# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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.soe.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 1z47A 355 2.79e-01 2e7aA 157 3.59e-01 3l9jT 149 3.63e-01 1tnfA 158 4.54e-01 2tnfA b.22.1.1 23871 1a8mA 157 5.59e-01 2tnfA b.22.1.1 23868 4tsvA 150 5.99e-01 2tnfA b.22.1.1 23860 3eo6A 106 1.89e+00 2tnfA 156 2.02e+00 2tnfA b.22.1.1 23880 3jxsA 174 3.18e+00 1k42A 168 5.25e+00 b.18.1.14 72032 2qa9E 185 5.42e+00 b.47.1.1 150200 2glzA 153 5.48e+00 d.81.3.1 135348 2vovA 336 5.49e+00 1sgpE 185 5.82e+00 1qq4A b.47.1.1 25816 1o7iA 119 5.91e+00 b.40.4.3 86642 1y6kR 214 7.17e+00 b.1.2.1,b.1.2.1 122663,122664 2wgoA 98 7.71e+00 1nb9A 147 1.04e+01 b.43.5.1 85515 1y3tA 337 1.12e+01 b.82.1.5 122600 2h0vA 338 1.20e+01 1y9zA 441 1.32e+01 3h0lB 478 1.35e+01 2sfaA 191 1.39e+01 b.47.1.1 25815 1onqA 283 1.43e+01 b.1.1.2,d.19.1.1 93365,93366 1oqeA 144 1.49e+01 b.22.1.1 87286 1kxgA 152 1.50e+01 b.22.1.1 73145 1q1cA 280 1.56e+01 d.26.1.1,d.26.1.1 104474,104475 1khdA 345 1.62e+01 a.46.2.1,c.27.1.1 77400,77401 1tnrA 144 1.70e+01 2tnfA b.22.1.1 23867 3kwuA 150 1.73e+01 1ka9H 200 1.79e+01 c.23.16.1 77308 1jmcA 246 1.86e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1fguA 252 1.92e+01 1jmcA b.40.4.3,b.40.4.3 25296,25297 3h4fA 336 1.97e+01 3i35A 60 2.05e+01 3hzhB 172 2.05e+01 2p2sA 336 2.08e+01 1iqaA 160 2.17e+01 b.22.1.1 71274 1j9qA 341 2.21e+01 1nif b.6.1.3,b.6.1.3 62765,62766 2r60A 499 2.23e+01 1aihA 170 2.32e+01 1aihA d.163.1.1 42149 3hxjA 330 2.34e+01 1s55A 156 2.37e+01 b.22.1.1 118865 2c4eA 302 2.45e+01 3k17A 365 2.48e+01 3fvqA 359 2.48e+01 1oxwA 373 2.57e+01 c.19.1.3 87539 3iteA 562 2.62e+01 1wdxA 69 2.63e+01 1ocsA 162 2.67e+01 d.189.1.1 92776 1x99A 145 2.90e+01 b.97.1.2 114978 2amuA 143 2.96e+01 1tg0A 68 3.23e+01 2w5yA 192 3.33e+01 3fsaA 125 3.36e+01 2v7bA 529 3.44e+01 3k2mC 101 3.46e+01 1t5hX 504 3.48e+01 e.23.1.1 106449 2v8lA 106 3.58e+01 1yrkA 126 3.61e+01 1a87 321 3.62e+01 1a87 1rvkA 382 3.66e+01 c.1.11.2,d.54.1.1 97928,97929 1as6A 343 3.73e+01 1nif b.6.1.3,b.6.1.3 23090,23091 3eykA 323 3.76e+01 1et7A 341 3.85e+01 1nif b.6.1.3,b.6.1.3 23070,23071 2zklA 369 3.88e+01 2hivA 621 3.88e+01 2djmA 106 3.95e+01 2ppeA 343 3.97e+01 b.6.1.3,b.6.1.3 149769,149770 1zdsA 336 3.99e+01 b.6.1.3,b.6.1.3 124952,124953 3kg9A 296 3.99e+01 3l4bA 143 4.01e+01 1snrA 341 4.02e+01 b.6.1.3,b.6.1.3 105823,105824 2v6vA 156 4.03e+01 2fblA 153 4.05e+01 d.63.1.2 133249 1bdyA 123 4.06e+01 1bdyA b.7.1.1 23190 2ajfE 180 4.10e+01 