# List of top-scoring protein chains for t2k.w0.5 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.soe.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 3bzwA 274 7.57e-24 1jrlA 190 4.45e-16 c.23.10.5 84205 1ivnA 190 9.12e-16 c.23.10.5 83719 1j00A 190 2.64e-15 c.23.10.5 83854 2hsjA 214 4.70e-15 1yzfA 195 1.68e-14 c.23.10.5 124275 1vjgA 218 7.48e-11 c.23.10.6 100810 2vptA 215 2.36e-10 1wabA 232 8.36e-09 c.23.10.3 31341 1es9A 232 8.46e-09 1wab c.23.10.3 31340 1bwrA 233 1.79e-08 c.23.10.3 31344 1bwqA 233 2.30e-08 c.23.10.3 31343 1bwpA 233 2.48e-08 c.23.10.3 31342 2o14A 375 2.94e-08 1k7cA 233 4.66e-08 c.23.10.4 68267 1deoA 233 4.66e-08 1deoA c.23.10.4 31345 1fxwF 229 6.51e-08 c.23.10.3 65058 2q0qA 216 3.61e-07 1escA 306 3.73e-07 c.23.10.1 31334 2q0sA 216 1.19e-06 2ajrA 331 9.09e-02 c.72.1.1 126892 2apjA 260 1.52e-01 c.23.10.7 127128 2q4wA 524 1.76e-01 2exrA 524 1.76e-01 1rfmA 344 5.83e-01 c.122.1.1 97385 1zmbA 290 8.49e-01 c.23.10.7 125355 1x0uA 522 1.32e+00 2pvuA 272 1.38e+00 1v9nA 360 1.70e+00 1gmlA 178 1.92e+00 c.8.5.2 70273 2e3zA 465 2.11e+00 1wd3A 482 2.26e+00 b.29.1.21 109233 b.42.8.1 109234 2d44A 482 2.69e+00 b.29.1.21 131240 b.42.8.1 131241 2gbcA 730 3.62e+00 2yvuA 186 3.64e+00 2agkA 260 3.67e+00 2atyA 376 3.79e+00 3bmaA 407 4.43e+00 1x67A 146 4.64e+00 2pv7A 298 4.72e+00 2ddzA 190 4.77e+00 2e4tA 519 5.41e+00 1j0aA 325 5.41e+00 c.79.1.1 83871 2cw6A 298 6.17e+00 1tx2A 297 6.52e+00 c.1.21.1 107420 2v40A 459 6.76e+00 2ej1A 519 6.86e+00 2nx2A 181 6.91e+00 1iweA 457 6.95e+00 c.37.1.10 71486 1zyoA 191 7.20e+00 1yk0A 480 7.51e+00 1yk1A 479 7.54e+00 1kvsA 338 7.93e+00 c.2.1.2 29799 2c46A 241 8.77e+00 1kzyA 195 9.05e+00 b.2.5.2 73381 1ouwA 152 9.10e+00 b.77.3.1 93571 1gzhC 198 9.12e+00 b.2.5.2 70810 1ycsA 199 9.13e+00 1tupA b.2.5.2 22433 2h1lM 203 9.13e+00 b.2.5.2 135959 2ac0A 200 9.17e+00 b.2.5.2 126539 2fejA 204 9.26e+00 b.2.5.2 133349 1kvuA 338 9.44e+00 c.2.1.2 29794 2pcxA 220 9.71e+00 2ocjA 219 9.74e+00 b.2.5.2 139008 1tupA 219 9.74e+00 1tupA b.2.5.2 22434 2qcsB 291 9.84e+00 1udcA 338 9.87e+00 c.2.1.2 29785 1ydmA 187 9.88e+00 1wraA 308 9.90e+00 d.157.1.8 121190 1jdcA 429 1.00e+01 b.71.1.1 27789 c.1.8.1 28776 1qi5A 429 1.01e+01 1jdc b.71.1.1 27792 c.1.8.1 28779 2amgA 418 1.03e+01 b.71.1.1 27796 c.1.8.1 28783 1t6t1 118 1.06e+01 1udbA 