# List of top-scoring protein chains for t2k-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 1wwbX 103 1.65e+00 1wwcA b.1.1.4 21777 1who 96 1.70e+00 1who b.7.3.1 23215 1lqtA 456 1.85e+00 c.3.1.1 74198 c.4.1.1 74199 1vcbC 160 2.73e+00 1vcbC b.3.3.1 22535 1eybA 471 2.88e+00 1ey2A b.82.1.4 28115 1lm8V 160 3.34e+00 b.3.3.1 74035 1lqbC 162 3.39e+00 b.3.3.1 74186 1otcA 495 3.51e+00 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1aun 208 3.77e+00 1thv b.25.1.1 23900 1gvmA 136 3.96e+00 b.109.1.1 70612 1o91A 178 4.18e+00 b.22.1.1 -3282 1gpl 432 4.34e+00 1gpl b.12.1.2 23645 c.69.1.19 34793 1bu8A 452 4.58e+00 1gpl b.12.1.2 23647 c.69.1.19 34795 1f6fB 210 4.76e+00 1axiB b.1.2.1 22033 b.1.2.1 22034 1qreA 247 5.45e+00 1qreA b.81.1.5 28066 1qg0A 308 5.83e+00 1fnc b.43.4.2 25639 c.25.1.1 31529 1noa 113 6.18e+00 2mcm b.1.7.1 22208 1m1hA 248 6.39e+00 b.114.1.1 78415 d.58.42.1 78416 1thjA 214 6.81e+00 1qreA b.81.1.5 28072 1crzA 403 7.00e+00 1crzA b.68.4.1 27629 c.51.2.1 33211 1c5kA 439 7.07e+00 1crzA b.68.4.1 27630 c.51.2.1 33212 1ey2A 471 7.27e+00 1ey2A b.82.1.4 28116 1qfcA 306 7.30e+00 1uteA d.159.1.1 42077 1fnc 314 7.66e+00 1fnc b.43.4.2 25627 c.25.1.1 31517 1fnd 314 7.77e+00 1fnc b.43.4.2 25626 c.25.1.1 31516 1ni9A 338 7.99e+00 e.7.1.2 85739 1aac 105 8.00e+00 1aac b.6.1.1 22838 1gnhA 206 8.01e+00 1sacA b.29.1.5 24252 1f5fA 205 8.06e+00 1d2sA b.29.1.4 24222 1fnb 314 8.26e+00 1fnc b.43.4.2 25628 c.25.1.1 31518 1qjgA 125 8.39e+00 1opy d.17.4.3 38102 1d2sA 170 8.39e+00 1d2sA b.29.1.4 24221 1gr3A 160 8.64e+00 b.22.1.1 65476 1ocvA 125 9.38e+00 d.17.4.3 86810 1thw 207 9.63e+00 1thv b.25.1.1 23903 1rqwA 207 9.64e+00 b.25.1.1 -3313 1ollA 188 1.06e+01 b.1.1.4 -2690 b.1.1.4 -2691 1kdkA 177 1.07e+01 b.29.1.4 72351 1c28A 135 1.13e+01 1c28A b.22.1.1 23857 1hzgA 295 1.14e+01 1hzgA d.194.1.1 61436 1hq0A 295 1.16e+01 1hzgA d.194.1.1 61122 1thv 207 1.23e+01 1thv b.25.1.1 23904 1kwnA 207 1.23e+01 b.25.1.1 77568 1jb7A 495 1.25e+01 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1qrkA 731 1.34e+01 1f13A b.1.18.9 21889 b.1.5.1 22187 b.1.5.1 22188 d.3.1.4 37119 3mspA 126 1.34e+01 1mspA b.1.11.2 22343 2mspA 126 1.37e+01 1mspA b.1.11.2 22335 1dwmA 70 1.39e+01 1hymA d.40.1.1 38583 1df9A 191 1.48e+01 1befA b.47.1.3 26420 1s1dA 331 1.54e+01 unknown_sccs -4566 1befA 181 1.55e+01 1befA b.47.1.3 26419 1mjuL 219 1.56e+01 b.1.1.1 -2083 b.1.1.2 -2360 1r6wA 322 1.57e+01 c.1.11.2 -5563 d.54.1.1 -9821 1qq2A 199 1.58e+01 1qq2A c.47.1.10 33064 1vavA 222 1.59e+01 1cqqA 180 1.61e+01 1cqqA b.47.1.4 26422 1ms9A 648 1.62e+01 b.29.1.15 85088 b.68.1.1 85089 2tnfA 156 1.63e+01 2tnfA b.22.1.1 23880 1liuA 528 1.63e+01 b.58.1.1 77970 c.1.12.1 77971 c.49.1.1 77972 1hcxA 127 1.65e+01 b.109.1.1 65800 1idk 359 1.65e+01 1qcxA b.80.1.2 28025 1rerA 391 1.67e+01 b.1.18.4 -2740 f.10.1.1 -12385 1uyrA 737 1.69e+01 c.14.1.4 -6258 c.14.1.4 -6259 1mspA 126 1.83e+01 1mspA b.1.11.2 22333 1tl2A 236 1.84e+01 1tl2A b.67.1.1 27541 2fnbA 95 1.91e+01 2fnbA b.1.2.1 21979 1j5wA 298 1.92e+01 d.104.1.1 71589 1p3dA 475 1.93e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1bsjA 168 1.93e+01 1bs4A d.167.1.1 42302 2emo 237 1.95e+01 1ema d.22.1.1 38366 1a12A 413 1.95e+01 1a12A b.69.5.1 27663 1h09A 338 1.96e+01 