# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1ttbA 127 9.40e-23 1etb1 b.3.4.1 22543 1eta1 127 1.03e-22 1etb1 1etb1 127 1.11e-22 1etb1 2pabA 127 1.43e-22 1etb1 b.3.4.1 22597 1f41A 127 1.69e-22 1etb1 b.3.4.1 22539 1f86A 115 1.97e-22 1etb1 b.3.4.1 59689 1tfpA 130 3.19e-22 1etb1 b.3.4.1 22623 2rspB 124 2.11e-02 2rspB b.50.1.1 26772 1qmuA 380 4.63e-02 1qmuA b.3.2.1 22534 c.56.5.1 33827 2rspA 124 2.01e-01 2rspB b.50.1.1 26771 1js8A 394 5.33e-01 a.86.1.1 67219 b.1.1.5 67220 1ew3A 159 7.18e-01 1mup b.60.1.1 27114 1ah1 129 1.01e+00 1ah1 b.1.1.1 20652 1gmeA 151 1.02e+00 b.15.1.1 65305 1mvpA 124 1.04e+00 2rspB b.50.1.1 26775 1jj2A 239 1.19e+00 1rl2A b.34.5.3 63084 b.40.4.5 63085 1cwvA 492 1.59e+00 1cwvA b.1.14.1 22373 b.1.14.1 22374 b.1.14.1 22375 b.1.14.1 22376 d.169.1.3 42442 1dmhA 311 1.91e+00 1dmhA b.3.6.1 22633 3pcgA 200 1.99e+00 3pchA b.3.6.1 22647 1dkxA 219 2.53e+00 1dkzA e.20.1.1 43315 3pchM 238 3.12e+00 3pchM b.3.6.1 22748 1pcfA 66 3.76e+00 1pcfA d.18.1.1 38142 3pcgM 238 3.87e+00 3pchM b.3.6.1 22742 2pcdM 238 3.87e+00 3pchM b.3.6.1 22760 1inp 400 4.28e+00 1inp e.7.1.1 42972 2sak 121 4.33e+00 2sak d.15.5.1 37711 1kas 412 4.62e+00 1dd8A c.95.1.1 35964 c.95.1.1 35965 1b3nA 412 4.66e+00 1dd8A c.95.1.1 35966 c.95.1.1 35967 2prd 174 5.02e+00 2prd b.40.5.1 25435 1yaiA 151 5.54e+00 1yaiA b.1.8.1 22289 1apmE 350 5.66e+00 1cdkA d.144.1.1 41628 1lktA 104 5.71e+00 1lktA b.90.1.1 28398 1g84A 105 6.06e+00 1g84A b.1.1.2 60345 1dkzA 219 6.88e+00 1dkzA e.20.1.1 43314 1a3k 137 7.05e+00 1a3k b.29.1.3 24218 1tnfA 158 7.33e+00 2tnfA b.22.1.1 23871 1emwA 88 7.49e+00 1emwA d.27.1.1 38448 1eo9B 241 7.58e+00 3pchM b.3.6.1 22826 1cjcA 460 7.71e+00 1cjcA c.3.1.1 30319 c.4.1.1 30604 1nfkA 325 8.06e+00 1a3qA b.1.1.5 21929 b.2.5.1 22444 1jdpA 441 8.96e+00 c.93.1.1 62906 1quqB 121 9.15e+00 1quqB b.40.4.3 25305 1igtB 444 9.87e+00 1igtB b.1.1.1 19765 b.1.1.2 20867 b.1.1.2 20868 b.1.1.2 20869 1gpr 162 1.05e+01 1gpr b.84.3.1 28267 1dvfD 120 1.09e+01 1mfa b.1.1.1 20107 1d6mA 653 1.11e+01 1d6mA e.10.1.1 43248 1pgs 314 1.12e+01 1pgs b.13.1.1 23653 b.13.1.1 23654 1cknA 330 1.16e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1thv 207 1.20e+01 1thv b.25.1.1 23904 2pcdA 200 1.26e+01 3pchA b.3.6.1 22665 3pchA 200 1.28e+01 3pchA b.3.6.1 22653 3pcnA 200 1.31e+01 3pchA b.3.6.1 22725 1ckmA 330 1.35e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1jnuA 