# 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 1mkiA 330 3.41e-53 e.3.1.2 84994 1i2sA 282 5.83e-04 e.3.1.1 71104 4blmA 265 3.34e-03 1btl e.3.1.1 42721 1iysA 262 6.20e-03 e.3.1.1 -11760 1iyoA 262 6.81e-03 e.3.1.1 76970 1bza 262 8.08e-03 1btl e.3.1.1 42701 1ghpA 258 2.94e-02 1btl e.3.1.1 60520 1bsg 266 4.19e-02 1btl e.3.1.1 42729 1alq 266 6.09e-02 1btl e.3.1.1 42707 1pioA 257 7.64e-02 1btl e.3.1.1 42719 1pjjA 271 8.84e-02 1hzoA 271 9.80e-02 e.3.1.1 71092 1nnjA 271 1.60e-01 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1g6aA 271 2.08e-01 1btl e.3.1.1 42704 1n9bA 265 2.18e-01 e.3.1.1 85463 3blm 257 2.24e-01 1btl e.3.1.1 42709 1fw9A 164 2.29e-01 1fw9A d.190.1.1 60059 1bueA 265 2.53e-01 1btl e.3.1.1 42727 1qwlA 505 2.54e-01 e.5.1.1 -11823 1ouvA 273 3.65e-01 a.118.18.1 -1586 1n7oA 721 3.95e-01 a.102.3.2 80259 b.24.1.1 80260 b.30.5.2 80261 1m7sA 484 4.79e-01 e.5.1.1 74574 1btl 263 5.34e-01 1btl e.3.1.1 42691 1ermA 263 5.69e-01 1btl e.3.1.1 42690 1fqgA 263 5.72e-01 1btl e.3.1.1 42699 1lxkA 721 6.18e-01 a.102.3.2 74331 b.24.1.1 74332 b.30.5.2 74333 1m40A 263 6.37e-01 e.3.1.1 74437 1eguA 731 6.84e-01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1auiB 169 7.23e-01 1auiB a.39.1.5 17325 1dghB 498 7.29e-01 1cf9A e.5.1.1 42791 1dgfA 497 7.51e-01 1cf9A e.5.1.1 42782 1aq6A 253 7.97e-01 1qq5A c.108.1.1 43331 2bmhA 455 9.34e-01 1bu7A a.104.1.1 18941 7catA 506 9.46e-01 1cf9A e.5.1.1 42781 1qq7A 253 9.90e-01 1qq5A c.108.1.1 43329 1qq5A 253 1.01e+00 1qq5A c.108.1.1 43327 1fcyA 236 1.02e+00 2lbd a.123.1.1 19282 1oshA 232 1.14e+00 a.123.1.1 -1697 2lbd 267 1.19e+00 2lbd a.123.1.1 19287 1ei5A 520 1.19e+00 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1keyA 235 1.31e+00 a.118.16.1 72389 1j1jA 240 1.39e+00 a.118.16.1 -1637 1ncx 162 1.41e+00 1ncx a.39.1.5 17222 1top 162 1.41e+00 1ncx a.39.1.5 17223 4lbd 267 1.44e+00 2lbd a.123.1.1 19289 1volA 204 1.52e+00 1tfb a.74.1.2 18370 a.74.1.2 18371 1uw4B 248 1.57e+00 unknown_sccs -1560 2sqcA 631 1.81e+00 2sqcA a.102.4.2 18854 a.102.4.2 18855 1sqc 631 1.95e+00 2sqcA a.102.4.2 18858 a.102.4.2 18859 1n4oA 276 1.96e+00 e.3.1.1 -11764 1odoA 408 2.02e+00 a.104.1.1 -1463 1o7eA 276 2.05e+00 e.3.1.1 -11766 1is1A 185 2.11e+00 d.67.3.1 83704 1kbuA 349 2.11e+00 a.60.9.1 72284 d.163.1.1 72285 1hqoA 258 2.30e+00 1hqoA a.45.1.1 17749 c.47.1.5 33043 1e25A 282 2.34e+00 1e25A e.3.1.1 42731 1clc 639 2.50e+00 1clc a.102.1.2 18835 b.1.18.2 21872 1klxA 138 2.51e+00 a.118.18.1 77440 1hqvA 191 2.52e+00 1hqvA a.39.1.8 61160 1prgA 270 2.58e+00 2prgA a.123.1.1 19314 1cf9A 753 2.98e+00 1cf9A c.23.16.3 31441 e.5.1.1 42815 1fm9D 272 3.06e+00 2prgA a.123.1.1 19313 1pd21 199 3.08e+00 1pd21 1k82A 268 3.21e+00 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1jf0A 195 3.25e+00 1ej3A a.39.1.5 62926 1keaA 221 3.40e+00 a.96.1.2 68491 1mmoD 512 3.56e+00 1mhyD a.25.1.2 16770 3crxA 343 3.79e+00 4crxA a.60.9.1 18101 d.163.1.1 42161 1mtyD 512 3.83e+00 1mhyD a.25.1.2 16742 1ad1A 266 4.10e+00 1aj2 c.1.21.1 29668 1k0dA 260 4.20e+00 a.45.1.1 67930 c.47.1.5 