b.109.1.1 83420 c.1.8.8 83421 1h6rA 236 1.96e+01 d.22.1.1 65683 1j1tA 233 1.99e+01 unknown_sccs -3462 1hlrA 907 2.00e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 8cho 125 2.02e+01 1opy d.17.4.3 38108 1gqyA 475 2.03e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1kypA 237 2.09e+01 d.22.1.1 73280 1lw3A 657 2.11e+01 unknown_sccs -4378 unknown_sccs -7358 1aaj 105 2.11e+01 1aac b.6.1.1 22841 1bxaA 105 2.11e+01 1aac b.6.1.1 22839 1b1a 137 2.13e+01 1be1 c.23.6.1 31242 1c3hA 137 2.22e+01 b.22.1.1 -3255 1hdkA 141 2.22e+01 b.29.1.3 65807 1aizA 129 2.27e+01 1nwpA b.6.1.1 22903 1nbcA 155 2.31e+01 1nbcA b.2.2.2 22390 1pieA 419 2.32e+01 d.14.1.5 -9075 unknown_sccs -10120 1g86A 142 2.35e+01 b.29.1.3 70161 1lcl 142 2.35e+01 1lcl b.29.1.3 24216 1v4sA 455 2.45e+01 c.55.1.3 -7604 c.55.1.3 -7605 1h3nA 878 2.45e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1ckaA 57 2.50e+01 1ckaA b.34.2.1 24459 1o75A 415 2.52e+01 b.1.20.1 81117 b.1.20.1 81118 b.120.1.1 81119 1bp3B 211 2.55e+01 1axiB b.1.2.1 22031 b.1.2.1 22032 1ujxA 119 2.56e+01 b.26.1.2 -3325 1qmvA 197 2.56e+01 1qq2A c.47.1.10 33066 2sfa 191 2.57e+01 1qq4A b.47.1.1 25815 1oxdA 227 2.65e+01 d.22.1.1 -9438 1drs 59 2.66e+01 3ebx g.7.1.2 44457 2madH 373 2.73e+01 2bbkH b.69.2.1 27639 1acx 108 2.76e+01 2mcm b.1.7.1 22211 1ujnA 348 2.78e+01 e.22.1.1 -11998 5croA 66 2.81e+01 1orc a.35.1.2 17044 1iznB 277 2.82e+01 e.43.1.2 83848 1icjA 168 2.86e+01 1bs4A d.167.1.1 42284 1pj5A 830 2.86e+01 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1fhuA 320 2.90e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878 2azaA 129 2.93e+01 1nwpA b.6.1.1 22901 1h6hA 143 2.94e+01 d.189.1.1 65681 3psg 370 2.94e+01 1smrA b.50.1.2 26841 1epwA 1290 2.94e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1axkA 394 2.99e+01 1axkA b.29.1.2 24181 b.29.1.11 24315 4pep 326 3.02e+01 1smrA b.50.1.2 26843 1k1zA 78 3.03e+01 b.34.2.1 68026 1lktA 104 3.05e+01 1lktA b.90.1.1 28398 1bs4A 168 3.13e+01 1bs4A d.167.1.1 42287 1eylA 186 3.15e+01 1wba b.42.4.1 25593 1aomA 567 3.17e+01 1qksA b.70.2.1 27694 1copD 66 3.19e+01 1orc a.35.1.2 17058 1jj2H 167 3.22e+01 1ffkF d.41.4.1 63093 1tnfA 158 3.24e+01 2tnfA b.22.1.1 23871 1qksA 567 3.25e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1dlfH 124 3.28e+01 1igtB b.1.1.1 20383 1ema 236 3.30e+01 1ema d.22.1.1 38339 1aoqA 567 3.33e+01 1qksA a.3.1.2 15934 b.70.2.1 27692 1ikpA 613 3.35e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 2hrvA 142 3.37e+01 2hrvA b.47.1.4 26429 1r9hA 135 3.40e+01 d.26.1.1 -9482 1buqA 125 3.54e+01 1opy d.17.4.3 38111 1fm2B 520 3.56e+01 1fm2B 1ulo 152 3.61e+01 1ulo b.18.1.14 23768 1lqpA 135 3.62e+01 d.32.1.2 78151 1nkiA 135 3.62e+01 d.32.1.2 -9544 1e2o 233 3.63e+01 1eaf c.43.1.1 32631 1aw7A 194 3.64e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1f39A 101 3.75e+01 1umuA b.87.1.1 28386 1pbyA 489 3.76e+01 a.3.1.7 -178 a.3.1.7 -179 b.1.18.14 -2762 b.1.18.14 -2763 b.61.4.1 -4528 1j9lA 247 3.84e+01 c.106.1.1 62762 1et9A 204 3.84e+01 1an8 b.40.2.2 25204 d.15.6.1 37793 1ibyA 112 3.86e+01 1ibzA b.6.1.4 62233 1j9jA 247 3.86e+01 c.106.1.1 62758 1n7vA 555 3.89e+01 b.126.1.1 85377 1gcqC 70 3.94e+01 1gcpA b.34.2.1 60436 1efiD 103 3.98e+01 3chbD b.40.2.1 24870