338 1.08e+01 c.2.1.2 29787 1vm6A 228 1.08e+01 c.2.1.3 118631 d.81.1.3 108877 1lrkA 338 1.09e+01 c.2.1.2 74225 1qi4A 429 1.10e+01 1jdc b.71.1.1 27791 c.1.8.1 28778 2rghA 571 1.10e+01 1gcyA 527 1.11e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1kvtA 338 1.12e+01 c.2.1.2 29798 2atxA 194 1.13e+01 c.37.1.8 127315 1gzhA 198 1.16e+01 b.2.5.2 70807 2q8xA 331 1.22e+01 1rl3A 288 1.23e+01 b.82.3.2 104975 b.82.3.2 104976 1n82A 331 1.27e+01 c.1.8.3 91703 1a9yA 338 1.31e+01 c.2.1.2 29789 1a9zA 338 1.37e+01 c.2.1.2 29795 1ne6A 283 1.38e+01 b.82.3.2 91831 b.82.3.2 91832 1kvrA 338 1.40e+01 c.2.1.2 29793 1xo6A 530 1.40e+01 c.14.1.4 115682 c.14.1.4 115683 2hs3A 603 1.42e+01 d.79.4.1 136712 d.79.4.1 136713 d.139.1.1 136714 d.139.1.1 136715 1vk3A 615 1.43e+01 d.79.4.1 100846 d.79.4.1 100847 d.139.1.1 100848 d.139.1.1 100849 2oblA 347 1.45e+01 1xnwA 530 1.45e+01 c.14.1.4 115655 c.14.1.4 115656 2hryA 603 1.46e+01 d.79.4.1 136704 d.79.4.1 136705 d.139.1.1 136706 d.139.1.1 136707 1kvqA 338 1.47e+01 c.2.1.2 29797 2j6eL 234 1.51e+01 1z7s2 272 1.55e+01 4pepA 326 1.59e+01 b.50.1.2 26843 2rgoA 607 1.62e+01 3psgA 370 1.63e+01 b.50.1.2 26841 1zh2A 121 1.66e+01 c.23.1.1 125069 1wkbA 810 1.67e+01 1f34A 326 1.69e+01 1smrA b.50.1.2 26848 1e0uA 470 1.76e+01 1a49A b.58.1.1 27072 c.1.12.1 29300 c.49.1.1 33154 5pepA 326 1.76e+01 b.50.1.2 26845 1u8iB 235 1.77e+01 b.1.1.1 113134 b.1.1.2 113135 2z67A 456 1.79e+01 3c5qA 425 1.84e+01 1vbuA 328 1.86e+01 c.1.8.3 119963 1eisA 89 1.89e+01 1hev g.3.1.1 44052 g.3.1.1 44053 1qpkA 418 1.98e+01 1jdc b.71.1.1 27793 c.1.8.1 28780 1rzfL 213 2.01e+01 b.1.1.1 98152 b.1.1.2 98153 1qi3A 429 2.02e+01 1jdc b.71.1.1 27794 c.1.8.1 28781 2npiA 460 2.04e+01 2cmdA 312 2.05e+01 c.2.1.5 30135 d.162.1.1 42102 2otnA 308 2.08e+01 1i9sA 210 2.09e+01 1i9sA c.45.1.1 62099 1u92B 234 2.09e+01 b.1.1.1 113222 b.1.1.2 113223 2f5bH 235 2.09e+01 b.1.1.1 88506 b.1.1.2 88507 2dwuA 276 2.11e+01 1b8pA 329 2.13e+01 1bmdA c.2.1.5 30147 d.162.1.1 42114 1u8kB 234 2.13e+01 b.1.1.1 113142 b.1.1.2 113143 3brjA 175 2.15e+01 2qghA 425 2.17e+01 2gzmA 267 2.26e+01 2p8lB 235 2.26e+01 b.1.1.1 139526 b.1.1.2 139527 1qhtA 775 2.28e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1y0yA 353 2.28e+01 b.49.3.1 122514 c.56.5.4 122515 2zdrA 349 2.30e+01 1xuuA 349 2.30e+01 b.85.1.1 116067 