# List of top-scoring protein chains for T0314.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 1venA 516 4.78e-01 1itcA 516 4.79e-01 b.3.1.1,c.1.8.1 83705,83706 1vepA 516 4.79e-01 1vemA 516 4.79e-01 1veoA 516 4.80e-01 1yyaA 250 2.70e+00 1zicA 236 3.40e+00 1ggvA 232 3.43e+00 1din c.69.1.9 34683 1zi6A 236 3.47e+00 1ziyA 236 3.53e+00 1din 236 3.56e+00 1din c.69.1.9 34682 2cb2A 318 6.25e+00 1zixA 236 6.41e+00 1zi9A 236 6.45e+00 1zj4A 236 6.57e+00 1zi8A 236 6.99e+00 1zj5A 236 7.12e+00 2agcA 162 8.98e+00 1b89A 449 9.47e+00 1b89A a.118.1.3 19138 1xcbA 211 1.25e+01 a.4.5.38,c.2.1.12 109552,109553 1x7gA 261 1.35e+01 1s1hE 149 1.42e+01 i.1.1.1 105158 1w4zA 281 1.44e+01 1vkuA 100 1.56e+01 a.28.1.1 108690 2a6hF 423 1.61e+01 1xnc 185 1.83e+01 1axkA b.29.1.11 24310 1exnA 290 1.84e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 1ut8A 291 1.84e+01 a.60.7.1,c.120.1.2 99908,99909 1xo1A 291 1.85e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1xnb 185 2.05e+01 1axkA b.29.1.11 24308 1hv1A 185 2.05e+01 b.29.1.11 61286 2dcyA 185 2.06e+01 1mc8A 343 2.08e+01 a.60.7.1,c.120.1.2 78945,78946 1nmoA 247 2.15e+01 c.135.1.1 91980 1bcx 185 2.24e+01 1axkA b.29.1.11 24312 2bkdN 134 2.29e+01 1c5hA 185 2.29e+01 1axkA b.29.1.11 24311 1t2bA 397 2.40e+01 2dczA 185 2.45e+01 2bvvA 185 2.51e+01 1axkA b.29.1.11 24309 1htjF 210 2.56e+01 1htjF a.91.1.1 61254 1hv0A 185 3.01e+01 b.29.1.11 61285 2cxxA 190 3.10e+01 1yc9A 442 3.17e+01 1i6uA 130 3.65e+01 d.140.1.1 61850 1uulA 202 3.71e+01 1kshA 186 4.01e+01 c.37.1.8 72914 1m22A 503 4.05e+01 c.117.1.1 78464 1uhlB 242 4.18e+01 a.123.1.1 107850 1xi4A 1630 4.31e+01 2akpA 186 4.41e+01 1ucyJ 49 4.46e+01 1ppbL b.47.1.2 26200 1yewC 289 4.48e+01 2aclB 244 4.51e+01 1o17A 345 4.63e+01 a.46.2.1,c.27.1.1 80765,80766 1axkA 394 4.68e+01 1axkA b.29.1.2,b.29.1.11 24181,24315 1avgL 41 4.76e+01 1ppbL b.47.1.2 26216 2ucz 165 4.78e+01 1u9aA d.20.1.1 38330 1k20A 310 4.91e+01 c.107.1.1 68027 1am1 213 4.93e+01 1yer d.122.1.1 41095 2brcA 214 4.94e+01 1bgq 225 5.07e+01 1yer d.122.1.1 41098 1nlfA 279 5.17e+01 c.37.1.11 85850 2breA 219 5.21e+01 1ah6 220 5.25e+01 1yer d.122.1.1 41094 2eql 129 5.31e+01 3lzt d.2.1.2 36585 1a4h 230 5.32e+01 1yer d.122.1.1 41099 1jouA 49 5.37e+01 1ppbL b.47.1.2 63218 1oyjA 231 5.50e+01 a.45.1.1,c.47.1.5 87597,87598 1j6uA 469 5.82e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1zkaA 110 5.84e+01 1zbpA 273 5.92e+01 1jiwI 106 6.18e+01 1smpI b.61.2.1 63078 1zk9A 110 6.34e+01 1q15A 503 6.71e+01 c.26.2.1,d.153.1.1 95538,95539 1x6iA 91 6.91e+01 1i4sA 147 7.01e+01 a.149.1.1 66026 1dznA 560 7.02e+01 1qltA d.58.32.1,d.145.1.1 39471,41734 2fvkA 559 7.06e+01 1qltA 560 7.06e+01 1qltA d.58.32.1,d.145.1.1 39457,41720 1e0yA 560 7.07e+01 1qltA d.58.32.1,d.145.1.1 39467,41730 1e8gA 560 7.09e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1h1yA 228 7.14e+01 c.1.2.2 76506 1w1jA 560 7.20e+01 d.58.32.1,d.145.1.1 109055,109056 1w1lA 560 7.20e+01 d.58.32.1,d.145.1.1 109063,109064 1bob 320 7.20e+01 1bob d.108.1.1 40816 1w1kA 560 7.21e+01 d.58.32.1,d.145.1.1 109059,109060 1vaoA 560 7.21e+01 1qltA d.58.32.1,d.145.1.1 39461,41724 1qmvA 197 7.26e+01 1qq2A c.47.1.10 33066 1w1mA 560 7.27e+01 d.58.32.1,d.145.1.1 109067,109068 1wppA 311 7.37e+01 1s03G 129 7.40e+01 d.140.1.1 105144 1jmoL 48 7.53e+01 b.47.1.2 77137 1jfzA 154 7.54e+01 a.149.1.1 66655 1t92A 116 7.82e+01 1y3tA 337 8.11e+01 1s5pA 235 8.16e+01 c.31.1.5 98569 1b35B 255 8.29e+01 1b35B b.121.4.1 23334 1b1gA 75 8.42e+01 1psrA a.39.1.1 17151 1ix5A 151 8.48e+01 d.26.1.1 83763 1rc7A 220 8.68e+01 a.149.1.1,d.50.1.1 97289,97290 1cdn 76 8.69e+01 4icb a.39.1.1 17148 1yyoA 221 8.72e+01 1yz9A 221 8.78e+01