104 1.37e+01 1pdkB 157 1.38e+01 1pdkB b.2.3.2 22427 1cmkE 350 1.46e+01 1cdkA d.144.1.1 41623 1dixA 208 1.49e+01 1bk7A d.124.1.1 41122 1thw 207 1.53e+01 1thv b.25.1.1 23903 1a12A 413 1.53e+01 1a12A b.69.5.1 27663 1jmxB 349 1.57e+01 b.69.2.2 66906 1who 96 1.58e+01 1who b.7.3.1 23215 2arcB 164 1.61e+01 2arcA b.82.4.1 28149 1gya 105 1.64e+01 1qa9A b.1.1.1 19745 1ktzB 122 1.85e+01 g.7.1.3 68868 1pxtB 390 1.90e+01 1afwA c.95.1.1 35906 c.95.1.1 35907 1k42A 168 1.93e+01 1dqtA 117 2.06e+01 1ah1 b.1.1.1 20653 1g7jB 116 2.07e+01 1f3rB b.1.1.1 19933 1a3qA 285 2.08e+01 1a3qA b.1.1.5 21932 b.2.5.1 22447 1qlgA 355 2.08e+01 1qlgA b.68.3.1 27627 2pooA 355 2.11e+01 1qlgA b.68.3.1 27626 1i7dA 659 2.16e+01 1d6mA e.10.1.1 61886 1igtD 444 2.18e+01 1igtB b.1.1.1 19767 b.1.1.2 20871 b.1.1.2 20872 b.1.1.2 20873 2nlrA 234 2.22e+01 2nlrA b.29.1.11 24344 1cvmA 353 2.23e+01 1qlgA b.68.3.1 27628 1jetA 517 2.32e+01 1jevA c.94.1.1 35718 2olbA 517 2.33e+01 1jevA c.94.1.1 35721 1d2kA 392 2.34e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1jevA 517 2.36e+01 1jevA c.94.1.1 35720 1ag9A 175 2.46e+01 1rcf c.23.5.1 31178 2gpr 154 2.46e+01 1gpr b.84.3.1 28269 1gpl 432 2.50e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 1kay 381 2.59e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1ba1 386 2.60e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1bupA 386 2.61e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1fjgP 88 2.64e+01 1emwA d.27.1.1 38444 1azsA 220 2.68e+01 1azsA d.58.29.1 39416 1vcbA 118 2.79e+01 1vcbA d.15.1.1 37603 1afwA 393 2.88e+01 1afwA c.95.1.1 35900 c.95.1.1 35901 1l7jB 347 2.92e+01 1a2yB 116 3.02e+01 1gc1H b.1.1.1 19927 1cb0A 283 3.03e+01 1cb0A c.56.2.1 33790 2jhbA 143 3.16e+01 2jhbA b.54.1.1 26950 1cleA 534 3.22e+01 1thg c.69.1.17 34771 1gen 218 3.28e+01 1gen b.66.1.1 27536 1a6wH 120 3.34e+01 1mfa b.1.1.1 20253 2tnfA 156 3.40e+01 2tnfA b.22.1.1 23880 1a15A 67 3.42e+01 1a15A d.9.1.1 37451 1e5mA 416 3.45e+01 1dd8A c.95.1.1 58973 c.95.1.1 58974 2arcA 164 3.46e+01 2arcA b.82.4.1 28148 1dapA 320 3.51e+01 1dapA c.2.1.3 30053 d.81.1.3 39968 1dfcA 493 3.56e+01 1dfcA b.42.5.1 25616 b.42.5.1 25617 b.42.5.1 25618 b.42.5.1 25619 1h6lA 353 3.57e+01 b.68.3.1 60687 1rss 151 3.72e+01 1rss a.75.1.1 18392 1u9aA 160 3.83e+01 1u9aA d.20.1.1 38333 1l4iA 206 3.84e+01 1nlr 234 3.85e+01 2nlrA b.29.1.11 24345 1pse 69 3.99e+01 1pse b.34.4.2 24595