# List of top-scoring protein chains for T0448.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 9.59e-24 1jrlA 190 6.53e-16 c.23.10.5 84205 1ivnA 190 1.34e-15 c.23.10.5 83719 1j00A 190 3.91e-15 c.23.10.5 83854 2hsjA 214 7.39e-15 1yzfA 195 2.68e-14 c.23.10.5 124275 1vjgA 218 1.25e-10 c.23.10.6 100810 2vptA 215 3.59e-10 1wabA 232 1.44e-08 c.23.10.3 31341 1es9A 232 1.46e-08 1wab c.23.10.3 31340 1bwrA 233 3.11e-08 c.23.10.3 31344 1bwqA 233 3.99e-08 c.23.10.3 31343 1bwpA 233 4.16e-08 c.23.10.3 31342 2o14A 375 5.31e-08 1k7cA 233 8.65e-08 c.23.10.4 68267 1fxwF 229 1.28e-07 c.23.10.3 65058 1escA 306 6.58e-07 c.23.10.1 31334 2q0qA 216 6.82e-07 2q0sA 216 2.26e-06 2ajrA 331 1.83e-01 c.72.1.1 126892 2apjA 260 2.69e-01 c.23.10.7 127128 2q4wA 524 3.38e-01 1rfmA 344 1.10e+00 c.122.1.1 97385 1zmbA 290 1.79e+00 c.23.10.7 125355 2pvuA 272 2.24e+00 1x0uA 522 2.79e+00 1v9nA 360 3.54e+00 1gmlA 178 3.92e+00 c.8.5.2 70273 2e3zA 465 4.04e+00 1wd3A 482 4.28e+00 b.29.1.21,b.42.8.1 109233,109234 2d44A 482 5.07e+00 b.29.1.21,b.42.8.1 131240,131241 2yvuA 186 6.62e+00 2gbcA 730 6.92e+00 2atyA 376 7.13e+00 2agkA 260 7.29e+00 3bmaA 407 8.48e+00 2pv7A 298 8.60e+00 1x67A 146 9.39e+00 2ddzA 190 9.46e+00 2nx2A 181 1.03e+01 2e4tA 519 1.04e+01 2cw6A 298 1.07e+01 1j0aA 325 1.12e+01 c.79.1.1 83871 2v40A 459 1.30e+01 2ej1A 519 1.31e+01 1zyoA 191 1.35e+01 1tx2A 297 1.36e+01 c.1.21.1 107420 1yk0A 480 1.39e+01 1yk1A 479 1.39e+01 1iweA 457 1.42e+01 c.37.1.10 71486 1kzyA 195 1.43e+01 b.2.5.2 73381 1ycsA 199 1.44e+01 1tupA b.2.5.2 22433 2h1lM 203 1.44e+01 b.2.5.2 135959 1gzhC 198 1.44e+01 b.2.5.2 70810 2ac0A 200 1.45e+01 b.2.5.2 126539 2fejA 204 1.46e+01 b.2.5.2 133349 1kvsA 338 1.48e+01 c.2.1.2 29799 2pcxA 220 1.53e+01 2ocjA 219 1.54e+01 b.2.5.2 139008 2c46A 241 1.59e+01 1ouwA 152 1.76e+01 b.77.3.1 93571 1kvuA 338 1.79e+01 c.2.1.2 29794 1gzhA 198 1.85e+01 b.2.5.2 70807 1udcA 338 1.85e+01 c.2.1.2 29785 1ydmA 187 1.87e+01 1t6t1 118 1.94e+01 1vm6A 228 2.01e+01 d.81.1.3,c.2.1.3 108877,118631 1udbA 338 2.04e+01 c.2.1.2 29787 1lrkA 338 2.06e+01 c.2.1.2 74225 2rghA 571 2.06e+01 1jdcA 429 2.08e+01 b.71.1.1,c.1.8.1 27789,28776 1qi5A 429 2.12e+01 1jdc b.71.1.1,c.1.8.1 27792,28779 1kvtA 338 2.15e+01 c.2.1.2 29798 2amgA 418 2.16e+01 b.71.1.1,c.1.8.1 27796,28783 1wraA 