d.318.1.1 126884 1mup 166 4.19e+01 1mup 2jjuA 127 4.19e+01 2vbuA 136 4.24e+01 b.43.5.2 152911 3ingA 325 4.30e+01 2rdkA 109 4.39e+01 1vc3B 97 4.42e+01 2wawA 199 4.46e+01 3e29A 144 4.57e+01 3e53A 480 4.68e+01 3mhsA 476 4.81e+01 1oe1A 336 4.87e+01 b.6.1.3,b.6.1.3 86891,86892 2e2dC 180 5.06e+01 b.40.3.1 131980 2b0rA 202 5.08e+01 1i06A 180 5.09e+01 1mup b.60.1.1 27131 1do6A 124 5.11e+01 1do6A b.1.13.1 22361 2nqlA 388 5.12e+01 2g1uA 155 5.13e+01 1dqiA 124 5.14e+01 1do6A b.1.13.1 22357 1ca1 370 5.42e+01 1ca1 1ca1A 370 5.42e+01 a.124.1.1,b.12.1.3 19340,23648 1miwA 404 5.43e+01 a.173.1.1,d.218.1.4 79162,79163 3cw9A 504 5.44e+01 e.23.1.1 157035 1nvpC 76 5.53e+01 b.56.1.1 92212 2wxuA 370 5.53e+01 2vq4A 106 5.66e+01 1jb9A 316 5.85e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1sqlA 146 5.90e+01 d.96.1.3 105925 3kkgA 146 5.93e+01 1bmlC 362 5.97e+01 1bmlC d.15.5.1,d.15.5.1,d.15.5.1 37729,37730,37731 3lo8A 311 6.02e+01 2jk8A 302 6.05e+01 2pp6A 102 6.07e+01 b.106.1.2 149728 1rlw 126 6.09e+01 1rlw 1rlwA 126 6.09e+01 b.7.1.1 23177 3kf8A 220 6.13e+01 2eixA 243 6.15e+01 2pbeA 294 6.16e+01 a.160.1.5,d.218.1.13 149355,149356 2ckkA 127 6.26e+01 1khoA 370 6.32e+01 a.124.1.1,b.12.1.3 72489,72490 1zndA 174 6.33e+01 b.60.1.1 125380 1qy1A 174 6.34e+01 b.60.1.1 96568 1kzlA 208 6.34e+01 b.43.4.3,b.43.4.3 77635,77636 2hrgA 496 6.35e+01 1j1tA 233 6.40e+01 b.29.1.18 90771 2vpuA 354 6.47e+01 1cghA 224 6.48e+01 1a7s b.47.1.2 26290 3km3A 206 6.50e+01 1a78A 134 6.58e+01 1c1lA b.29.1.3 24212 1jv4A 162 6.59e+01 b.60.1.1 67343 3fz3A 531 6.59e+01 2zplA 97 6.64e+01 3i1iA 377 6.66e+01 3id1A 95 6.76e+01 1u5fA 148 6.86e+01 b.55.1.1 119542 1d7qA 143 6.93e+01 1d7qA b.40.4.5 25331 1d7kA 421 6.93e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 2yweA 600 6.95e+01 1o13A 136 6.98e+01 c.55.5.1 80762 1mzyA 333 7.09e+01 b.6.1.3,b.6.1.3 103848,103849 2bs3A 656 7.16e+01 a.7.3.1,c.3.1.4,d.168.1.1 129042,129043,129044 2bs2A 660 7.16e+01 a.7.3.1,c.3.1.4,d.168.1.1 129030,129031,129032 1vkyA 347 7.17e+01 e.53.1.1 108696 2oynA 146 7.31e+01 b.43.5.2 149067 2hrvA 142 7.33e+01 2hrvA b.47.1.4 26429 2pe3A 354 7.38e+01 2oqkA 117 7.39e+01 1q8rA 120 7.45e+01 d.79.6.1 96225 2x540 372 7.54e+01 1jkgA 140 7.55e+01 d.17.4.2 66795 1qhuA 460 7.58e+01 1qhuA b.66.1.1,b.66.1.1 27530,27531 7odcA 424 7.65e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 2ii1A 301 7.66e+01 1a35A 538 7.74e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 3h7nA 729 7.80e+01 1rcqA 357 7.96e+01 b.49.2.2,c.1.6.1 104882,104883