# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1gvhA 396 1.08e-02 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1j58A 385 8.09e-02 b.82.1.2 71531 1in4A 334 2.35e-01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1juhA 350 2.72e-01 b.82.1.5 71884 1cur 155 3.83e-01 1rcy b.6.1.1 23021 1h1iD 350 5.32e-01 b.82.1.5 76472 1h1iC 350 5.32e-01 b.82.1.5 76471 1h1iB 350 5.57e-01 b.82.1.5 76470 1in6A 334 6.76e-01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1g5pA 289 7.18e-01 1cp2A c.37.1.10 32253 1fp6A 289 7.36e-01 1cp2A c.37.1.10 32243 1sbp 310 1.19e+00 1sbp c.94.1.1 35760 1rcy 151 1.21e+00 1rcy b.6.1.1 23018 1fxzA 476 1.42e+00 b.82.1.2 65059 b.82.1.2 65060 1e30A 155 1.48e+00 1rcy b.6.1.1 23016 1kk9A 221 1.58e+00 d.115.1.1 77432 1nipA 289 1.63e+00 1cp2A c.37.1.10 32263 1k7jA 206 1.77e+00 d.115.1.1 72103 1a3z 155 1.88e+00 1rcy b.6.1.1 23019 1pxwA 128 2.66e+00 1khxA 227 3.57e+00 b.26.1.1 68631 1od5A 492 3.84e+00 b.82.1.2 86832 b.82.1.2 86833 1dzrA 183 4.05e+00 1dzrA b.82.1.1 28076 1hkvA 453 4.75e+00 b.49.2.3 83559 c.1.6.1 83560 1p35A 299 5.03e+00 1p35A b.28.1.1 23925 1qvjA 292 5.42e+00 1evhA 112 5.80e+00 1evhA b.55.1.4 26997 1rxr 83 6.00e+00 2nllB g.39.1.2 45114 1f7sA 139 6.53e+00 1cof d.109.1.2 40857 1kv9A 668 6.72e+00 a.3.1.6 73056 b.70.1.1 73057 1afb1 154 7.43e+00 1rtm1 1kb0A 677 7.47e+00 a.3.1.6 68378 b.70.1.1 68379 8acn 754 7.67e+00 1amj c.8.2.1 30724 c.83.1.1 35400 1lay 256 8.76e+00 1lay b.57.1.1 27014 1a6q 382 9.07e+00 1a6q a.159.1.1 75801 d.219.1.1 75802 1q33A 292 9.10e+00 1kbvA 327 9.22e+00 b.6.1.3 68395 b.6.1.3 68396 7acn 754 1.00e+01 1amj c.8.2.1 30717 c.83.1.1 35393 2cavA 445 1.01e+01 1dgwA b.82.1.2 28094 b.82.1.2 28095 1hkfA 122 1.03e+01 b.1.1.1 83553 1amj 754 1.05e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1b0jA 754 1.14e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1ep0A 185 1.20e+01 1dzrA b.82.1.1 28080 1kwnA 207 1.20e+01 b.25.1.1 77568 1mt6A 280 1.21e+01 b.76.2.1 79446 b.85.7.1 79447 1hv9A 456 1.21e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1c96A 753 1.21e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1qbiA 454 1.23e+01 1c9uA b.68.2.1 27619 2nllA 66 1.24e+01 2nllB g.39.1.2 45109 2phlA 397 1.28e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1oj4A 283 1.36e+01 1n93X 375 1.40e+01 1c9uA 454 1.40e+01 1c9uA b.68.2.1 27623 1thv 207 1.44e+01 1thv b.25.1.1 23904 1nscA 390 1.44e+01 2qwc b.68.1.1 27591 1thw 207 1.46e+01 1thv b.25.1.1 23903 1gqzA 274 1.50e+01 d.21.1.1 83311 d.21.1.1 83312 1kmvA 186 1.72e+01 c.71.1.1 72757 1cruA 454 1.74e+01 1c9uA b.68.2.1 27617 1rqwA 207 1.78e+01 1h3iA 293 1.78e+01 b.76.2.1 76635 b.85.7.1 76636 1n2eA 300 1.80e+01 c.26.1.4 85268 1di1A 300 1.86e+01 1di1A a.128.1.4 19446 1wpoB 256 1.86e+01 1lay b.57.1.1 27013 1qxrA 189 1.87e+01 1q7bA 244 1.87e+01 1bwzA 274 1.91e+01 1bwzA d.21.1.1 38337 d.21.1.1 38338 1dmhA 311 1.92e+01 1dmhA b.3.6.1 22633 1h1yA 228 1.98e+01 c.1.2.2 76506 1dszB 85 2.07e+01 2nllB g.39.1.2 45108 1plzA 189 2.08e+01 b.82.1.7 88160 6acn 754 2.14e+01 1amj c.8.2.1 30721 c.83.1.1 35397 2msbB 115 2.22e+01 1rtm1 d.169.1.1 42356 1aerA 205 2.22e+01 1aerA d.166.1.1 42249 1mopA 300 2.27e+01 c.26.1.4 85035 1jlxA 304 2.34e+01 1jlyA b.42.3.1 25583 b.42.3.1 25584 1pea 385 2.48e+01 1pea c.93.1.1 35662 1t9kA 347 2.52e+01 1k6dA 220 2.54e+01 c.63.1.2 72082 1aun 208 2.55e+01 1thv b.25.1.1 23900 2msbA 115 2.55e+01 1rtm1 d.169.1.1 42355 1fw9A 164 2.57e+01 1fw9A d.190.1.1 60059 1jlyA 304 2.62e+01 1jlyA b.42.3.1 25587 b.42.3.1 25588 1wpoA 256 2.65e+01 1lay b.57.1.1 27012 1q44A 326 2.68e+01 1hqcA 324 2.76e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1b65A 375 2.90e+01 1b65A d.154.1.1 42020 1q8fA 313 2.94e+01 1dmaA 214 3.06e+01 1aerA d.166.1.1 42251 1m98A 317 3.07e+01 a.175.1.1 78866 d.17.4.6 78867 1grj 158 3.08e+01 1grj a.2.1.1 15691 d.26.1.2 38433 1iybA 208 3.09e+01 1mc3A 296 3.16e+01 c.68.1.6 78943 1l8bA 190 3.21e+01 d.86.1.1 73683 3pfk 319 3.31e+01 3pfk c.89.1.1 35581 6pfkA 319 3.42e+01 3pfk c.89.1.1 35583 1nd6A 354 3.42e+01 c.60.1.2 80407 1lzlA 323 3.44e+01 c.69.1.2 78306 1kfuS 184 3.46e+01 a.39.1.8 68574 1cviA 342 3.48e+01 1cviA c.60.1.2 33989 4uagA 437 3.49e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1ecpA 238 3.52e+01 1ecpA c.56.2.1 33775 1mp8A 281 3.56e+01 1lr5A 163 3.68e+01 b.82.1.2 74215 1ihoA 283 3.73e+01 1ihoA c.26.1.4 62390 1gggB 226 3.76e+01 1lst c.94.1.1 35818 1mfqC 129 3.81e+01 a.36.1.1 79046 1ojxA 263 3.83e+01 1cqxA 403 3.92e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1f8yA 157 3.98e+01 1f8xA c.23.14.1 31395 1f8xA 157 3.99e+01 1f8xA c.23.14.1 31397 4pfk 319 3.99e+01 3pfk c.89.1.1 35582 2hpaA 342 4.00e+01 1cviA c.60.1.2 33985