308 2.26e+01 d.157.1.8 121190 1qi4A 429 2.27e+01 1jdc b.71.1.1,c.1.8.1 27791,28778 1gcyA 527 2.31e+01 1jdc b.71.1.1,c.1.8.1 27788,28775 2qcsB 291 2.37e+01 2atxA 194 2.42e+01 c.37.1.8 127315 1a9yA 338 2.53e+01 c.2.1.2 29789 2q8xA 331 2.54e+01 1n82A 331 2.64e+01 c.1.8.3 91703 1a9zA 338 2.66e+01 c.2.1.2 29795 1kvrA 338 2.66e+01 c.2.1.2 29793 1z7s2 272 2.75e+01 1kvqA 338 2.82e+01 c.2.1.2 29797 2j6eL 234 2.85e+01 1xo6A 530 2.96e+01 c.14.1.4,c.14.1.4 115682,115683 1rl3A 288 2.97e+01 b.82.3.2,b.82.3.2 104975,104976 2rgoA 607 2.99e+01 1xnwA 530 3.06e+01 c.14.1.4,c.14.1.4 115655,115656 1e0uA 470 3.10e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27072,29300,33154 2j3hA 345 3.14e+01 1zh2A 121 3.21e+01 c.23.1.1 125069 2hs3A 603 3.22e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 136712,136713,136714,136715 1vk3A 615 3.24e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 4pepA 326 3.32e+01 b.50.1.2 26843 2hryA 603 3.32e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 136704,136705,136706,136707 1ne6A 283 3.32e+01 b.82.3.2,b.82.3.2 91831,91832 2oblA 347 3.35e+01 3psgA 370 3.41e+01 b.50.1.2 26841 1u8iB 235 3.42e+01 b.1.1.1,b.1.1.2 113134,113135 1f34A 326 3.52e+01 1smrA b.50.1.2 26848 2cmdA 312 3.58e+01 c.2.1.5,d.162.1.1 30135,42102 1eisA 89 3.59e+01 1hev g.3.1.1,g.3.1.1 44052,44053 5pepA 326 3.59e+01 b.50.1.2 26845 1wkbA 810 3.61e+01 3c5qA 425 3.63e+01 1i9sA 210 3.77e+01 1i9sA c.45.1.1 62099 1vbuA 328 3.78e+01 c.1.8.3 119963 1rzfL 213 3.85e+01 b.1.1.1,b.1.1.2 98152,98153 2z02A 242 3.86e+01 2otnA 308 3.86e+01 2npiA 460 3.93e+01 2dwuA 276 3.98e+01 1u92B 234 4.04e+01 b.1.1.1,b.1.1.2 113222,113223 2f5bH 235 4.04e+01 b.1.1.1,b.1.1.2 88506,88507 2j1yA 200 4.04e+01 2pwzA 312 4.07e+01 c.2.1.5,d.162.1.1 139766,139767 2z67A 456 4.11e+01 1u8kB 234 4.11e+01 b.1.1.1,b.1.1.2 113142,113143 1qpkA 418 4.15e+01 1jdc b.71.1.1,c.1.8.1 27793,28780 3brjA 175 4.16e+01 2bioA 219 4.23e+01 2gzmA 267 4.23e+01 1qi3A 429 4.25e+01 1jdc b.71.1.1,c.1.8.1 27794,28781 2zdrA 349 4.30e+01 2qghA 425 4.31e+01 2j1zA 219 4.32e+01 1uolA 219 4.35e+01 b.2.5.2 99695 2p8lB 235 4.36e+01 b.1.1.1,b.1.1.2 139526,139527 2bimA 219 4.37e+01 1pkyA 470 4.38e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27068,29296,33150 2j21A 219 4.39e+01 1b8pA 329 