# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1dnyA 91 8.74e-13 1dnyA a.28.1.2 16934 1l0iA 78 1.61e-09 a.28.1.1 77643 1f80D 81 4.30e-09 1acp a.28.1.1 59686 1acp 77 4.71e-09 1acp a.28.1.1 16931 1klpA 115 2.38e-08 a.28.1.1 72721 2af8 86 2.52e-07 2af8 a.28.1.1 16933 1af8 86 9.71e-06 2af8 a.28.1.1 16932 1dv5A 80 1.44e-03 1dv5A a.28.1.3 59139 1j0aA 325 2.94e-01 c.79.1.1 83871 1br2A 791 5.39e-01 1lvk b.34.3.1 24558 c.37.1.9 32155 1mlvA 444 5.72e-01 a.166.1.1 79283 b.85.7.3 79284 1ka2A 499 6.32e-01 d.92.1.5 77305 1p0yA 444 8.13e-01 a.166.1.1 87654 b.85.7.3 87655 1lssA 140 8.17e-01 c.2.1.9 74246 1kq3A 376 9.99e-01 e.22.1.2 68790 1f76A 336 1.07e+00 c.1.4.1 76160 1oj4A 283 1.23e+00 1o4vA 183 1.36e+00 c.23.8.1 86628 1j3mA 129 1.56e+00 1ytfB 53 1.64e+00 1ytfB a.32.1.1 16997 1mpgA 282 1.70e+00 1mpgA a.96.1.3 18747 d.129.1.2 41296 1v32A 101 1.88e+00 1rmvA 157 2.02e+00 1rmvA a.24.5.1 16589 1c0aA 585 2.07e+00 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1nvpB 57 2.18e+00 1ffkU 91 2.24e+00 1ffkU d.29.1.1 38458 1vom 762 2.35e+00 1lvk b.34.3.1 24577 c.37.1.9 32174 1jbaA 204 2.50e+00 1rec a.39.1.5 17330 1nh2B 53 2.81e+00 1j6oA 268 2.88e+00 c.1.9.12 77088 1jj2W 91 2.91e+00 1ffkU d.29.1.1 63108 1rqtA 37 2.91e+00 1cby 259 2.96e+00 1cby d.103.1.1 40705 1g87A 614 3.12e+00 a.102.1.2 83275 b.2.2.2 83276 1pb6A 212 3.14e+00 a.4.1.9 88017 a.121.1.1 88018 1ivhA 394 3.66e+00 3mdeA a.29.3.1 16608 e.6.1.1 42869 1bolA 222 3.69e+00 1bolA d.124.1.1 41120 1ecxA 384 3.73e+00 1ecxA c.67.1.3 34431 1pdz 434 3.84e+00 4enl c.1.11.1 29215 d.54.1.1 38859 1eg5A 384 3.85e+00 1ecxA c.67.1.3 34429 1clxA 347 4.05e+00 1taxA c.1.8.3 28899 1gd0A 122 4.28e+00 1dptA d.80.1.3 39834 1fwkA 296 4.30e+00 1fwkA d.14.1.5 37576 d.58.26.1 39398 1hn4A 131 4.37e+00 a.133.1.2 65893 1gu7A 364 4.62e+00 b.35.1.2 83321 c.2.1.1 83322 1b5tA 275 4.82e+00 1b5tA c.1.23.1 29676 1mdbA 539 4.87e+00 e.23.1.1 79008 1dptA 117 5.19e+00 1dptA d.80.1.3 39862 1lylA 504 5.32e+00 1lylA b.40.4.1 25261 d.104.1.1 40717 1uekA 275 5.48e+00 d.14.1.5 88483 d.58.26.5 88484 1h72C 296 5.72e+00 d.14.1.5 60712 d.58.26.1 60713 1go3F 107 5.74e+00 a.60.8.2 65407 1l0oC 243 6.09e+00 a.4.13.2 73405 2fokA 579 6.11e+00 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1qczA 169 6.35e+00 1qczA c.23.8.1 31276 1elqA 390 6.40e+00 1elqA c.67.1.3 34436 1eluA 390 6.40e+00 1elqA c.67.1.3 34434 1eluB 390 6.42e+00 1elqA c.67.1.3 34435 1e1oA 504 