# 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 1gefA 123 2.11e-01 1gefA c.52.1.18 60465 1e1hA 287 1.57e+00 d.92.1.7 83167 2g7nA 425 1.84e+00 2g7pA 425 1.92e+00 2q3sA 206 2.35e+00 c.55.3.5 139802 2ba0G 259 2.36e+00 2vfaA 229 4.34e+00 1vfnA 281 5.04e+00 c.56.2.1 33773 1lvuA 289 5.09e+00 c.56.2.1 91146 2qplA 282 5.11e+00 1b8oA 284 5.12e+00 1b8oA c.56.2.1 33762 2ai2A 289 5.14e+00 c.56.2.1 126814 1fxuA 289 5.15e+00 1b8oA c.56.2.1 33772 1a9tA 284 5.17e+00 c.56.2.1 33765 1a9rA 282 5.17e+00 c.56.2.1 33767 3pnpA 289 5.20e+00 c.56.2.1 33763 1a9sA 289 5.20e+00 c.56.2.1 33768 1hh1A 143 5.38e+00 1gefA c.52.1.18 61036 2es9A 115 6.26e+00 a.247.1.1 132318 1lvwA 295 6.85e+00 c.68.1.6 84723 2eo0A 147 8.42e+00 2ct3A 70 9.03e+00 1on3A 523 9.05e+00 c.14.1.4 87107 c.14.1.4 87108 2e74D 179 9.99e+00 b.33.1.1 132049 f.23.12.1 132050 1vf5D 179 1.00e+01 b.33.1.1 100583 f.23.12.1 100584 2p4sA 373 1.15e+01 1xzwA 426 1.21e+01 b.1.12.1 116270 d.159.1.1 116271 1q7fA 286 1.28e+01 b.68.9.1 96036 1qydA 313 1.29e+01 c.2.1.2 96583 3c2bA 221 1.30e+01 1pv9A 348 1.41e+01 c.55.2.1 95157 d.127.1.1 95158 1mqmB 221 1.41e+01 h.3.1.1 91407 1x9gA 200 1.45e+01 c.33.1.3 109527 1rldA 446 1.45e+01 1burA c.1.14.1 29328 d.58.9.1 39234 2ii2A 310 1.54e+01 3crvA 551 1.58e+01 2hhpA 530 1.60e+01 a.160.1.1 136503 d.218.1.3 136504 d.58.16.1 136505 3c66A 537 1.62e+01 1fa0A 537 1.62e+01 1fa0B a.160.1.1 75837 d.218.1.3 75838 d.58.16.1 39335 1fa0B 537 1.62e+01 1fa0B a.160.1.1 75839 d.218.1.3 75840 d.58.16.1 39336 2o1pA 546 1.62e+01 a.160.1.1 138875 d.218.1.3 138876 d.58.16.1 138877 1oaoA 674 1.62e+01 e.26.1.2 86744 1nw1A 429 1.67e+01 d.144.1.8 86286 1bmrA 67 1.78e+01 g.3.7.1 44144 3cc6A 281 1.81e+01 2q66A 525 1.82e+01 1l1jA 239 1.94e+01 b.47.1.1 84516 2hpsA 186 2.01e+01 1stzA 338 2.03e+01 a.4.5.51 106009 d.110.2.3 106010 1gyoA 109 2.11e+01 a.138.1.1 70763 2jc5A 259 2.15e+01 1x9qA 268 2.20e+01 3rubL 477 2.23e+01 1burA c.1.14.1 29326 d.58.9.1 39232 1rlcL 477 2.24e+01 1burA c.1.14.1 29330 d.58.9.1 39236 1ej7L 475 2.25e+01 1burA c.1.14.1 29327 d.58.9.1 39233 2ishA 421 2.32e+01 3c8bA 432 2.34e+01 3bonA 425 2.35e+01 2ilpA 444 2.38e+01 d.92.1.7 137496 1n32D 208 2.39e+01 d.66.1.2 79872 2vqeD 209 2.40e+01 2uubD 209 2.40e+01 d.66.1.2 139935 8rucA 475 2.42e+01 1burA c.1.14.1 29339 d.58.9.1 39245 1fepA 724 2.44e+01 1fepA f.4.3.3 43808 1rxoB 475 2.47e+01 1burA c.1.14.1 29352 d.58.9.1 39258 1xtfA 427 2.48e+01 d.92.1.7 116018 1xtgA 424 2.48e+01 d.92.1.7 116020 1fjgD 209 2.48e+01 1c05A d.66.1.2 39553 1y0kA 209 2.48e+01 c.52.1.31 122485 1y88A 199 2.55e+01 a.60.4.3 116560 c.52.1.30 116561 3bs2A 148 2.55e+01 3bu1A 148 2.56e+01 1ujzA 87 2.57e+01 a.28.2.1 99475 2j43A 219 2.73e+01 3bu9A 148 2.74e+01 1s5aA 150 2.97e+01 d.17.4.10 98525 2i2qA 137 3.11e+01 2on7A 206 3.18e+01 2jojA 77 3.47e+01 1q3aA 165 3.48e+01 d.92.1.11 95664 2pqxA 245 3.56e+01 1gk5A 49 3.59e+01 g.3.11.1 70209 2pzhA 135 3.77e+01 2nrjA 346 3.90e+01 1ibgH 217 3.90e+01 1igtB b.1.1.1 20049 b.1.1.2 21091 1cjbA 231 3.91e+01 1qk3A c.61.1.1 34079 2dejA 350 3.99e+01 2cz9A 350 3.99e+01