# 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 2hpaA 342 2.60e-01 1cviA c.60.1.2 33985 1cviA 342 2.65e-01 1cviA c.60.1.2 33989 1rpa 342 3.35e-01 1cviA c.60.1.2 33983 1fxoA 293 5.44e-01 1g0rA c.68.1.6 34524 1quqB 121 2.05e+00 1quqB b.40.4.3 25305 1bet 107 2.14e+00 1bndA g.17.1.3 44801 1d0nA 729 3.08e+00 1d0nA d.109.1.1 40834 d.109.1.1 40835 d.109.1.1 40836 d.109.1.1 40837 d.109.1.1 40838 d.109.1.1 40839 1g0rA 293 5.35e+00 1g0rA c.68.1.6 34532 1a6jA 163 5.64e+00 1a6jA d.112.1.1 40915 1yagG 125 6.10e+00 1d0nA d.109.1.1 40846 1d4xG 126 6.11e+00 1d0nA d.109.1.1 59109 1h5rA 293 9.41e+00 c.68.1.6 65623 2pldA 105 1.06e+01 1qadA d.93.1.1 40521 1a6wL 109 1.12e+01 1mfa b.1.1.1 20252 1gyxA 76 1.17e+01 2pleA 105 1.20e+01 1qadA d.93.1.1 40522 1bncB 449 1.21e+01 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1ah6 220 1.26e+01 1yer d.122.1.1 41094 1dv1A 449 1.37e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1lox 662 1.40e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1eg5A 384 1.51e+01 1ecxA c.67.1.3 34429 1a6uL 108 1.52e+01 1mfa b.1.1.1 20254 12asA 330 1.58e+01 12asA d.104.1.1 40783 1bolA 222 1.59e+01 1bolA d.124.1.1 41120 1ecxA 384 1.66e+01 1ecxA c.67.1.3 34431 1a28A 256 2.07e+01 1a28A a.123.1.1 19290 1iqaA 160 2.07e+01 1fj2A 232 2.14e+01 1auoA c.69.1.14 34720 1k2fA 190 2.20e+01 b.8.1.2 68054 1mai 131 2.77e+01 1mai b.55.1.1 26951 1xvaA 292 2.98e+01 1xvaA c.66.1.5 34183 1bag 425 3.02e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1dpb 243 3.04e+01 1eaf c.43.1.1 32618 1prtF 98 3.11e+01 1prtF b.40.2.1 25140 3lck 271 3.18e+01 1fmk d.144.1.2 41686 1d2kA 392 3.19e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1f3uB 171 3.25e+01 1f3uB b.65.1.1 27525 1uok 558 3.29e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1hcl 298 3.32e+01 1hcl d.144.1.1 41593 1irqA 71 3.33e+01 a.43.1.2 66297 1g5aA 628 3.58e+01 b.71.1.1 65152 c.1.8.1 65153 1blxA 326 3.60e+01 1hcl d.144.1.1 41596 1e1xA 299 3.63e+01 1hcl d.144.1.1 59157 1fiwA 290 3.65e+01 5ptp 1bjx 110 3.69e+01 1bjx c.47.1.2 32774 2bjxA 110 3.69e+01 1bjx c.47.1.2 32776 1bcpF 99 3.85e+01 1prtF b.40.2.1 25142 2rslA 140 3.85e+01 2rslA c.53.1.1 33345 1msc 129 3.88e+01 1msc d.85.1.1 40039 1dqaA 467 3.92e+01 1dqaA d.58.20.1 39364 d.179.1.1 42585 1dqaC 467 3.92e+01 1dqaA d.58.20.1 39366 d.179.1.1 42587 1bncA 449 3.94e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488