6.94e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1e8xA 961 7.08e+00 1e8xA a.118.1.6 19148 b.7.1.1 23183 d.15.1.5 37631 d.144.1.4 41711 1gwiA 411 7.23e+00 a.104.1.1 76364 1dbwA 126 7.49e+00 1dbwA c.23.1.1 31095 1h05A 146 7.54e+00 c.23.13.1 76433 1dckA 126 7.65e+00 1dbwA c.23.1.1 31097 1d5wC 126 7.76e+00 1dbwA c.23.1.1 31101 1qgdA 662 8.00e+00 c.36.1.6 88367 c.36.1.10 88368 c.48.1.1 88369 2rslA 140 8.32e+00 2rslA c.53.1.1 33345 1jr2A 286 8.40e+00 c.113.1.1 67111 1kagA 173 8.49e+00 c.37.1.2 72249 1fm0D 81 8.77e+00 1fmaD d.15.3.1 37642 1fmaD 81 8.78e+00 1fmaD d.15.3.1 37643 1culA 217 8.87e+00 1azsA d.58.29.1 39417 1cjtA 217 9.10e+00 1azsA d.58.29.1 39419 1c3cA 429 9.63e+00 1c3cA a.127.1.1 19425 1ebuA 358 9.71e+00 1ebuA c.2.1.3 30035 d.81.1.2 39950 1fiqB 350 9.84e+00 1fiqB d.87.2.1 40229 d.145.1.3 41760 1azsA 220 1.05e+01 1azsA d.58.29.1 39416 1mfiA 114 1.14e+01 1dptA d.80.1.3 39856 1cc1S 283 1.14e+01 2frvA e.19.1.1 43313 1h5wA 309 1.15e+01 e.27.1.1 65635 1lox 662 1.25e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1otfA 62 1.26e+01 1otfA d.80.1.1 39820 1g8mA 593 1.27e+01 1g8mA c.24.1.3 60371 c.97.2.1 60372 2dhqA 146 1.27e+01 2dhqA c.23.13.1 31382 1ebfA 358 1.28e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1dtgA 334 1.30e+01 1nnt c.94.1.2 35896 1v7nV 163 1.30e+01 1ryoA 327 1.31e+01 1d3kA 329 1.31e+01 1nnt c.94.1.2 35889 1m9nA 613 1.32e+01 c.24.1.3 78870 c.97.2.1 78871 1jqfA 334 1.33e+01 c.94.1.2 67086 1lea 84 1.37e+01 1lea a.4.5.2 16085 1a8e 329 1.37e+01 1cb6A c.94.1.2 35888 1qbkB 890 1.38e+01 1qbkB a.118.1.1 19127 1b3eA 330 1.38e+01 1nnt c.94.1.2 35897 1fokA 568 1.40e+01 2fokA a.4.5.12 16137 a.4.5.12 16138 a.4.5.12 16139 c.52.1.12 33325 1jhfA 202 1.43e+01 a.4.5.2 63057 b.87.1.1 63058 1gdtA 183 1.52e+01 2rslA a.4.1.2 16021 c.53.1.1 33348 1gu2A 124 1.53e+01 a.3.1.1 76348 1qk9A 92 1.54e+01 1qk9A d.10.1.3 37485 1uc2A 481 1.57e+01 1as4A 341 1.59e+01 1sek e.1.1.1 42623 1orrA 347 1.63e+01 1g61A 228 1.63e+01 1g61A d.126.1.1 41126 1rpnA 335 1.72e+01 1bwsA 321 1.75e+01 1bsvA c.2.1.2 29812 1nw3A 416 1.75e+01 c.66.1.31 86288 1dgjA 907 1.76e+01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 1qhhA 167 1.80e+01 1pjr c.37.1.19 32393 1s5lZ 62 1.81e+01 1j3vA 289 1.84e+01 1mli 96 1.94e+01 1mli d.58.4.1 39070 1m6pA 152 1.94e+01 1m6pA b.64.1.1 27519 1gx1A 160 1.96e+01 d.79.5.1 70675 1bsvA 321 1.99e+01 1bsvA c.2.1.2 29809 3pbgA 468 2.00e+01 1e70M c.1.8.4 28951 1n9lA 