# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-scores 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 1ggvA 232 5.87e-01 1din c.69.1.9 34683 1din 236 6.20e-01 1din c.69.1.9 34682 1zi8A 236 1.13e+00 2cb2A 318 1.40e+00 1b9zA 516 2.26e+00 1b9zA b.3.1.1,c.1.8.1 22528,28798 2f1kA 279 2.32e+00 1vemA 516 2.38e+00 1itcA 516 2.61e+00 b.3.1.1,c.1.8.1 83705,83706 1kshA 186 3.33e+00 c.37.1.8 72914 5bcaA 516 3.40e+00 1b9zA b.3.1.1,c.1.8.1 22529,28799 1innA 166 7.53e+00 1j98A d.185.1.2 62608 1vjeA 166 7.54e+00 d.185.1.2 100807 1nmtA 392 7.62e+00 1nmtA d.108.1.2,d.108.1.2 40823,40824 2cbuA 468 7.88e+00 1yyaA 250 8.94e+00 1o17A 345 1.02e+01 a.46.2.1,c.27.1.1 80765,80766 1w3jA 468 1.33e+01 c.1.8.4 109156 2agcA 162 1.45e+01 1dkuA 317 1.52e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1dkrA 317 1.55e+01 1dkuA c.61.1.2,c.61.1.2 34114,34115 1ibsA 317 1.59e+01 c.61.1.2,c.61.1.2 66107,66108 1htjF 210 1.74e+01 1htjF a.91.1.1 61254 1bmr 68 1.86e+01 1aho g.3.7.1 44144 1avgL 41 1.98e+01 1ppbL b.47.1.2 26216 1iicA 422 2.00e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1ywnA 316 2.05e+01 1b35B 255 2.42e+01 1b35B b.121.4.1 23334 1j1hA 144 2.47e+01 b.111.1.1 77056 1jlyA 304 2.58e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1wjxA 122 2.65e+01 2ucz 165 2.72e+01 1u9aA d.20.1.1 38330 2fm8A 135 2.78e+01 1nmoA 247 2.98e+01 c.135.1.1 91980 1b1gA 75 3.01e+01 1psrA a.39.1.1 17151 1jlxA 304 3.03e+01 1jlyA b.42.3.1,b.42.3.1 25583,25584 1g5bA 221 3.07e+01 1g5bA d.159.1.3 60261 1voqa 90 3.14e+01 1o7iA 119 3.16e+01 b.40.4.3 86642 1uw4A 91 3.18e+01 d.58.7.4 100071 1wzvA 155 3.21e+01 1ub4C 85 3.25e+01 b.129.1.1 88401 1csn 298 3.30e+01 1csn d.144.1.7 41664 1e55A 512 3.41e+01 1e70M c.1.8.4 28934 1h49A 512 3.44e+01 c.1.8.4 83477 1yrvA 169 3.56e+01 1q15A 503 3.73e+01 c.26.2.1,d.153.1.1 95538,95539 1nlfA 279 3.78e+01 c.37.1.11 85850 1fj2A 232 3.81e+01 1auoA c.69.1.14 34720 1g8yA 279 3.86e+01 1g8yA c.37.1.11 32302 1nar 290 3.96e+01 1nar c.1.8.5 28988 1ahjA 207 4.19e+01 2ahjA d.149.1.1 41774 1agx 331 4.42e+01 4pgaA c.88.1.1 35564 1cov3 238 4.48e+01 1aym3 1k0sA 151 4.49e+01 b.40.7.1 67969 1t2bA 397 4.52e+01 1y1uA 585 4.56e+01 1q0eA 152 4.65e+01 b.1.8.1 95504 3icb 75 4.67e+01 4icb a.39.1.1 17147 1zd9A 188 4.68e+01 1l4sA 112 4.72e+01 d.204.1.1 77693 2ag9A 164 4.75e+01 1uz1A 468 4.75e+01 1pbgA 468 4.80e+01 1e70M c.1.8.4 28946 1n3gA 113 4.80e+01 d.204.1.1 79962 2ax4A 198 4.82e+01 1g2iA 166 4.93e+01 1g2iA c.23.16.2 31438 2fsrA 195 5.16e+01 1cbjA 151 5.36e+01 1mfmA b.1.8.1 22213 1b47A 304 5.48e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 2cblA 305 5.54e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1f9zA 135 5.57e+01 1qipA d.32.1.1 38484 1to4A 156 5.57e+01 b.1.8.1 107162 2agyA 361 5.62e+01 1v02A 565 5.69e+01 c.1.8.4 108194 1qmeA 702 5.80e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1hdmA 201 5.89e+01 1iakA b.1.1.2,d.19.1.1 21583,38157 2ag4A 164 6.00e+01 1cpzA 68 6.21e+01 1aw0 d.58.17.1 39351 1ffkP 84 6.36e+01 1ffkP d.12.1.1 37493 3pbgA 468 6.48e+01 1e70M c.1.8.4 28951 1fa8A 135 6.60e+01 1qipA d.32.1.1 38486 2acaA 189 6.64e+01 1yvhA 329 6.70e+01 1zyiA 171 6.81e+01 1mg4A 113 6.90e+01 d.15.11.1 84953 1yzbA 182 7.00e+01 1hyhA 309 7.01e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 2trxA 108 7.02e+01 1thx c.47.1.1 32719 1xahA 354 7.08e+01 2ca6A 386 7.26e+01 1xcbA 211 7.43e+01 a.4.5.38,c.2.1.12 109552,109553 2gfaA 119 7.45e+01 1th8A 145 7.53e+01 d.122.1.3 106908 1irsA 112 7.67e+01 1qqgA b.55.1.2 26991 2a5dA 175 7.70e+01 1nzyA 269 7.76e+01 1nzyA c.14.1.3 30903 1k0wA 231 7.85e+01 c.74.1.1 77220 1jdiA 231 7.86e+01 c.74.1.1 66551 1rcqA 357 7.88e+01 b.49.2.2,c.1.6.1 104882,104883 1bb8 71 8.19e+01 2bb8 d.10.1.1 37478 1y8aA 332 8.24e+01 1weoA 93 8.25e+01 4icb 76 8.42e+01 4icb a.39.1.1 17145 1crzA 403 8.44e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 2bb8 71 8.45e+01 2bb8 d.10.1.1 37480 1fxiA 96 8.50e+01 1awd d.15.4.1 37664 1vg5A 73 8.64e+01 1n1mA 728 8.65e+01 b.70.3.1,c.69.1.24 79815,79816 1abmA 198 8.72e+01 1avmA 1f2fA 104 8.73e+01 1fmk d.93.1.1 40455 1x0vA 354 8.77e+01 1g65K 211 8.91e+01 d.153.1.4 41907