# List of top-scoring protein chains for t04-100-30-bys-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.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 1r17A 343 1.23e+00 b.2.3.4,b.2.3.4 96796,96797 2fblA 153 3.06e+00 d.63.1.2 133249 1aihA 170 3.52e+00 1aihA d.163.1.1 42149 2bycA 137 3.63e+00 d.58.10.2 129476 3l9jT 149 3.70e+00 2tnfA 156 4.01e+00 2tnfA b.22.1.1 23880 2e7aA 157 4.46e+00 2brjA 188 4.47e+00 b.159.1.1 146213 1kbvA 327 4.57e+00 b.6.1.3,b.6.1.3 68395,68396 4tsvA 150 4.73e+00 2tnfA b.22.1.1 23860 1z8kA 193 4.75e+00 b.159.1.1 124703 1onqA 283 4.99e+00 b.1.1.2,d.19.1.1 93365,93366 2zklA 369 5.72e+00 1sgpE 185 6.00e+00 1qq4A b.47.1.1 25816 2kl6A 114 6.74e+00 1oqeA 144 7.15e+00 b.22.1.1 87286 2qa9E 185 7.45e+00 b.47.1.1 150200 3iteA 562 7.61e+00 3e53A 480 8.00e+00 3jxsA 174 8.19e+00 2sfaA 191 8.52e+00 b.47.1.1 25815 1h4gA 207 9.55e+00 b.29.1.11 70863 3hrpA 409 9.71e+00 3f1zA 133 9.82e+00 1y6kR 214 1.00e+01 b.1.2.1,b.1.2.1 122663,122664 3kl7A 235 1.12e+01 1b7yB 785 1.14e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,b.153.1.1 16301,16302,25312,39311,40780,41456 1xwvA 129 1.14e+01 b.1.18.7 116134 1ocsA 162 1.24e+01 d.189.1.1 92776 1qr4A 186 1.26e+01 1qr4B b.1.2.1,b.1.2.1 21986,21987 1iqaA 160 1.28e+01 b.22.1.1 71274 3hfiA 170 1.28e+01 2ckkA 127 1.29e+01 2jysA 107 1.49e+01 1cqxA 403 1.57e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 2jjuA 127 1.57e+01 3ivrA 509 1.67e+01 1x99A 145 1.85e+01 b.97.1.2 114978 1jmcA 246 1.88e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1z47A 355 1.91e+01 1fguA 252 1.99e+01 1jmcA b.40.4.3,b.40.4.3 25296,25297 1kxgA 152 2.09e+01 b.22.1.1 73145 3gfzA 413 2.13e+01 1xf1A 926 2.14e+01 2pbeA 294 2.36e+01 a.160.1.5,d.218.1.13 149355,149356 2rdkA 109 2.41e+01 3gxwA 103 2.42e+01 7odcA 424 2.44e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 3g7sA 549 2.45e+01 1s55A 156 2.48e+01 b.22.1.1 118865 1xe1A 116 2.56e+01 b.43.3.1 109571 2v7bA 529 2.57e+01 3laxA 109 2.57e+01 3kkgA 146 2.70e+01 3fm2A 135 2.73e+01 1mbmA 198 2.80e+01 b.47.1.3 78916 2yweA 600 2.80e+01 3hrqA 357 2.80e+01 2zwnA 339 2.88e+01 2ztgA 739 2.92e+01 2e2dC 180 2.92e+01 b.40.3.1 131980 1ktjA 129 2.93e+01 b.1.18.7 72974 2jfrA 234 2.97e+01 2qsqA 111 2.97e+01 3eifA 936 2.99e+01 1lci 550 3.03e+01 1lci 3fvqA 359 3.08e+01 2yz1A 120 3.18e+01 2glzA 153 3.19e+01 d.81.3.1 135348 2b0rA 202 3.28e+01 2ac3A 316 3.29e+01 1wkyA 464 3.33e+01 b.18.1.31,c.1.8.3 120992,120993 3ldtA 169 3.35e+01 1h8vA 218 3.36e+01 2nlrA b.29.1.11 60795 1umhA 184 3.37e+01 b.18.1.21 99605 2hd9A 145 3.39e+01 b.122.1.8 147268 1tjxA 159 3.39e+01 b.7.1.2 112465 1czpA 98 3.46e+01 1awd d.15.4.1 37645 3dueA 127 3.48e+01 d.98.2.1 157865 1lw3A 657 3.48e+01 b.55.1.8,c.45.1.3 91152,91153 2wzpR 375 3.50e+01 1sqlA 146 3.57e+01 d.96.1.3 105925 3loeA 30 3.62e+01 2gk2A 111 3.63e+01 1zsqA 528 3.74e+01 b.55.1.8,c.45.1.3 125616,125617 1dfnA 30 3.80e+01 g.9.1.1 44570 2pw9A 268 3.84e+01 c.97.1.5 149896 2amuA 143 3.88e+01 