# 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.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 1tnfA 158 5.67e-01 2tnfA b.22.1.1 23871 3l9jT 149 6.03e-01 2e7aA 157 6.69e-01 4tsvA 150 7.09e-01 2tnfA b.22.1.1 23860 1a8mA 157 8.60e-01 2tnfA b.22.1.1 23868 3eo6A 106 1.44e+00 2tnfA 156 1.64e+00 2tnfA b.22.1.1 23880 1y6kR 214 1.93e+00 b.1.2.1,b.1.2.1 122663,122664 1aihA 170 3.20e+00 1aihA d.163.1.1 42149 2glzA 153 3.35e+00 d.81.3.1 135348 1k42A 168 3.53e+00 b.18.1.14 72032 1fguA 252 3.54e+00 1jmcA b.40.4.3,b.40.4.3 25296,25297 1sgpE 185 3.63e+00 1qq4A b.47.1.1 25816 2qa9E 185 3.63e+00 b.47.1.1 150200 3jxsA 174 4.29e+00 1z47A 355 4.39e+00 3kwuA 150 5.40e+00 1jmcA 246 5.65e+00 1jmcA b.40.4.3,b.40.4.3 25300,25301 2wgoA 98 6.64e+00 2sfaA 191 1.03e+01 b.47.1.1 25815 2hzlA 365 1.08e+01 1bdyA 123 1.11e+01 1bdyA b.7.1.1 23190 1oqeA 144 1.15e+01 b.22.1.1 87286 3hzhB 172 1.15e+01 1onqA 283 1.18e+01 b.1.1.2,d.19.1.1 93365,93366 1kxgA 152 1.21e+01 b.22.1.1 73145 2amuA 143 1.39e+01 1u5fA 148 1.46e+01 b.55.1.1 119542 3kf8A 220 1.58e+01 2fblA 153 1.66e+01 d.63.1.2 133249 1iqaA 160 1.66e+01 b.22.1.1 71274 3hxjA 330 1.66e+01 1nb9A 147 1.76e+01 b.43.5.1 85515 1o7iA 119 1.82e+01 b.40.4.3 86642 2h0vA 338 1.98e+01 3i35A 60 1.99e+01 1s55A 156 2.00e+01 b.22.1.1 118865 1y3tA 337 2.04e+01 b.82.1.5 122600 1d7qA 143 2.13e+01 1d7qA b.40.4.5 25331 3fvqA 359 2.27e+01 2e2dC 180 2.29e+01 b.40.3.1 131980 1qhuA 460 2.32e+01 1qhuA b.66.1.1,b.66.1.1 27530,27531 1qcxA 359 2.37e+01 1qcxA b.80.1.2 28028 2vbuA 136 2.44e+01 b.43.5.2 152911 3h0lB 478 2.47e+01 2v6vA 156 2.83e+01 2wawA 199 3.13e+01 1ka9H 200 3.22e+01 c.23.16.1 77308 2djmA 106 3.36e+01 2ooqA 286 3.41e+01 1tx4B 178 3.42e+01 1ctqA c.37.1.8 32045 3h15A 198 3.43e+01 2eixA 243 3.46e+01 2vovA 336 3.58e+01 1jb9A 316 3.64e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 2oynA 146 3.64e+01 b.43.5.2 149067 3lo8A 311 3.71e+01 2bycA 137 3.77e+01 d.58.10.2 129476 1hjdA 101 3.79e+01 b.34.2.1 65846 1wdxA 69 3.83e+01 1vqtA 213 4.08e+01 c.1.2.3 120417 1khdA 345 4.12e+01 a.46.2.1,c.27.1.1 77400,77401 1yrkA 126 4.21e+01 3kg9A 296 4.25e+01 2vpuA 354 4.32e+01 1nvpC 76 4.34e+01 b.56.1.1 92212 2ougA 162 4.37e+01 2fujA 137 4.42e+01 d.38.1.1 134175 1h5wA 309 4.42e+01 e.27.1.1 65635 1tg0A 68 4.42e+01 1sqlA 146 4.53e+01 d.96.1.3 105925 2b0rA 202 4.65e+01 1ocsA 162 4.65e+01 d.189.1.1 92776 2rdkA 109 4.96e+01 2v8lA 106 5.12e+01 1e3pA 757 5.12e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 1e3dB 542 5.13e+01 1h2rL e.18.1.1 59189 2v7bA 529 5.32e+01 1olzA 663 5.32e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 2zklA 369 5.41e+01 1rvkA 382 5.42e+01 c.1.11.2,d.54.1.1 97928,97929 1oxwA 373 5.43e+01 c.19.1.3 87539 1x99A 145 5.44e+01 b.97.1.2 114978 2yweA 600 5.51e+01 3k17A 365 5.57e+01 3ebeA 200 5.58e+01 1tnrA 144 5.62e+01 2tnfA b.22.1.1 23867 2ii1A 301 5.62e+01 3eykA 323 5.69e+01 1t5hX 504 5.83e+01 e.23.1.1 106449 2axoA 270 5.92e+01 c.47.1.19 127496 2zooA 442 5.95e+01 7odcA 424 5.96e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1d7kA 421 5.97e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1tzfA 259 6.07e+01 c.68.1.13 107476 3k2mC 101 6.18e+01 1do6A 124 6.22e+01 1do6A b.1.13.1 22361 2pbeA 294 6.30e+01 a.160.1.5,d.218.1.13 149355,149356 1tzzA 392 6.41e+01 c.1.11.2,d.54.1.1 112896,112897 3kkgA 146 6.63e+01 2i9iA 254 6.71e+01 c.51.6.1 147571 3mhsA 476 6.74e+01 1dqiA 124 6.94e+01 1do6A b.1.13.1 22357 2pp6A 102 6.96e+01 b.106.1.2 149728 3e29A 144 7.07e+01 1c52 131 7.24e+01 1c52 1c52A 131 7.24e+01 a.3.1.1 15810 1a87 321 7.27e+01 1a87 1v3eA 431 7.43e+01 b.68.1.1 100287 3cw9A 504 7.54e+01 e.23.1.1 157035 1f9rA 70 7.59e+01 d.9.1.1 90484 2p2sA 336 7.67e+01 1a65A 504 7.79e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 2ebdA 309 7.84e+01 2hivA 621 8.00e+01