# 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 2cpl 165 4.27e-32 2cpl b.62.1.1 27420 1cwoA 165 4.29e-32 2cpl b.62.1.1 27445 1awqA 164 7.94e-32 2cpl b.62.1.1 27461 1awsA 164 8.68e-32 2cpl b.62.1.1 27431 1dywA 173 3.70e-31 2cpl b.62.1.1 27505 1ihgA 370 9.35e-29 2cpl a.118.8.1 62380 b.62.1.1 62381 1a58 177 2.73e-28 2cpl b.62.1.1 27495 1qoiA 177 4.38e-28 2cpl b.62.1.1 27490 2rmcA 182 5.24e-28 2cpl b.62.1.1 27491 1lopA 164 2.68e-19 2cpl b.62.1.1 27510 1agx 331 2.12e+00 4pgaA c.88.1.1 35564 1g7fA 298 2.48e+00 1pty c.45.1.2 60330 2hnp 321 3.58e+00 1pty c.45.1.2 32678 1pty 321 4.23e+00 1pty c.45.1.2 32656 1ptvA 321 4.43e+00 1pty c.45.1.2 32665 1eeoA 321 5.07e+00 1pty c.45.1.2 32655 1ck7A 631 5.28e+00 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1hxmD 242 6.02e+00 b.1.1.1 61373 b.1.1.2 61374 1wdnA 226 6.05e+00 1lst c.94.1.1 35816 1et9A 204 7.27e+00 1an8 b.40.2.2 25204 d.15.6.1 37793 1gggB 226 7.76e+00 1lst c.94.1.1 35818 1bh5A 183 8.14e+00 1qipA d.32.1.1 38476 1ewnA 219 9.68e+00 1bnkA b.46.1.2 25762 830cA 168 1.22e+01 1ck7A d.92.1.11 40400 1eerB 227 1.40e+01 1eerB b.1.2.1 22011 b.1.2.1 22012 1a0tP 413 1.44e+01 1a0tP f.4.3.2 43794 1ffyA 917 1.51e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 1.51e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1by5A 714 1.62e+01 1by5A f.4.3.3 43800 1a70 97 1.67e+01 1awd d.15.4.1 37678 1qfgA 725 1.72e+01 1by5A f.4.3.3 43803 1a0sP 413 1.75e+01 1a0tP f.4.3.2 43797 1jdw 423 1.78e+01 1jdw d.126.1.2 41129 1bt4A 362 1.81e+01 1bjnA c.67.1.4 34468 1f39A 101 1.85e+01 1umuA b.87.1.1 28386 1qltA 560 1.94e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 2pkaA 80 1.99e+01 2pkaA b.47.1.2 26302 1dc1A 323 2.00e+01 1dc1A c.52.1.11 33321 1e8gA 560 2.18e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1an8 208 2.27e+01 1an8 b.40.2.2 25202 d.15.6.1 37791 1atg 231 2.28e+01 1atg c.94.1.1 35834 2kaiA 80 2.31e+01 2pkaA b.47.1.2 26306 1qcsA 211 2.34e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1kskA 234 2.36e+01 3cd4 182 2.40e+01 1cdy b.1.1.1 19720 b.1.1.3 21659 1lylA 504 2.42e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1j5eC 239 2.54e+01 1jt7A 146 2.71e+01 b.42.1.1 67255 1fvuB 125 2.73e+01 1ixxB d.169.1.1 42346 1b77A 228 2.74e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1cdi 179 2.81e+01 1cdy b.1.1.1 19727 b.1.1.3 21666 1tvdA 116 2.82e+01 1tvdA b.1.1.1 20650 1eesA 178 2.85e+01 1eesA c.37.1.8 32073 1cbjA 151 2.88e+01 1mfmA b.1.8.1 22213 1qipA 183 2.93e+01 1qipA d.32.1.1 38470 1ffkI 194 3.05e+01 1ffkI d.12.1.2 37494 1rypJ 204 3.12e+01 d.153.1.4 41878 1edqA 540 3.20e+01 1ctn b.1.1.5 21873 c.1.8.5 29002 d.26.3.1 38436 1qmpA 130 3.22e+01 1dz3A c.23.1.1 31106 1vaoA 560 3.26e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1gmpA 96 3.35e+01 1rgeA d.1.1.1 36036 1pil 112 3.37e+01 2pii d.58.5.1 39072 1rgeA 96 3.38e+01 1rgeA d.1.1.1 36028 1yaiA 151 3.57e+01 1yaiA b.1.8.1 22289 1by3A 714 3.59e+01 1by5A f.4.3.3 43801 1preB 470 3.59e+01 1preA d.169.1.2 42438 f.8.1.1 43825 1doi 128 3.61e+01 1awd d.15.4.1 37676 1qqp2 218 3.67e+01 1qqp2 1bnkA 216 3.84e+01 1bnkA b.46.1.2 25765 1fxiA 96 3.92e+01 1awd d.15.4.1 37664 2napA 723 3.94e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1jjuA 489 3.97e+01 a.3.1.7 66774 a.3.1.7 66775 b.1.1.6 66776 b.1.1.6 66777 b.61.4.1 66778 1h77A 605 3.98e+01