# List of top-scoring protein chains for T0342.t2k-w0.5 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 1vkbA 161 6.60e-04 d.269.1.1 108643 2g0qA 173 3.33e-03 1xhsA 121 4.71e-03 1v30A 124 8.99e-03 2fgeA 995 1.61e+00 1yewC 289 2.28e+00 1jroB 777 3.17e+00 d.41.1.1,d.133.1.1 67141,67142 1xi5J 114 5.18e+00 2ftzA 284 5.28e+00 1nz6A 101 5.31e+00 a.2.3.1 86441 1emy 153 5.53e+00 1a6m a.1.1.2 15204 1vgjA 184 5.77e+00 1eejA 216 7.61e+00 1eejA c.47.1.9,d.17.3.1 33057,38071 1vr6A 350 7.62e+00 1rzmA 338 7.62e+00 c.1.10.4 105137 1n4cA 182 8.19e+00 a.2.3.1 91617 1jzdA 220 8.57e+00 c.47.1.9,d.17.3.1 84257,84258 1jzoA 216 8.67e+00 c.47.1.9,d.17.3.1 84267,84268 1rt8A 513 1.27e+01 a.40.1.1 105095 3gpdG 334 1.38e+01 1dssG c.2.1.3,d.81.1.1 30029,39944 1krrA 203 1.73e+01 b.81.1.3 72899 1aoa 275 1.77e+01 1aoa a.40.1.1,a.40.1.1 17396,17397 1zxfA 155 1.94e+01 1tzsA 351 1.96e+01 1m55A 197 2.37e+01 d.89.1.3 74469 1luzA 88 2.53e+01 b.40.4.5 74271 1dysA 348 2.58e+01 1bvwA c.6.1.1 30669 1ttnA 106 2.61e+01 2b33A 140 2.64e+01 1u6mA 199 2.69e+01 1iwpB 194 2.83e+01 c.51.3.1 76885 1mmfB 194 2.83e+01 c.51.3.1 85019 1n7zA 334 2.86e+01 b.127.1.1 85380 1a1x 108 2.99e+01 1a1x b.63.1.1 27514 1lwdA 413 3.03e+01 c.77.1.1 78265 1f2qA 176 3.04e+01 2fcbA b.1.1.4,b.1.1.4 21789,21790 1j87A 172 3.04e+01 2fcbA b.1.1.4,b.1.1.4 62715,62716 1qttA 117 3.06e+01 1a1x b.63.1.1 27516 1j88A 172 3.06e+01 2fcbA b.1.1.4,b.1.1.4 62717,62718 1f74A 293 3.37e+01 1nal3 c.1.10.1 29079 1bjt 793 3.50e+01 1bjt e.11.1.1 43249 1ywkA 289 3.54e+01 1m6dA 214 3.76e+01 d.3.1.1 84849 2gp5A 349 3.89e+01 1edzA 320 4.08e+01 1ee9A c.2.1.7,c.58.1.2 30287,33935 1yp5A 58 4.19e+01 1qouA 181 4.57e+01 1qouA b.17.1.1 23707 1ud7A 76 4.83e+01 1ubi d.15.1.1 37593 1pxyA 506 5.23e+01 a.40.1.1 104384 1ridA 244 5.68e+01 g.18.1.1,g.18.1.1,g.18.1.1,g.18.1.1 104943,104944,104945,104946 1wduA 245 5.76e+01 d.151.1.1 109286 1yx5B 98 5.93e+01 1f89A 291 6.03e+01 d.160.1.1 64988 1irc 154 6.08e+01 1a6m a.1.1.2 15141 1sifA 88 6.11e+01 d.15.1.1 105574 2evkA 153 6.14e+01 1lp3A 519 6.25e+01 b.121.5.2 74169 1onlA 128 6.28e+01 b.84.1.1 93362 1v0oA 288 6.65e+01 d.144.1.7 100243 2fgyA 542 6.73e+01 1ruwA 69 6.84e+01 1ob3A 288 6.88e+01 d.144.1.7 92747 1va7A 70 6.99e+01 1qagA 226 7.27e+01 1qagA a.40.1.1,a.40.1.1 17400,17401 1souA 194 7.41e+01 c.124.1.6 105858 1c3tA 76 7.47e+01 1ubi d.15.1.1 37594 1tu1A 148 7.48e+01 d.107.1.3 107316 2c47A 313 7.50e+01 1o7aA 515 7.59e+01 c.1.8.6,d.92.2.1 92608,92609 2gk1B 503 7.59e+01 1nowA 507 7.60e+01 c.1.8.6,d.92.2.1 85936,85937 2ffsA 157 7.68e+01 1xf5P 44 7.75e+01 1v0bA 288 7.77e+01 d.144.1.7 100241 1vmeA 410 7.89e+01 c.23.5.1,d.157.1.3 108893,108894 1uj2A 252 7.96e+01 c.37.1.6 99452 1xrjA 261 8.06e+01 1gegA 256 8.17e+01 1ybvA c.2.1.2 29888 4fxc 98 8.25e+01 1awd d.15.4.1 37663 1offA 97 8.27e+01 d.15.4.1 86947 2gbjA 84 8.30e+01 1dox 96 8.34e+01 1awd d.15.4.1 37668 1sg6A 393 8.35e+01 e.22.1.1 105522 2aw4P 114 8.36e+01 1p32A 209 8.49e+01 1p32A d.25.1.1 38379 1xhcA 367 8.60e+01 1zupA 315 8.71e+01 1u8fO 335 8.75e+01 3ovo 56 8.76e+01 2ovo g.68.1.1 44696 1znqO 338 8.78e+01 1yna 194 8.80e+01 1axkA b.29.1.11 24335 3kar 346 8.85e+01 1bg2 c.37.1.9 32198 1f9vA 347 8.86e+01 1bg2 c.37.1.9 59745 1f9wA 347 8.94e+01 1bg2 c.37.1.9 59746