109 2.01e+01 d.110.3.6 85468 1pbgA 468 2.03e+01 1e70M c.1.8.4 28946 1p4wA 99 2.06e+01 a.4.6.2 87783 1gfsA 321 2.06e+01 c.2.1.2 29811 7reqA 727 2.07e+01 1reqA c.1.19.1 29616 c.23.6.1 31243 1div 149 2.09e+01 1div d.99.1.1 40692 d.100.1.1 40693 1ghtA 105 2.11e+01 2rslA c.53.1.1 60526 5reqA 727 2.11e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 1reqA 727 2.11e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1m6uA 272 2.12e+01 b.2.5.7 78706 1ijgA 309 2.14e+01 1fouA e.27.1.1 62493 1iomA 377 2.18e+01 a.103.1.1 83698 1mn4A 282 2.23e+01 b.2.5.7 79313 1i50C 318 2.24e+01 d.74.3.1 61756 d.181.1.1 61757 1n97A 389 2.25e+01 a.104.1.1 80335 1hlrA 907 2.33e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1e4iA 447 2.36e+01 1e70M c.1.8.4 59225 1q1fA 151 2.41e+01 1tr1A 447 2.49e+01 1e70M c.1.8.4 28957 1ko9A 345 2.53e+01 a.96.1.3 68717 d.129.1.2 68718 1n3kA 130 2.53e+01 a.77.1.4 79965 1pv6A 417 2.54e+01 1ne2A 200 2.55e+01 c.66.1.32 85586 1v54D 147 2.59e+01 1knvA 293 2.60e+01 c.52.1.7 68707 1ocrD 147 2.61e+01 1ocrD f.23.1.1 43541 1fo4A 1332 2.62e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1jy8A 159 2.62e+01 d.79.5.1 67452 1pta 318 2.64e+01 1pscA c.1.9.3 29064 1mnnA 340 2.64e+01 b.2.5.7 79324 2occD 147 2.67e+01 1ocrD f.23.1.1 43521 1qi9A 556 2.70e+01 1qhbA a.111.1.2 19053 1tia 279 2.78e+01 3tgl c.69.1.17 34737 1rw2A 152 2.79e+01 1nz0A 118 2.80e+01 d.14.1.2 86433 1huxA 270 2.84e+01 1huxA c.55.1.5 61278 1cxzB 86 2.91e+01 1cxzB a.2.6.1 15705 1szqA 483 2.95e+01 1nqkA 381 2.99e+01 1vdkA 466 3.00e+01 1miwA 404 3.06e+01 a.173.1.1 79162 d.218.1.4 79163 1qgrA 876 3.12e+01 1qgrA a.118.1.1 19119 1keoA 154 3.22e+01 b.64.1.1 68534 1mhlA 108 3.27e+01 1d2vA a.93.1.2 18699 1a41 234 3.47e+01 1a41 d.163.1.2 42174 1jroB 777 3.51e+01 d.41.1.1 67141 d.133.1.1 67142 1jffB 445 3.60e+01 c.32.1.1 62934 d.79.2.1 62935 1lqxA 82 3.60e+01 d.120.1.1 78153 1su8A 636 3.64e+01 1e8eA 124 3.66e+01 a.3.1.1 64795 1c24A 263 3.73e+01 1c24A d.127.1.1 41148 1diaA 306 3.73e+01 1a4iA c.2.1.7 30280 c.58.1.2 33928 1a4iB 301 3.81e+01 1a4iA c.2.1.7 30279 c.58.1.2 33927 4matA 278 3.81e+01 1c24A d.127.1.1 41150 1e5xA 486 3.83e+01 c.79.1.1 59283 1jr3E 334 3.85e+01 a.80.1.1 63253 c.37.1.20 63254 1cxpA 104 3.93e+01 1d2vA a.93.1.2 18695 1d2vA 104 3.93e+01 1d2vA a.93.1.2 18697 1a4iA 301 3.96e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1cx8B 639 3.97e+01 1cx8B a.48.2.1 17783 c.8.4.1 30764 c.56.5.5 33852