 70667 1bouA 139 1.98e+01 1bouA a.88.1.1 18521 1iygA 133 2.02e+01 a.118.8.1 76947 1ej3A 191 2.02e+01 1ej3A a.39.1.5 17259 1fcbA 511 2.03e+01 1gox c.1.4.1 28620 d.120.1.1 41087 1g9zA 152 2.05e+01 1bp7A d.95.2.1 60408 1n4kA 381 2.07e+01 unknown_sccs 79992 b.42.6.1 79993 1qtrA 317 2.13e+01 1qtrA c.69.1.7 34660 1n8vA 112 2.14e+01 unknown_sccs 85457 1phk 298 2.16e+01 1cdkA d.144.1.7 41635 1r88A 280 2.16e+01 c.69.1.3 -8298 7aatA 401 2.17e+01 1ajsA c.67.1.1 34250 7catA 506 2.23e+01 1cf9A e.5.1.1 42781 1ah7 245 2.23e+01 1ah7 a.124.1.1 19339 1upkA 341 2.24e+01 unknown_sccs -1565 1kbjA 412 2.26e+01 c.1.4.1 72280 1hkcA 917 2.31e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1qs1A 462 2.33e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1eh6A 207 2.36e+01 1sfe a.4.2.1 16076 c.55.7.1 33751 1klo 162 2.43e+01 1klo g.3.11.2 44326 g.3.11.2 44327 g.3.11.2 44328 1e8eA 124 2.45e+01 a.3.1.1 64795 1rzhL 281 2.45e+01 f.26.1.1 -12215 1vj7A 393 2.56e+01 unknown_sccs -1265 unknown_sccs -9814 1ea1A 455 2.60e+01 1ea1A a.104.1.1 18970 1umvX 122 2.62e+01 a.133.1.2 -1994 1irdB 146 2.62e+01 a.1.1.2 66287 1b4cA 92 2.63e+01 1b4cA a.39.1.2 17169 1jnrA 643 2.65e+01 a.7.3.1 66966 c.3.1.4 66967 d.168.1.1 66968 1hjp 203 2.71e+01 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1otvA 259 2.74e+01 unknown_sccs -1915 1eg5A 384 2.78e+01 1ecxA c.67.1.3 34429 1cii 602 2.78e+01 1cii f.1.1.1 43381 h.4.3.1 45787 1on2A 142 2.80e+01 a.4.5.24 87103 a.76.1.1 87104 1ci9A 392 2.80e+01 e.3.1.1 64767 1li5A 461 2.86e+01 a.27.1.1 73912 c.26.1.1 73913 1ci8A 392 2.88e+01 e.3.1.1 64765 1evfA 264 2.88e+01 1bkpA d.117.1.1 40932 1nm8A 616 2.88e+01 c.43.1.3 85872 c.43.1.3 85873 1r9lA 309 2.89e+01 c.94.1.1 -8700 1ltdA 506 2.93e+01 1gox c.1.4.1 28618 d.120.1.1 41086 1aorA 605 2.94e+01 1b25A a.110.1.1 19042 d.152.1.1 41794 1e6qM 501 2.97e+01 1e70M c.1.8.4 28920 1or0A 160 2.98e+01 d.153.1.2 -11415 1oyeA 1049 2.98e+01 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1htjF 210 2.99e+01 1htjF a.91.1.1 61254 1gmjA 84 3.00e+01 h.4.8.1 65310 1l1jA 239 3.06e+01 b.47.1.1 84516 1b4uA 139 3.09e+01 1bouA a.88.1.1 18523 1dn1B 267 3.09e+01 1dn1B a.47.2.1 17771 1e3aA 260 3.09e+01 1ajqA d.153.1.2 41838 1hkbA 917 3.11e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1qqqA 264 3.14e+01 1bkpA d.117.1.1 40931 1k8kG 151 3.21e+01 a.118.13.1 68313 1ecxA 384 3.23e+01 1ecxA c.67.1.3 34431 1f16A 192 3.24e+01 1f16A f.1.4.1 43400 1vom 762 3.26e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 1id3B 102 3.26e+01 a.22.1.1 66113 1qmqA 414 3.28e+01 1phd a.104.1.1 18907 2cmd 312 3.28e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1e4mM 501 3.29e+01 1e70M c.1.8.4 59226 1e70M 501 3.29e+01 1e70M c.1.8.4 28926 1ajqA 209 3.29e+01 1ajqA d.153.1.2 41840 1fu1B 203 3.33e+01 1fu1B b.59.1.1 27077 h.1.11.1 45631 1s5lB 510 3.38e+01 1nznA 126 3.38e+01 a.118.8.1 -1616 1h97A 147 3.43e+01 1h97A a.1.1.2 60812 1lvk 762 3.43e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1ai7A 209 3.49e+01 1ajqA d.153.1.2 41845 3bct 457 3.49e+01 3bct a.118.1.1 19112 1qsaA 618 3.50e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 1dceB 331 3.51e+01 1dceB a.102.4.3 18872 1rwyA 109 3.52e+01 a.39.1.4 -825 1ssqA 267 3.53e+01 1po5A 476 3.57e+01 a.104.1.1 -1467 1ldjA 760 3.58e+01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1blu 82 3.58e+01 2fdn d.58.1.1 38948 1ux5A 411 3.59e+01 unknown_sccs -1768 1q0gA 117 3.68e+01 1mplA 349 3.69e+01 e.3.1.1 79387 1jfaA 374 3.76e+01 a.128.1.5 66622 1hwxA 501 3.79e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1i7gA 287 3.83e+01 a.123.1.1 71121 1p9sA 300 3.85e+01 b.47.1.4 87999 1gmyA 261 3.87e+01 d.3.1.1 76236 1br0A 120 3.89e+01 a.47.2.1 17772 1a0fA 201 3.90e+01 1a0fA a.45.1.1 17737 c.47.1.5 33031 1oj6A 151 3.90e+01 a.1.1.2 -85 1i3dA 146 3.92e+01 a.1.1.2 61587 1ik9A 213 3.92e+01 b.59.1.1 66176 h.1.11.1 66177 1q06A 135 3.94e+01 a.6.1.3 -375 1fobA 334 3.96e+01 c.1.8.3 83255 1top 162 3.99e+01 1ncx a.39.1.5 17223