3h3iA 150 3.94e+01 2zooA 442 4.04e+01 2igvA 173 4.07e+01 b.62.1.1 147667 2c9aA 259 4.08e+01 b.1.1.4,b.29.1.25 130129,130130 1f3uB 171 4.13e+01 1f3uB b.65.1.1 27525 1lwdA 413 4.14e+01 c.77.1.1 78265 1cby 259 4.14e+01 1cby 1cbyA 259 4.14e+01 d.103.1.1 40705 1f5jA 199 4.20e+01 1axkA b.29.1.11 24342 1f3uA 118 4.25e+01 1f3uA b.65.1.1 27521 1xzzA 246 4.29e+01 3kf8A 220 4.31e+01 2gk6A 624 4.34e+01 3lo4A 30 4.35e+01 3iduA 127 4.36e+01 3i1iA 377 4.44e+01 2ghvC 203 4.45e+01 d.318.1.1 135214 1qhqA 140 4.55e+01 1qhqA b.6.1.1 63326 3lo1A 30 4.57e+01 1wmmA 145 4.61e+01 b.122.1.8 121049 1mrzA 293 4.70e+01 b.43.5.1,c.26.1.3 91452,91453 2jngA 105 4.76e+01 b.34.9.4 148150 1ltlA 279 4.76e+01 b.40.4.11 84701 1zo2A 129 4.79e+01 d.17.4.2 146021 2cn5A 329 4.85e+01 1c52 131 4.87e+01 1c52 1c52A 131 4.87e+01 a.3.1.1 15810 1fna 93 4.95e+01 1fnf 1fnaA 91 4.96e+01 b.1.2.1 21971 2icgA 160 4.98e+01 d.369.1.1 147601 1siqA 392 4.99e+01 a.29.3.1,e.6.1.1 105585,105586 2zplA 97 5.01e+01 1mdcA 131 5.03e+01 b.60.1.2 27198 3m6sA 331 5.03e+01 3edpA 236 5.03e+01 3bvxA 1045 5.09e+01 a.8.3.1,b.30.5.6,c.6.2.1 155676,155677,155678 2rj2A 185 5.11e+01 2jjwA 127 5.11e+01 1nb8A 353 5.12e+01 d.3.1.9 80385 1mdc 133 5.14e+01 1hmt 3ge2A 130 5.15e+01 1t5hX 504 5.15e+01 e.23.1.1 106449 1h6hA 143 5.22e+01 d.189.1.1 65681 2ow6A 1045 5.24e+01 a.8.3.1,b.30.5.6,c.6.2.1 149039,149040,149041 1a2vA 655 5.28e+01 1a2vA b.30.2.1,d.17.2.1,d.17.2.1 24416,38059,38060 3lvxA 30 5.29e+01 3a57A 165 5.33e+01 1oa2A 218 5.39e+01 b.29.1.11 86721 3dgpA 80 5.41e+01 3ejvA 179 5.42e+01 d.17.4.28 158181 2ibpA 409 5.42e+01 1mdbA 539 5.56e+01 e.23.1.1 79008 1qwnA 1045 5.65e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 3jx8A 250 5.67e+01 3cvbA 105 5.67e+01 2uv3A 126 5.70e+01 2zhnA 148 5.71e+01 1vavA 222 5.74e+01 b.29.1.18 108472 2qazA 128 5.74e+01 1dt9A 437 5.81e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1uyjA 296 5.81e+01 f.8.1.2 108143 2p2eA 128 5.89e+01 b.124.1.1 149171 2qo4A 126 5.91e+01 1htyA 1015 5.92e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 2ajfE 180 6.11e+01 d.318.1.1 126884 2oynA 146 6.18e+01 b.43.5.2 149067 1usrA 454 6.21e+01 b.68.1.1 99881 3iesA 551 6.23e+01 1vqtA 213 6.25e+01 c.1.2.3 120417 1oa4A 222 6.25e+01 b.29.1.11 86731 1wzoA 246 6.52e+01 3iftA 142 6.54e+01 1iz6A 138 6.57e+01 b.34.5.2,b.40.4.5 76976,76977 2wgoA 98 6.73e+01 3grdA 134 6.75e+01 1suuA 312 6.78e+01 b.68.10.1 99006 3gxsA 109 6.81e+01 2gllA 171 6.82e+01 1dt1A 129 6.87e+01 1c52 a.3.1.1 15811 1nb9A 147 6.95e+01 b.43.5.1 85515 2vn4A 599 7.00e+01 2fnjA 226 7.06e+01 b.29.1.22 133818 3hvdA 548 7.07e+01 3ie5A 165 7.20e+01 3ljyA 243 7.30e+01 3hrzA 627 7.52e+01 3es1A 172 7.57e+01 1vaxA 287 7.59e+01 d.96.1.4,d.96.1.4 119910,119911 1cq3A 233 7.61e+01 1cq3A b.27.1.1 23923 3kwuA 150 7.63e+01 2welA 327 7.64e+01 3gd0A 367 7.66e+01 2jamA 304 7.68e+01 3khwA 204 7.69e+01 1gpl 432 7.72e+01 1gpl 1gplA 432 7.72e+01 b.12.1.2,c.69.1.19 23645,34793 1q8rA 120 7.78e+01 d.79.6.1 96225