# List of top-scoring protein chains for t04-w0.5-1-CB8-sep9-0.3-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://compbio.soe.ucsc.edu/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. # #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 SCOP_domain SCOP_suid 5S 5N 12S 12S 10N 2qghA 425 2.22e-41 1twiA 434 9.44e-41 b.49.2.3,c.1.6.1 107399,107400 1tufA 434 1.87e-40 b.49.2.3,c.1.6.1 107335,107336 2o0tA 467 4.39e-40 2p3eA 420 7.89e-37 2j66A 428 1.75e-36 1knwA 425 4.69e-36 b.49.2.3,c.1.6.1 90969,90970 2yxxA 386 1.31e-35 7odcA 424 6.53e-34 b.49.2.3,c.1.6.1 26488,28650 2pljA 419 9.98e-34 2nvaA 372 7.90e-33 1xfcA 384 3.29e-23 3gwqA 426 6.67e-23 2dy3A 361 3.38e-22 1rcqA 357 1.03e-21 b.49.2.2,c.1.6.1 104882,104883 2vd8A 391 2.85e-20 1bd0A 388 9.93e-20 b.49.2.2,c.1.6.1 26480,28642 3co8A 380 2.40e-18 1vfsA 386 2.95e-18 b.49.2.2,c.1.6.1 108584,108585 3llxA 376 2.19e-15 3kw3A 376 1.20e-11 3hurA 395 8.92e-10 3e6eA 371 3.31e-08 1w8gA 234 0.000158 3cpgA 282 0.003501 1ct5A 256 0.06514 c.1.6.2 28663 3lhlA 287 0.4455 2wnwA 447 0.6995 2ef5A 290 2.731 1xfkA 336 2.913 c.42.1.1 115264 2kksA 146 3.658 1h4pA 408 3.782 c.1.8.3 90617 2jepA 395 4.046 3gnlA 244 4.522 2i3dA 249 8.526 c.69.1.36 147499 2i2xB 258 11.21 2vefA 314 16.79 1dqnA 230 18.49 c.61.1.1 34067 1xi3A 215 20.21 c.1.3.1 109601 2aebA 322 21.94 c.42.1.1 126617 1m5wA 243 22.82 c.1.24.1 84836 2ghrA 302 23.76 c.23.16.8 135208 2vc7A 314 24.63 2v3fA 505 24.70 b.71.1.2,c.1.8.3 152453,152454 1dqpA 230 24.91 c.61.1.1 34069 1eqcA 394 25.29 c.1.8.3 28811 1vc4A 254 27.11 c.1.2.4 100557 1phpA 394 28.58 c.86.1.1 35452 1ojxA 263 29.61 c.1.10.1 93164 1bmtA 246 29.67 a.46.1.1,c.23.6.1 17757,31235 3hg3A 404 30.75 3c3bA 420 32.72 1e39A 571 33.22 a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 3ipwA 325 34.71 1d3vA 323 34.72 c.42.1.1 32559 1ho1A 242 34.81 c.1.24.1 61097 3gmeA 549 34.88 1gq6A 313 35.71 c.42.1.1 70341 1sw5B 275 36.94 c.94.1.1 106070 1v6sA 390 39.81 c.86.1.1 100424 3a5vA 397 40.19 1y80A 210 40.64 1xrsB 262 41.75 c.23.6.1,d.230.4.1 115884,115885 2ob3A 330 41.91 2v3gA 283 42.07 c.1.8.3 152457 1zkdA 387 42.59 c.66.1.52 125184 1sznA 417 43.48 b.71.1.1,c.1.8.1 106162,106163 3kr9A 225 43.62 3iv3A 332 44.70 3e0dA 1220 44.85 2wzbA 416 47.01 1wy5A 317 48.10 c.26.2.5,d.229.1.1 121428,121429 3futA 271 48.14 2vsnA 568 48.27 1wohA 305 50.96 c.42.1.1 109446 1sw2A 275 51.81 c.94.1.1 106064 2f46A 156 52.50 2qkfA 280 53.13 2pc8A 400 55.00 2oktA 342 57.90 2znrA 178 58.62 3e2vA 401 63.20 3bdwB 120 64.72 3gnxA 387 66.28 1wdeA 294 66.39 c.90.1.1 114534 1oapA 109 66.63 d.79.7.1 92706 2h1vA 310 67.89 2zdsA 340 69.50 3bk2A 562 72.93 2ac4A 309 74.18 1l2uA 245 75.96 c.1.2.3 73516 1aluA 186 77.28 a.26.1.1 16826 2hy1A 280 77.41 d.159.1.11 147437 1hdiA 413 77.76 c.86.1.1 60964 3iivA 263 78.66 2g0wA 296 78.92 c.1.15.4 134503 1sw5A 275 79.86 c.94.1.1 106069 5reqA 727 80.15 c.1.19.1,c.23.6.1 29632,31259 3ezwA 526 80.90 1reqA 727 81.55 c.1.19.1,c.23.6.1 29620,31247 1nvmA 345 82.53 a.5.7.1,c.1.10.5 86249,86250 1vdzA 588 83.30 1r0mA 375 84.64 c.1.11.2,d.54.1.1 104747,104748 3gg7A 254 87.32 2wklA 497 87.45 2h1yA 321 87.50 1fkx 349 89.40 1yadA 221 89.44