c.1.10.6 116068 2ywiA 196 2.30e+01 1xfoA 357 2.31e+01 b.49.3.1 115265 c.56.5.4 115266 2pwzA 312 2.34e+01 c.2.1.5 139766 d.162.1.1 139767 2z02A 242 2.45e+01 1pkyA 470 2.49e+01 1a49A b.58.1.1 27068 c.1.12.1 29296 c.49.1.1 33150 1ypxA 375 2.50e+01 2j1yA 200 2.51e+01 2v38A 305 2.51e+01 7a3hA 303 2.51e+01 7a3hA c.1.8.3 28817 2j3hA 345 2.53e+01 2eejA 96 2.53e+01 2b94A 267 2.54e+01 1wdjA 187 2.60e+01 c.52.1.27 114536 2bioA 219 2.61e+01 1vbkA 307 2.61e+01 c.26.2.6 119957 d.308.1.1 119958 1en2A 89 2.63e+01 1hev g.3.1.1 44048 g.3.1.1 44049 2j1zA 219 2.66e+01 1uolA 219 2.69e+01 b.2.5.2 99695 2bimA 219 2.70e+01 2j21A 219 2.71e+01 1x4mA 94 2.71e+01 d.51.1.1 121695 1qysA 106 2.76e+01 k.41.1.1 96603 2j20A 219 2.80e+01 2yyoA 171 2.83e+01 2bipA 219 2.84e+01 2pokA 481 2.85e+01 1ffyA 917 2.89e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 2.89e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1ib6A 312 2.89e+01 c.2.1.5 62146 d.162.1.1 62147 2binA 219 2.90e+01 1kbvA 327 2.93e+01 b.6.1.3 68395 b.6.1.3 68396 1mvwA 840 2.97e+01 i.15.1.1 79523 2mysA 843 2.97e+01 1lvk b.34.3.1 24557 c.37.1.9 32154 2bgwA 219 2.99e+01 a.60.2.5 128500 c.52.1.20 128501 1q8kA 308 3.05e+01 a.60.14.1 111596 b.40.4.5 111597 d.58.51.1 104557 1o08A 221 3.05e+01 c.108.1.6 86525 2qm3A 373 3.10e+01 2biqA 219 3.13e+01 2c2xA 281 3.17e+01 2e9lA 469 3.20e+01 2pr4H 235 3.20e+01 b.1.1.1 139748 b.1.1.2 139749 2bhnA 214 3.21e+01 a.60.2.5 128534 c.52.1.20 128535 1h5vA 304 3.23e+01 c.1.8.3 70898 1tjgH 237 3.23e+01 b.1.1.1 112446 b.1.1.2 112447 2cl5A 221 3.26e+01 c.66.1.1 130570 1h1dA 221 3.26e+01 c.66.1.1 83452 1dqdH 222 3.26e+01 1igtB b.1.1.1 20441 b.1.1.2 21407 2e8yA 718 3.27e+01 1a3hA 300 3.34e+01 c.1.8.3 28819 3cmgA 667 3.35e+01 1xhlA 297 3.43e+01 c.2.1.2 109591 1wy7A 207 3.48e+01 c.66.1.32 121433 1q1jL 215 3.52e+01 b.1.1.1 95585 b.1.1.2 95586 2csuA 457 3.53e+01 c.2.1.8 130781 c.23.4.1 130782 c.23.4.1 130783 2qgqA 304 3.60e+01 1bdmA 327 3.63e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 2j4cA 529 3.66e+01 1p0iA 529 3.68e+01 c.69.1.1 93867 2a14A 263 3.68e+01 c.66.1.15 125972 2pm8A 574 3.77e+01 2jfeX 469 3.77e+01 3b2uA 214 3.78e+01 1us5A 314 3.82e+01 c.94.1.1 99856 1nt2A 210 3.86e+01 c.66.1.3 86149 2io0A 232 3.87e+01 1th0A 226 3.90e+01 d.3.1.7 106903 1jmoA 480 3.92e+01 e.1.1.1 77138