# 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 1ptmA 329 5.97e-01 unknown_sccs -8456 1q48A 134 7.46e-01 unknown_sccs -9776 1rvkA 382 1.54e+00 c.1.11.2 -5568 d.54.1.1 -9826 1fiuA 286 2.29e+00 1fiuA c.52.1.10 33317 1vjpA 394 2.94e+00 c.2.1.3 -5897 d.81.1.3 -10480 1kk8B 139 3.01e+00 a.39.1.5 77430 1lshB 319 4.76e+00 f.7.1.1 74245 1mpxA 615 5.34e+00 b.18.1.13 85041 c.69.1.21 85042 1exqA 154 5.57e+00 1b9dA c.55.3.2 33646 1j54A 186 6.06e+00 c.55.3.5 77077 1scmB 145 6.52e+00 1wdcB a.39.1.5 17304 1kay 381 8.71e+00 1ba1 c.55.1.1 33385 c.55.1.1 33386 1ba1 386 8.90e+00 1ba1 c.55.1.1 33387 c.55.1.1 33388 1bupA 386 8.92e+00 1ba1 c.55.1.1 33377 c.55.1.1 33378 1wdcB 156 9.04e+00 1wdcB a.39.1.5 17302 1a0cA 438 1.03e+01 1a0cA c.1.15.3 29529 1j93A 353 1.21e+01 c.1.22.1 66454 1fds 327 1.23e+01 1fds c.2.1.2 29838 1bl3A 160 1.24e+01 1b9dA c.55.3.2 33655 1b9dA 163 1.24e+01 1b9dA c.55.3.2 33649 1i5sA 367 1.26e+01 1bg2 c.37.1.9 61822 1qnoA 344 1.29e+01 1qnoA c.1.8.3 28838 1b8oA 284 1.32e+01 1b8oA c.56.2.1 33762 1ad3A 452 1.36e+01 1ad3A c.82.1.1 35335 1cqwA 295 1.38e+01 1b6g c.69.1.8 34679 1i6iA 366 1.42e+01 1bg2 c.37.1.9 61844 1ak1 310 1.45e+01 1ak1 c.92.1.1 35594 1axdA 209 1.45e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 1hyvA 166 1.47e+01 1b9dA c.55.3.2 61424 1ihrA 76 1.49e+01 1ihrA d.212.1.2 62392 1a27 289 1.52e+01 1fds c.2.1.2 29839 1dozA 309 1.53e+01 1ak1 c.92.1.1 35592 1itg 166 1.53e+01 1b9dA c.55.3.2 33661 1jtvA 327 1.56e+01 c.2.1.2 84230 1qnrA 344 1.59e+01 1qnoA c.1.8.3 28834 1jyoA 130 1.59e+01 d.198.1.1 67483 1q1hA 110 1.84e+01 unknown_sccs -262 1k8kA 418 1.86e+01 c.55.1.1 68305 c.55.1.1 68306 1uteA 313 1.88e+01 1uteA d.159.1.1 42078 2phlA 397 1.92e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1i5rA 327 1.92e+01 c.2.1.2 83668 1itkA 731 1.97e+01 a.93.1.3 71417 a.93.1.3 71418 1huxA 270 1.98e+01 1huxA c.55.1.5 61278 1mdl 359 2.06e+01 2mnr c.1.11.2 29247 d.54.1.1 38891 1fdt 327 2.16e+01 1fds c.2.1.2 29841 1r4vA 171 2.18e+01 unknown_sccs -1221 1n9lA 109 2.21e+01 d.110.3.6 85468 1dkxA 219 2.38e+01 1dkzA unknown_sccs -446 unknown_sccs -3061 1jdfA 447 2.39e+01 c.1.11.2 62897 d.54.1.1 62898 1dkzA 219 2.42e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1iw0A 215 2.44e+01 a.132.1.1 83720 1sbxA 106 2.65e+01 1tx4B 178 2.76e+01 1ctqA c.37.1.8 32045 1nnhA 294 2.79e+01 d.104.1.1 -10772 1gt7A 274 2.85e+01 c.74.1.1 70398 1hdiA 413 2.92e+01 16pk c.86.1.1 60964 1dmgA 225 2.93e+01 1dmgA c.22.1.1 31036 1zpdA 568 3.02e+01 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1kssA 571 3.04e+01 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1bn7A 294 3.05e+01 1bn6A c.69.1.8 34677 1qi6A 475 3.06e+01 1euhA c.82.1.1 35373 1j34B 123 3.13e+01 d.169.1.1 84049 1viaA 175 3.20e+01 c.37.1.2 -7021 1bn6A 294 3.20e+01 1bn6A c.69.1.8 34678 1ucyH 150 3.24e+01 1ucyH 1m64A 571 3.29e+01 a.138.1.3 78683 c.3.1.4 78684 d.168.1.1 78685 1lj1A 571 3.29e+01 a.138.1.3 78023 c.3.1.4 78024 d.168.1.1 78025 1e39A 571 3.29e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1qjdA 571 3.33e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 2mnr 357 3.34e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1bcpC 199 3.35e+01 1bcpB b.40.2.1 25121 d.169.1.2 42430 1q9iA 571 3.47e+01 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1dljA 402 3.53e+01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1lyxA 248 3.57e+01 c.1.1.1 78304 1qg6A 261 3.60e+01 1eny c.2.1.2 29919 1llwA 1520 3.69e+01 b.80.4.1 74017 c.1.4.1 74018 d.153.1.1 74019 1iz6A 138 3.74e+01 b.34.5.2 76976 b.40.4.5 76977 1euhA 475 3.75e+01 1euhA c.82.1.1 35369 1o5xA 248 3.81e+01 c.1.1.1 -5157 1j98A 157 3.87e+01 1j98A d.185.1.2 62755 1a8d 452 3.98e+01 1a8d b.29.1.6 24262 b.42.4.2 25607 1qcrA 446 4.00e+01 1be3A d.185.1.1 59025 d.185.1.1 59026