67931 1p80A 753 4.24e+00 c.23.16.3 -6547 e.5.1.1 -11840 2bltA 361 4.30e+00 1gceA e.3.1.1 42739 1l1zA 274 4.33e+00 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1m7gA 211 4.99e+00 c.37.1.4 78724 1onhA 364 5.25e+00 e.3.1.1 -11769 1rgzA 363 5.45e+00 e.3.1.1 -11771 1gceA 364 5.78e+00 1gceA e.3.1.1 42738 1gweA 503 5.87e+00 e.5.1.1 70667 1e7uA 961 5.88e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1ga0A 364 5.96e+00 1gceA e.3.1.1 60410 1q2wA 308 6.17e+00 b.47.1.4 88355 1e8yA 966 6.42e+00 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1k1zA 78 6.50e+00 b.34.2.1 68026 1hbzA 498 6.51e+00 1cf9A e.5.1.1 60937 1gpr 162 6.67e+00 1gpr b.84.3.1 28267 1cqqA 180 6.67e+00 1cqqA b.47.1.4 26422 1teaA 299 6.75e+00 2prgA 271 7.05e+00 2prgA a.123.1.1 19311 1bcpD 110 8.05e+00 1bcpD b.40.2.1 25132 1d5rA 324 8.13e+00 1d5rA b.7.1.1 23181 c.45.1.1 32697 1k38A 254 8.21e+00 e.3.1.1 84303 1jpzA 473 8.29e+00 a.104.1.1 67069 16pk 415 8.53e+00 16pk c.86.1.1 35454 1q5dA 419 9.51e+00 a.104.1.1 -1454 1ne9A 335 9.67e+00 d.108.1.4 -10805 d.108.1.4 -10806 1bu7A 455 9.69e+00 1bu7A a.104.1.1 18937 1el4A 195 9.77e+00 1ej3A a.39.1.5 59453 1qv1A 195 9.79e+00 a.39.1.5 -830 1np3A 338 9.94e+00 a.100.1.2 85946 c.2.1.6 85947 1mfqC 129 9.99e+00 a.36.1.1 79046 1r2zA 274 1.00e+01 a.156.1.2 -370 b.113.1.1 -5094 g.39.1.8 -12748 1k4wA 252 1.05e+01 a.123.1.1 72068 1gcpA 70 1.06e+01 1gcpA b.34.2.1 60430 1nq7A 244 1.07e+01 a.123.1.1 -1682 1crxA 322 1.09e+01 4crxA a.60.9.1 18097 d.163.1.1 42157 1cby 259 1.12e+01 1cby d.103.1.1 40705 1afrA 345 1.15e+01 1afrA a.25.1.2 16805 1jpaA 312 1.23e+01 d.144.1.7 67011 1n91A 108 1.26e+01 d.206.1.1 80326 1na3A 91 1.27e+01 k.38.1.1 85481 1prtD 110 1.28e+01 1bcpD b.40.2.1 25128 4crxA 322 1.28e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1e8xA 961 1.30e+01 1e8xA a.118.1.6 19148 b.7.1.1 23183 d.15.1.5 37631 d.144.1.4 41711 1acf 125 1.31e+01 3nul d.110.1.1 40882 1lvfA 110 1.32e+01 a.47.2.1 74280 1ciy 590 1.37e+01 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1np7A 489 1.42e+01 a.99.1.1 80677 c.28.1.1 80678 1pi4A 358 1.45e+01 e.3.1.1 -11774 2blsA 358 1.47e+01 1gceA e.3.1.1 42747 1ucyE 109 1.48e+01 1ucyE 1fsyA 358 1.49e+01 1gceA e.3.1.1 60016 1b8dA 164 1.49e+01 1cpcA a.1.1.3 15665 1lmeA 176 1.50e+01 d.167.1.1 84629 1oq9A 363 1.56e+01 a.25.1.2 87257 1g3mA 294 1.56e+01 c.37.1.5 83268 1vhnA 318 1.56e+01 c.1.4.1 -5209 1hy3A 294 1.58e+01 c.37.1.5 71090 1fr1A 361 1.59e+01 1gceA e.3.1.1 42734 1fqvD 149 1.62e+01 1fqvD a.157.1.1 19263 d.42.1.1 38667 1fs1B 141 1.62e+01 1vcbB a.157.1.1 19252 d.42.1.1 38664 1vi9A 299 1.66e+01 c.72.1.5 -8393 1csmA 256 1.68e+01 5csmA a.130.1.2 19495 2nef 136 1.70e+01 1efnB d.102.1.1 40704 1fqvJ 149 1.70e+01 1fqvD a.157.1.1 19266 d.42.1.1 38670 1cx4A 305 1.71e+01 b.82.3.2 59099 b.82.3.2 59100 1g5pA 289 1.75e+01 1cp2A c.37.1.10 32253 1k28A 584 1.77e+01 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1wdcC 156 1.90e+01 1wdcC a.39.1.5 17317 1aquA 297 1.90e+01 1aquA c.37.1.5 31942 1spgA 144 1.92e+01 1abwA a.1.1.2 15409 1pbv 