# 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 1lo7A 141 8.55e-05 1bvqA 141 1.15e-04 1bvqA d.38.1.1 38542 2bpa1 426 1.20e-01 2bpa1 1c8uA 285 4.79e-01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1xypA 190 6.22e-01 1axkA b.29.1.11 24327 1lylA 504 1.12e+00 1lylA b.40.4.1 25261 d.104.1.1 40717 1k32A 1045 1.46e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1hnuA 280 1.56e+00 1hnoA c.14.1.3 61096 1hnoA 280 1.56e+00 1hnoA c.14.1.3 61095 1dqeA 137 1.65e+00 1dqeA a.39.2.1 17388 1koqA 253 1.68e+00 2cba b.74.1.1 27964 1bzyA 217 2.52e+00 1qk3A c.61.1.1 34071 1ejfA 125 4.90e+00 1ejfA b.15.1.2 23683 1qqtA 551 4.98e+00 1qqtA a.27.1.1 16923 c.26.1.1 31590 g.41.1.1 45175 1f4lA 551 5.16e+00 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1e1oA 504 5.22e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1e32A 458 5.74e+00 1e32A b.52.2.3 59183 c.37.1.13 59184 d.31.1.1 59185 1eqkA 102 5.81e+00 1eqkA d.17.1.2 37998 1mdc 133 6.43e+00 1hmt b.60.1.2 27198 1pyaB 228 6.47e+00 1pyaB 1cor 82 6.51e+00 451c a.3.1.1 15903 1svb 395 6.70e+00 1svb b.1.1.5 21814 f.10.1.1 43827 1kopA 223 6.78e+00 2cba b.74.1.1 27966 1iq0A 592 7.06e+00 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1hjrA 158 7.48e+00 1hjrA c.55.3.6 33727 4sli 679 7.61e+00 2sli b.29.1.9 24275 b.68.1.1 27612 2ae2A 260 7.84e+00 1bdb c.2.1.2 29945 1xnb 185 7.89e+00 1axkA b.29.1.11 24308 2sli 679 8.59e+00 2sli b.29.1.9 24274 b.68.1.1 27611 1b65A 375 9.84e+00 1b65A d.154.1.1 42020 2pcdM 238 1.07e+01 3pchM b.3.6.1 22760 3pcgM 238 1.07e+01 3pchM b.3.6.1 22742 1czyA 168 1.10e+01 1d0aB b.8.1.1 23220 h.1.2.1 45427 1mkaA 171 1.13e+01 1mkaA d.38.1.2 38543 1nfiA 301 1.13e+01 1a3qA b.1.1.5 21942 b.2.5.1 22455 3pchM 238 1.13e+01 3pchM b.3.6.1 22748 1czyC 168 1.15e+01 1d0aB b.8.1.1 23222 h.1.2.1 45429 1ca4A 168 1.15e+01 1d0aB b.8.1.1 23238 h.1.2.1 45445 1fjgQ 105 1.24e+01 1fjfQ b.40.4.5 25352 1sltA 134 1.29e+01 1c1lA b.29.1.3 24186 1ca9A 192 1.43e+01 1d0aB b.8.1.1 23244 h.1.2.1 45451 1dabA 539 1.43e+01 1dabA b.80.1.7 28049 1lcl 142 1.44e+01 1lcl b.29.1.3 24216 1hdkA 141 1.48e+01 b.29.1.3 65807 1kawA 135 1.48e+01 3ullA b.40.4.3 25288 1ga6A 372 1.66e+01 1ga1A c.41.1.2 32556 1ga1A 372 1.66e+01 1ga1A c.41.1.2 32557 1axkA 394 1.77e+01 1axkA b.29.1.2 24181 b.29.1.11 24315 1h5uA 842 1.89e+01 1a8i c.87.1.4 60655 1tf4A 605 1.90e+01 1tf4A a.102.1.2 18827 b.2.2.2 22393 1ktpB 172 1.94e+01 1eo9B 241 2.08e+01 3pchM b.3.6.1 22826 1qhvA 195 2.28e+01 1qhvA b.21.1.1 23842 1qh5A 260 2.34e+01 1qh5A d.157.1.2 42057 1slaA 134 2.46e+01 1c1lA b.29.1.3 24196 1cpcB 172 2.47e+01 1qgwC a.1.1.3 15644 1cpcL 172 2.48e+01 1qgwC a.1.1.3 15646 1cwvA 492 2.53e+01 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 1b64 91 2.54e+01 1b64 d.58.12.1 39306 1nmtA 392 2.56e+01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1cb0A 283 2.58e+01 1cb0A c.56.2.1 33790 1php 394 2.68e+01 16pk c.86.1.1 35452 1hmpA 217 2.78e+01 1qk3A c.61.1.1 34075 1qg3A 195 2.81e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1phnB 172 2.82e+01 1qgwC a.1.1.3 15642 1ibcB 88 2.93e+01 1pauB 1eo1A 124 2.98e+01 1eo1A c.55.5.1 33739 1bmqB 88 3.00e+01 1pauB 1b87A 181 3.02e+01 1b87A d.108.1.1 40797 1sltB 134 3.04e+01 1c1lA b.29.1.3 24187 1axiB 236 3.05e+01 1axiB b.1.2.1 21997 b.1.2.1 21998 1fjsA 234 3.10e+01 1ucyE b.47.1.2 26336 2pia 321 3.16e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1krs 120 3.23e+01 1krs b.40.4.1 25256 1g2lA 235 3.24e+01 b.47.1.2 65112 1mpgA 282 3.31e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1c0aA 585 3.36e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1aozA 552 3.62e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1e2wA 251 3.70e+01 1hcz b.2.6.1 22466 b.84.2.2 28252 1jkgA 140 3.84e+01 d.17.4.2 66795 1qgwC 177 3.85e+01 1qgwC a.1.1.3 15673 2shpA 525 3.87e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1i0rA 169 3.87e+01 1i0rA b.45.1.2 61489 1i0sA 169 3.87e+01 1i0rA b.45.1.2 61491 1f42A 306 3.88e+01 1f42A b.1.1.4 59636 b.1.2.1 59637 b.1.2.1 59638 1ee2A 373 3.90e+01 2ohxA b.35.1.2 24663 c.2.1.1 29679 1xgsA 295 3.92e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153