# List of top-scoring protein chains for T0282.t04-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.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 1gq6A 313 1.34e-40 c.42.1.1 70341 2cevA 299 1.07e-37 1d3vA c.42.1.1 32576 1pq3A 306 7.54e-37 c.42.1.1 -7309 1d3vA 323 2.01e-36 1d3vA c.42.1.1 32559 1hqxA 323 2.03e-36 1d3vA c.42.1.1 61161 2rlaA 323 2.23e-36 1d3vA c.42.1.1 32573 1hqgA 323 4.36e-36 1d3vA c.42.1.1 61136 3rlaA 323 5.37e-36 1d3vA c.42.1.1 32564 1p8sA 314 6.28e-36 c.42.1.1 87979 1p8qA 314 7.06e-36 c.42.1.1 87974 1p8mA 314 7.90e-36 c.42.1.1 87962 1p8pA 314 9.46e-36 c.42.1.1 87971 1p8oA 314 1.02e-35 c.42.1.1 87968 1p8rA 308 1.46e-35 c.42.1.1 87977 1p8nA 314 2.26e-35 c.42.1.1 87965 1ie7C 570 3.16e-01 1ubpC b.92.1.1 62315 c.1.9.2 62316 4ubpC 570 3.67e-01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1wit 93 5.61e-01 1wit b.1.1.4 21714 1b3bA 415 6.81e-01 1hwyA c.2.1.7 30244 c.58.1.1 33892 1b26A 416 6.93e-01 1hwyA c.2.1.7 30232 c.58.1.1 33880 2tmgA 415 8.46e-01 1hwyA c.2.1.7 30238 c.58.1.1 33886 1jscA 630 1.40e+00 c.31.1.3 67224 c.36.1.5 67225 c.36.1.9 67226 1gy8A 397 1.86e+00 c.2.1.2 83376 1n0hA 677 1.86e+00 c.31.1.3 79734 c.36.1.5 79735 c.36.1.9 79736 1bwvA 493 2.29e+00 1burA c.1.14.1 29372 d.58.9.1 39278 1g99A 408 2.66e+00 1g99A c.55.1.2 33457 c.55.1.2 33458 1rblA 467 3.28e+00 1burA c.1.14.1 29380 d.58.9.1 39286 1j8rA 196 3.29e+00 1j8rA b.2.3.3 62745 1rscA 472 3.46e+00 1burA c.1.14.1 29381 d.58.9.1 39287 1iyxA 432 3.52e+00 c.1.11.1 83815 d.54.1.1 83816 1tk1A 260 3.79e+00 1f3mC 297 4.11e+00 1hcl d.144.1.7 41677 1uslA 170 4.18e+00 c.121.1.1 -6682 2fcr 173 4.33e+00 1rcf c.23.5.1 31151 1fxwF 229 4.95e+00 c.23.10.3 65058 1j0dA 341 5.26e+00 c.79.1.1 83902 1j0eA 341 5.29e+00 c.79.1.1 83906 1mwmA 320 5.87e+00 c.55.1.1 79580 c.55.1.1 79581 1f2dA 341 5.90e+00 1f2dA c.79.1.1 35298 1ceo 343 6.38e+00 1ceo c.1.8.3 28808 1cec 343 6.49e+00 1ceo c.1.8.3 28809 1l1jA 239 6.64e+00 b.47.1.1 84516 1bn8A 420 7.08e+00 1pcl b.80.1.1 28022 2bspA 420 7.10e+00 1pcl b.80.1.1 28023 1ogtA 276 7.57e+00 b.1.1.2 -2608 d.19.1.1 -9360 1k5nA 276 7.87e+00 b.1.1.2 77266 d.19.1.1 77267 1cnv 299 8.36e+00 1cnv c.1.8.5 28989 1gqrA 532 8.76e+00 c.69.1.1 70374 1eeaA 534 8.76e+00 2bce c.69.1.1 34609 2dfpA 534 8.77e+00 2bce c.69.1.1 34597 