# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7 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 1vmhA 144 1.13e+00 1mk4A 157 1.32e+00 d.108.1.1 84979 1xbfA 140 1.36e+00 d.273.1.1 109538 1qyp 57 2.57e+00 1qyp g.41.3.1 45205 2esyA 32 2.75e+00 1vqsA 116 3.31e+00 2ez6A 221 3.76e+00 1vejA 74 4.82e+00 1rp4A 389 5.59e+00 a.227.1.1 105027 1b76A 442 5.61e+00 1atiA c.51.1.1 33198 d.104.1.1 40747 1jx4A 352 5.64e+00 d.240.1.1 90378 e.8.1.7 90379 1vmfA 145 5.80e+00 1j9jA 247 5.98e+00 c.106.1.1 62758 2sxl 88 6.81e+00 1b7fA d.58.7.1 39179 1h8eD 482 6.95e+00 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1nqnA 122 7.21e+00 b.61.1.1 86042 1f9zA 135 8.25e+00 1qipA d.32.1.1 38484 1j9lA 247 8.30e+00 c.106.1.1 62762 1kb9H 93 8.57e+00 f.23.13.1 77323 1ezvG 93 8.76e+00 1ezvG f.23.13.1 59551 1ip9A 85 9.72e+00 1ip9A d.15.2.2 62638 1ij8A 128 1.00e+01 b.61.1.1 62480 1mdaH 368 1.00e+01 2bbkH b.69.2.1 27637 1e79D 482 1.03e+01 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1h8gA 95 1.04e+01 b.109.1.1 65735 1aijM 307 1.06e+01 6prcM f.26.1.1 43462 1l7bA 92 1.08e+01 c.15.1.2 91053 1fa8A 135 1.12e+01 1qipA d.32.1.1 38486 1molA 94 1.18e+01 1molA d.17.1.1 37988 1rzhM 307 1.27e+01 f.26.1.1 98165 1ftrA 296 1.35e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1hcc 59 1.38e+01 1hfh g.18.1.1 44820 1z2aA 168 1.39e+01 1aijS 301 1.39e+01 6prcM f.26.1.1 43465 1eiyB 785 1.45e+01 1pysB a.6.1.1 16305 a.6.1.1 16306 b.40.4.4 25314 d.58.13.1 39313 d.104.1.1 40782 d.138.1.1 41458 1b7yB 785 1.47e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1zn6A 227 1.65e+01 1svdM 110 1.70e+01 1izlC 473 1.72e+01 i.5.1.1 76996 1pysB 785 1.73e+01 1pysB a.6.1.1 16299 a.6.1.1 16300 b.40.4.4 25311 d.58.13.1 39310 d.104.1.1 40779 d.138.1.1 41455 2a7yA 83 1.85e+01 1hcv 117 1.94e+01 1igtB b.1.1.1 20514 1r02A 33 1.98e+01 j.6.1.1 104674 1ow1A 195 2.04e+01 b.131.1.3 93625 1j4wA 174 2.06e+01 d.51.1.1 71529 d.51.1.1 71530 1dtx 59 2.20e+01 1bpi g.8.1.1 44551 1r8sA 164 2.36e+01 c.37.1.8 97247 1n2fA 142 2.46e+01 d.227.1.1 79853 1rzuA 485 2.50e+01 c.87.1.8 105140 2fj8A 125 2.60e+01 1k8kD 300 2.62e+01 d.198.2.1 68309 d.198.2.1 68310 1ten 90 2.62e+01 1ten b.1.2.1 21990 1y7jA 53 2.64e+01 2a61A 145 2.65e+01 1s31A 273 2.75e+01 1gl1I 36 2.78e+01 g.4.1.1 65275 1h7dA 49 2.80e+01 j.88.1.1 65701 1hcxA 127 2.90e+01 b.109.1.1 65800 1gvmA 136 3.02e+01 b.109.1.1 70612 1dpjA 329 3.04e+01 1smrA b.50.1.2 26828 1c8zA 265 3.09e+01 1c8zA d.23.1.1 38375 1p30A 952 3.09e+01 b.121.2.2 93964 b.121.2.2 93965 1ruxA 951 3.13e+01 1dhx 1w97L 246 3.26e+01 2agcA 162 3.36e+01 1vphA 149 3.39e+01 1ravA 127 3.44e+01 1swuA b.61.1.1 27409 1uasA 362 3.45e+01 b.71.1.1 88388 c.1.8.1 88389 1i50A 1733 3.54e+01 e.29.1.2 61754 7odcA 424 3.55e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1gheA 177 3.64e+01 d.108.1.1 76222 1mr7A 209 3.70e+01 b.81.1.3 91430 1d7kA 421 3.70e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 1ci3M 249 3.72e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 1kuxA 207 3.98e+01 d.108.1.1 73021