4.44e+01 1bmdA c.2.1.5,d.162.1.1 30147,42114 1q8kA 308 4.53e+01 d.58.51.1,a.60.14.1,b.40.4.5 104557,111596,111597 2j20A 219 4.53e+01 1y0yA 353 4.57e+01 b.49.3.1,c.56.5.4 122514,122515 1qhtA 775 4.59e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1qysA 106 4.60e+01 k.41.1.1 96603 2bipA 219 4.60e+01 1xfoA 357 4.62e+01 b.49.3.1,c.56.5.4 115265,115266 2binA 219 4.69e+01 1ypxA 375 4.78e+01 1wdjA 187 4.93e+01 c.52.1.27 114536 2eejA 96 4.99e+01 1en2A 89 5.01e+01 1hev g.3.1.1,g.3.1.1 44048,44049 2biqA 219 5.10e+01 1ib6A 312 5.10e+01 c.2.1.5,d.162.1.1 62146,62147 2qm3A 373 5.28e+01 1ffyA 917 5.38e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2cl5A 221 5.40e+01 c.66.1.1 130570 2b94A 267 5.43e+01 2yyoA 171 5.49e+01 2ywiA 196 5.62e+01 2c2xA 281 5.72e+01 1x4mA 94 5.73e+01 d.51.1.1 121695 2pokA 481 5.74e+01 1vbkA 307 5.78e+01 c.26.2.6,d.308.1.1 119957,119958 1o08A 221 5.81e+01 c.108.1.6 86525 3cmgA 667 5.84e+01 2e8yA 718 5.88e+01 2v38A 305 5.95e+01 7a3hA 303 5.95e+01 7a3hA c.1.8.3 28817 2mysA 843 6.00e+01 1lvk b.34.3.1,c.37.1.9 24557,32154 1mvwA 840 6.00e+01 i.15.1.1 79523 2e9lA 469 6.10e+01 2pr4H 235 6.19e+01 b.1.1.1,b.1.1.2 139748,139749 1tjgH 237 6.25e+01 b.1.1.1,b.1.1.2 112446,112447 1dqdH 222 6.30e+01 1igtB b.1.1.1,b.1.1.2 20441,21407 2io0A 232 6.43e+01 2csuA 457 6.43e+01 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1kbvA 327 6.48e+01 b.6.1.3,b.6.1.3 68395,68396 1th0A 226 6.51e+01 d.3.1.7 106903 2qgqA 304 6.52e+01 1us5A 314 6.61e+01 c.94.1.1 99856 2bgwA 219 6.63e+01 a.60.2.5,c.52.1.20 128500,128501 1q1jL 215 6.68e+01 b.1.1.1,b.1.1.2 95585,95586 1wy7A 207 6.77e+01 c.66.1.32 121433 1xhlA 297 6.89e+01 c.2.1.2 109591 2gqrA 237 6.92e+01 2j4cA 529 7.02e+01 1p0iA 529 7.05e+01 c.69.1.1 93867 2bhnA 214 7.11e+01 a.60.2.5,c.52.1.20 128534,128535 2jfeX 469 7.20e+01 1nt2A 210 7.21e+01 c.66.1.3 86149 2pm8A 574 7.21e+01 3b2uA 214 7.24e+01 2j1xA 219 7.34e+01 2a14A 263 7.39e+01 c.66.1.15 125972 1h5vA 304 7.63e+01 c.1.8.3 70898 2jfqA 286 7.69e+01 1bqnB 430 7.83e+01 1rthA e.8.1.2 43065 1jmoA 480 7.89e+01 e.1.1.1 77138 1a3hA 300 7.89e+01 c.1.8.3 28819 3cf2A 806 7.90e+01 1b74A 254 7.91e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1bdmA 327 7.94e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 2pa6A 427 7.97e+01