# 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 1r22A 122 1.21e-01 a.4.5.5 104777 3ledA 392 2.85e-01 1r1tA 122 3.42e-01 a.4.5.5 104769 1smtA 122 3.42e-01 1smtA a.4.5.5 16109 3hrsA 214 9.09e-01 1ebvA 551 1.01e+00 1cqeA a.93.1.2 18709 g.3.11.1 44252 1pthA 576 1.01e+00 a.93.1.2 18705 g.3.11.1 44248 1u67A 600 1.30e+00 a.93.1.2 107697 g.3.11.1 107698 1ht8A 551 1.31e+00 1cqeA a.93.1.2 61248 g.3.11.1 61249 1q4gA 553 1.31e+00 a.93.1.2 95789 g.3.11.1 95790 1igzA 576 1.31e+00 a.93.1.2 66138 g.3.11.1 66139 1eqgA 580 1.32e+00 1cqeA a.93.1.2 59487 g.3.11.1 59488 1cqeA 580 1.32e+00 1cqeA a.93.1.2 18703 g.3.11.1 44246 1prhA 554 1.32e+00 1cqeA a.93.1.2 18710 g.3.11.1 44253 2oyuP 600 1.32e+00 a.93.1.2 149080 g.3.11.1 149081 1yifA 533 2.07e+00 b.29.1.23 123283 b.67.2.1 123284 2od5A 116 2.67e+00 a.4.5.70 148736 2nxfA 322 3.43e+00 d.159.1.12 148499 1xa0A 328 4.49e+00 b.35.1.2 115021 c.2.1.1 115022 1idrA 136 4.71e+00 1dlyA a.1.1.1 62301 4gtuA 217 5.67e+00 1b8xA a.45.1.1 17621 c.47.1.5 32915 2cmjA 410 5.85e+00 1lhpA 312 6.33e+00 c.72.1.5 77960 2cskA 146 6.43e+00 1a6sA 87 6.72e+00 a.61.1.4 18134 2glnA 136 7.17e+00 3cqfA 489 8.26e+00 1zcoA 262 8.65e+00 3maxA 367 9.24e+00 2gknA 136 1.01e+01 2gtxA 261 1.03e+01 d.127.1.1 135711 2p99A 261 1.03e+01 d.127.1.1 149331 2p9aA 262 1.03e+01 d.127.1.1 149332 2ggcA 263 1.03e+01 d.127.1.1 135127 2gu5A 263 1.03e+01 d.127.1.1 135723 1xnzA 264 1.04e+01 d.127.1.1 115673 2i3oA 516 1.17e+01 d.153.1.6 137027 1ouwA 152 1.18e+01 b.77.3.1 93571 1db2A 377 1.22e+01 1sek e.1.1.1 42672 3eoxA 379 1.22e+01 1oc0A 379 1.30e+01 e.1.1.1 86790 2z0sA 235 1.32e+01 b.40.4.5 153916 d.51.1.1 153917 3cvmA 392 1.34e+01 3kglA 466 1.34e+01 2eo6A 141 1.40e+01 1rq1A 386 1.47e+01 a.227.1.1 105047 1nnvA 110 1.48e+01 d.17.7.1 92012 1rp4A 389 1.49e+01 a.227.1.1 105027 1bxxA 285 1.50e+01 1bw8A b.2.7.1 22483 1t0lA 414 1.53e+01 c.77.1.1 106216 1bjfA 193 1.53e+01 1rec a.39.1.5 17331 1h6eA 288 1.60e+01 b.2.7.1 65680 2wzgA 525 1.61e+01 3jszA 525 1.61e+01 3bpoA 127 1.78e+01 2pr9A 299 1.82e+01 b.2.7.1 149799 1t3vA 124 1.88e+01 c.55.5.1 112232 1o13A 136 1.97e+01 c.55.5.1 80762 2jngA 105 1.98e+01 b.34.9.4 148150 2i61A 62 1.99e+01 3h0kA 178 2.04e+01 3lw7A 179 2.04e+01 3l9aX 88 2.08e+01 2ggzA 211 2.12e+01 2o70A 174 2.19e+01 a.288.1.1 148645 9paiA 346 2.25e+01 1sek e.1.1.1 42667 1tbrR 103 2.27e+01 1tbrR g.68.1.1 44707 g.68.1.1 44708 1lj5A 379 2.27e+01 e.1.1.1 73928 3fhxA 312 2.32e+01 2yxtA 312 2.33e+01 3fhyA 312 2.33e+01 1c5gA 402 2.34e+01 1sek e.1.1.1 42661 1a7cA 379 2.37e+01 1sek e.1.1.1 42660 2f7kA 327 2.41e+01 1wcwA 261 2.43e+01 1wd7A 261 2.43e+01 c.113.1.1 114526 2vrsA 211 2.46e+01 2ajpA 326 2.50e+01 2gkmA 136 2.53e+01 2gauA 232 2.54e+01 a.4.5.4 134894 b.82.3.2 134895 3hkoA 345 2.57e+01 3djsA 127 2.66e+01 1i31A 314 2.70e+01 1bw8A b.2.7.1 22481 1bw8A 321 2.72e+01 1bw8A b.2.7.1 22482 1wl7A 312 2.78e+01 b.67.2.1 120996 1o0xA 262 2.84e+01 d.127.1.1 80755 3i00A 120 2.85e+01 3e97A 231 2.90e+01 1bxsA 501 2.91e+01 1bpwA c.82.1.1 35357 1ergA 70 2.93e+01 g.7.1.3 44462 2g18A 253 2.96e+01 3innA 314 3.01e+01 3kkcA 177 3.03e+01 2f77X 100 3.04e+01 1cdqA 77 3.04e+01 g.7.1.3 44459 2ux2A 78 3.09e+01 g.7.1.3 152249 2uwrA 79 3.11e+01 g.7.1.3 152220 2zdjA 69 3.11e+01 2j8bA 79 3.14e+01 g.7.1.3 147908 1fh2A 129 3.18e+01 1etb1 b.3.4.1 59834 1eta1 128 3.18e+01 1etb1 3l0zA 350 3.20e+01 2b1mA 246 3.21e+01 3d60A 314 3.22e+01 3cu9A 314 3.22e+01 3d61A 314 3.23e+01 1zxaA 67 3.23e+01 1dvmA 379 3.24e+01 1sek e.1.1.1 42663 3d5yA 314 3.25e+01 2uykA 129 3.28e+01 3louA 292 3.33e+01 2qgqA 304 3.42e+01 2imlA 199 3.48e+01 b.45.1.4 147729 3eo7A 511 3.48e+01 3eafA 391 3.53e+01 1au1A 166 3.53e+01 1ifa a.26.1.3 16889 1vs1A 276 3.59e+01 2hh8A 149 3.60e+01 d.358.1.1 147286 2q18X 293 3.69e+01 1zrhA 274 3.82e+01 1w4xA 542 3.82e+01 c.3.1.5 109171 c.3.1.5 109172 1x7sA 127 3.91e+01 2bsfA 176 3.96e+01