195 1.96e+01 1pbv a.118.3.1 19179 1i5nA 146 2.02e+01 1i5nA a.24.10.3 61805 1k8kG 151 2.03e+01 a.118.13.1 68313 1regX 122 2.04e+01 1regX d.58.27.1 39406 1apa 266 2.04e+01 1qi7A d.165.1.1 42205 1qlwA 328 2.06e+01 1qlwA c.69.1.15 34722 1vdkA 466 2.09e+01 a.127.1.1 -1752 2gwxA 267 2.09e+01 2prgA a.123.1.1 19323 1gxmA 332 2.09e+01 a.102.5.1 76371 1mxmA 254 2.10e+01 b.38.1.3 79647 d.58.43.1 79648 f.34.1.1 79649 1dfoA 417 2.15e+01 1bj4A c.67.1.4 34480 1j1qA 261 2.15e+01 d.165.1.1 -11546 1oyeA 1049 2.17e+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 1uwzA 136 2.22e+01 1mp1A 111 2.24e+01 unknown_sccs -996 1abv 134 2.26e+01 1abv a.70.1.1 18317 1kp0A 402 2.28e+01 c.55.2.1 72834 d.127.1.1 72835 1dceB 331 2.28e+01 1dceB a.102.4.3 18872 1s4kA 120 2.30e+01 1fa0A 537 2.31e+01 1fa0B a.160.1.1 75837 d.218.1.3 75838 d.58.16.1 39335 1gqaA 130 2.32e+01 a.24.3.2 76275 1omhA 293 2.36e+01 unknown_sccs -10527 1n83A 270 2.41e+01 a.123.1.1 80276 1g6wA 261 2.46e+01 1hqoA a.45.1.1 17751 c.47.1.5 33045 1q0rA 298 2.55e+01 unknown_sccs -8330 1n1cA 217 2.57e+01 a.184.1.1 85254 1qb2A 109 2.57e+01 1qb2A a.36.1.1 17125 1uocA 289 2.59e+01 unknown_sccs -7671 2prf 125 2.61e+01 3nul d.110.1.1 40887 1g0cA 364 2.61e+01 7a3hA c.1.8.3 60165 1n71A 180 2.61e+01 d.108.1.1 85370 1b87A 181 2.61e+01 1b87A d.108.1.1 40797 1ax4A 467 2.63e+01 1ax4A c.67.1.2 34391 2lgsA 468 2.66e+01 1lgr d.15.9.1 37838 d.128.1.1 41168 1lgr 468 2.66e+01 1lgr d.15.9.1 37837 d.128.1.1 41167 1uch 230 2.67e+01 1uch d.3.1.6 37129 1ngnA 155 2.68e+01 a.96.1.2 85697 1s5lB 510 2.68e+01 1on2A 142 2.72e+01 a.4.5.24 87103 a.76.1.1 87104 1dcs 311 2.72e+01 1dcs b.82.2.1 28124 1ckmA 330 2.74e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1v2zA 111 2.75e+01 1fuoA 467 2.78e+01 1furA a.127.1.1 19411 1furA 467 2.90e+01 1furA a.127.1.1 19403 1f9aA 168 2.91e+01 1f9aA c.26.1.3 31602 1iatA 557 2.96e+01 1dqrA c.80.1.2 62123 1h2sA 225 3.02e+01 f.13.1.1 76578 1h6oA 204 3.12e+01 a.146.1.1 60689 1igwA 434 3.17e+01 c.1.12.7 62370 1rgyA 360 3.19e+01 e.3.1.1 -11768 1uedA 406 3.24e+01 a.104.1.1 -1459 1lnqA 336 3.26e+01 c.2.1.9 74049 f.14.1.1 74050 1dqrA 557 3.26e+01 1dqrA c.80.1.2 35305 1efnB 152 3.30e+01 1efnB d.102.1.1 40699 1p9bA 442 3.30e+01 c.37.1.10 -7115 1jrrA 382 3.34e+01 e.1.1.1 63256 1aisB 200 3.39e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1pk5A 248 3.40e+01 a.123.1.1 88139 1r8sE 203 3.43e+01 a.118.3.1 -1579 1iyhA 198 3.44e+01 a.45.1.1 83790 c.47.1.5 83791 1kkjA 419 3.54e+01 c.67.1.4 72647 1kl1A 419 3.54e+01 c.67.1.4 72663 1rcb 129 3.56e+01 1rcb a.26.1.2 16854 1or3A 165 3.63e+01 1nfn a.24.1.1 16522 1vhrA 184 3.78e+01 1vhrA c.45.1.1 32651 1c0pA 363 3.79e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1qazA 351 3.85e+01 1qazA a.102.3.1 18848 1of9A 77 3.88e+01 unknown_sccs -1083 1taq 832 3.90e+01 1taq a.60.7.1 18082 c.120.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1rifA 282 3.91e+01 unknown_sccs -7265 1e9cA 215 3.94e+01 c.37.1.1 64808 1q6aA 107 3.95e+01 unknown_sccs -960 2dkb 433 4.00e+01 2dkb c.67.1.4 34438