1acj 537 8.83e+00 2bce c.69.1.1 34588 1ea5A 537 8.83e+00 2bce c.69.1.1 34592 1e66A 543 8.88e+00 c.69.1.1 59291 1bwr 233 9.02e+00 1wab c.23.10.3 31344 1jihA 531 9.05e+00 unknown_sccs -10212 unknown_sccs -11922 1c3fA 265 9.84e+00 2ebn c.1.8.5 28999 1euzA 419 1.03e+01 1k89 c.2.1.7 59513 c.58.1.1 59514 1c3pA 375 1.03e+01 1c3pA c.42.1.2 32606 2amg 418 1.06e+01 1jdc b.71.1.1 27796 c.1.8.1 28783 1vj3A 205 1.08e+01 c.71.1.1 -8370 1dyr 206 1.08e+01 1aoeA c.71.1.1 34916 1uf2A 1019 1.11e+01 unknown_sccs -12036 1bwq 233 1.11e+01 1wab c.23.10.3 31343 1qi4A 429 1.12e+01 1jdc b.71.1.1 27791 c.1.8.1 28778 1tklA 326 1.13e+01 1kzhA 555 1.13e+01 c.89.1.1 73361 1hdhA 536 1.14e+01 c.76.1.2 65805 1c3rA 375 1.15e+01 1c3pA c.42.1.2 32607 1c91A 265 1.16e+01 2ebn c.1.8.5 29000 1gcyA 527 1.17e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1jdc 429 1.17e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1qi3A 429 1.19e+01 1jdc b.71.1.1 27794 c.1.8.1 28781 1o0uA 429 1.24e+01 c.118.1.1 80743 1ub0A 258 1.24e+01 c.72.1.2 88394 1c93A 265 1.26e+01 2ebn c.1.8.5 28998 1edt 271 1.26e+01 2ebn c.1.8.5 28993 1wab 232 1.26e+01 1wab c.23.10.3 31341 1sjdA 368 1.29e+01 1qpkA 418 1.30e+01 1jdc b.71.1.1 27793 c.1.8.1 28780 1oy5A 257 1.34e+01 c.116.1.4 -6699 1c8xA 265 1.36e+01 2ebn c.1.8.5 28994 1es9A 232 1.37e+01 1wab c.23.10.3 31340 1ed3A 275 1.40e+01 1agdA b.1.1.2 20847 d.19.1.1 38313 1kjmA 285 1.41e+01 b.1.1.2 77416 d.19.1.1 77417 1urxA 282 1.42e+01 b.29.1.2 -3409 1mjfA 281 1.43e+01 c.66.1.17 79198 1qi5A 429 1.46e+01 1jdc b.71.1.1 27792 c.1.8.1 28779 1bzyA 217 1.47e+01 1qk3A c.61.1.1 34071 1lvwA 295 1.48e+01 c.68.1.6 84723 1pn2A 280 1.48e+01 d.38.1.4 -9654 d.38.1.4 -9655 1c90A 265 1.54e+01 2ebn c.1.8.5 28996 1c92A 265 1.56e+01 2ebn c.1.8.5 29001 1bwp 233 1.60e+01 1wab c.23.10.3 31342 1d6nA 214 1.68e+01 1qk3A c.61.1.1 34077 1c8yA 265 1.92e+01 2ebn c.1.8.5 28995 1c4kA 730 1.93e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1nox 205 1.93e+01 1nox d.90.1.1 40242 1o4yA 288 2.21e+01 b.29.1.2 -3404 1qc7A 101 2.25e+01 1qc7A a.118.14.1 18456 1qxpA 900 2.36e+01 a.39.1.8 -861 a.39.1.8 -870 b.14.1.1 -3041 d.3.1.3 -8887 1pl3A 186 2.37e+01 b.1.9.1 88158 1qjpA 171 2.42e+01 1bxwA f.4.1.1 43742 1bxwA 172 2.44e+01 1bxwA f.4.1.1 43743 1o8oA 167 2.48e+01 c.57.1.1 -7898 8rucA 475 2.52e+01 1burA c.1.14.1 29339 d.58.9.1 39245 1mqsA 671 2.53e+01 e.25.1.1 79414 1ordA 730 2.53e+01 1ordA c.23.1.4 31274 c.67.1.5 34503 d.125.1.1 41124 1rxoB 475 2.56e+01 1burA c.1.14.1 29352 d.58.9.1 39258 1ofuA 320 2.66e+01 c.32.1.1 86972 d.79.2.1 86973 1iq6A 134 2.68e+01 d.38.1.4 76755 1uxlA 153 2.69e+01 b.1.8.1 -2816 1odgA 134 2.72e+01 c.52.1.15 86849 1q7zA 566 2.73e+01 c.1.21.2 -5638 c.1.26.1 -5666 1vsrA 136 2.74e+01 1vsrA c.52.1.15 33332 1ufoA 238 2.76e+01 unknown_sccs -8303 1lkvX 232 2.78e+01 a.118.14.1 73980 1g6oA 330 2.80e+01 1g6oA c.37.1.11 32430 1nni1 174 2.81e+01 1qq9A 284 2.82e+01 1xjo c.56.5.4 33841 1fuiA 591 2.84e+01 1fuiA b.43.2.1 25674 c.85.1.1 35444 1cw0A 155 2.86e+01 1vsrA c.52.1.15 33333 1l4uA 176 2.87e+01 c.37.1.2 73568 1ej0A 180 3.01e+01 1ej0A c.66.1.2 34179 1o6zA 303 3.02e+01 c.2.1.5 81107 d.162.1.1 81108 1e19A 314 3.04e+01 1b7bA c.73.1.1 34967 1ld9A 268 3.05e+01 1agdA b.1.1.2 20835 d.19.1.1 38307 1ldpH 272 3.07e+01 1agdA b.1.1.2 20839 d.19.1.1 38309 1kggA 258 3.18e+01 1btl e.3.1.1 42715 1h5sD 293 3.37e+01 c.68.1.6 65630 1tovA 98 3.39e+01 1p48A 436 3.53e+01 c.1.11.1 -5561 d.54.1.1 -9819 1hocA 272 3.53e+01 1agdA b.1.1.2 20815 d.19.1.1 38297 1ce6A 274 3.57e+01 1agdA b.1.1.2 20819 d.19.1.1 38299 1vpe 398 3.59e+01 16pk c.86.1.1 35453 1v6sA 390 3.59e+01 c.86.1.1 -8567 1inqA 275 3.60e+01 b.1.1.2 71247 d.19.1.1 71248 1jpfA 281 3.61e+01 b.1.1.2 67016 d.19.1.1 67017 1jufA 276 3.62e+01 b.1.1.2 71881 d.19.1.1 71882 1qlfA 276 3.62e+01 1agdA b.1.1.2 20817 d.19.1.1 38298 1ffpA 273 3.63e+01 b.1.1.2 76177 d.19.1.1 76178 1pv5A 264 3.63e+01 unknown_sccs -10182 1n3nA 280 3.68e+01 b.1.1.2 85303 d.19.1.1 85304 1umyA 407 3.71e+01 c.1.26.1 -5656 1lplA 95 3.71e+01 b.34.10.1 74173 1bz9A 277 3.72e+01 1agdA b.1.1.2 20829 d.19.1.1 38304 1nj8A 459 3.83e+01 c.51.1.1 85769 d.68.5.1 85770 d.104.1.1 85771 1hsoA 374 3.85e+01 2ohxA b.35.1.2 24731 c.2.1.1 29747 3rubL 477 3.85e+01 1burA c.1.14.1 29326 d.58.9.1 39232 1mjgM 729 3.87e+01 e.26.1.3 79204 1oaoC 729 3.87e+01 e.26.1.3 86746 1m6oA 276 3.89e+01 b.1.1.2 -2601 d.19.1.1 -9362 1dpuA 99 3.89e+01 1dpuA a.4.5.16 16150 1o5zA 442 3.92e+01 c.59.1.2 -7939 c.72.2.2 -8418 1pgjA 478 3.98e+01 2pgd a.100.1.1 18783 c.2.1.6 30195 1p43A 436 3.99e+01 c.1.11.1 -5559 d.54.1.1 -9817