# List of top-scoring protein chains for T0314.t04-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 5.54e-01 1vepA 516 5.54e-01 1itcA 516 5.55e-01 b.3.1.1,c.1.8.1 83705,83706 1vemA 516 5.55e-01 1veoA 516 5.56e-01 1yyaA 250 4.62e+00 1zicA 236 6.30e+00 1ggvA 232 6.34e+00 1din c.69.1.9 34683 1zi6A 236 6.39e+00 1ziyA 236 6.51e+00 1din 236 6.57e+00 1din c.69.1.9 34682 2cb2A 318 8.15e+00 1zixA 236 1.17e+01 1zi9A 236 1.18e+01 1zj4A 236 1.20e+01 1zi8A 236 1.29e+01 1zj5A 236 1.30e+01 2agcA 162 1.37e+01 2bkdN 134 1.48e+01 1ut8A 291 1.62e+01 a.60.7.1,c.120.1.2 99908,99909 1exnA 290 1.62e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 1xo1A 291 1.63e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1vkuA 100 1.65e+01 a.28.1.1 108690 1x7gA 261 1.81e+01 1xcbA 211 1.82e+01 a.4.5.38,c.2.1.12 109552,109553 1b89A 449 1.84e+01 1b89A a.118.1.3 19138 1w4zA 281 1.91e+01 1s1hE 149 2.23e+01 i.1.1.1 105158 1xnc 185 2.35e+01 1axkA b.29.1.11 24310 1nmoA 247 2.46e+01 c.135.1.1 91980 1xnb 185 2.61e+01 1axkA b.29.1.11 24308 1hv1A 185 2.62e+01 b.29.1.11 61286 2dcyA 185 2.63e+01 2a6hF 423 2.74e+01 1bcx 185 2.86e+01 1axkA b.29.1.11 24312 1yewC 289 2.87e+01 1i6uA 130 2.89e+01 d.140.1.1 61850 1c5hA 185 2.94e+01 1axkA b.29.1.11 24311 1mc8A 343 2.94e+01 a.60.7.1,c.120.1.2 78945,78946 2dczA 185 3.15e+01 2bvvA 185 3.21e+01 1axkA b.29.1.11 24309 2ucz 165 3.55e+01 1u9aA d.20.1.1 38330 1yc9A 442 3.56e+01 1htjF 210 3.68e+01 1htjF a.91.1.1 61254 1t2bA 397 3.78e+01 1hv0A 185 3.83e+01 b.29.1.11 61285 2cxxA 190 3.84e+01 1m22A 503 4.18e+01 c.117.1.1 78464 1ucyJ 49 4.77e+01 1ppbL b.47.1.2 26200 1y3tA 337 4.91e+01 1avgL 41 5.00e+01 1ppbL b.47.1.2 26216 2akpA 186 5.35e+01 1uhlB 242 5.36e+01 a.123.1.1 107850 1jouA 49 5.45e+01 1ppbL b.47.1.2 63218 1uulA 202 5.52e+01 1z7dA 433 5.65e+01 1o17A 345 5.68e+01 a.46.2.1,c.27.1.1 80765,80766 2aclB 244 5.80e+01 1j6uA 469 5.80e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1jiwI 106 5.98e+01 1smpI b.61.2.1 63078 1axkA 394 6.00e+01 1axkA b.29.1.2,b.29.1.11 24181,24315 1am1 213 6.05e+01 1yer d.122.1.1 41095 1zkaA 110 6.05e+01 2brcA 214 6.06e+01 1bgq 225 6.22e+01 1yer d.122.1.1 41098 1kshA 186 6.34e+01 c.37.1.8 72914 2breA 219 6.37e+01 2eql 129 6.43e+01 3lzt d.2.1.2 36585 1ah6 220 6.43e+01 1yer d.122.1.1 41094 1a4h 230 6.51e+01 1yer d.122.1.1 41099 1zk9A 110 6.58e+01 1i4sA 147 6.89e+01 a.149.1.1 66026 1s03G 129 7.13e+01 d.140.1.1 105144 2fvkA 559 7.37e+01 1jfzA 154 7.40e+01 a.149.1.1 66655 1jmoL 48 7.47e+01 b.47.1.2 77137 1xi4A 1630 7.81e+01 2ew0A 192 7.83e+01 1k20A 310 7.88e+01 c.107.1.1 68027 1t92A 116 8.06e+01 1w1kA 560 8.23e+01 d.58.32.1,d.145.1.1 109059,109060 1w1lA 560 8.24e+01 d.58.32.1,d.145.1.1 109063,109064 1h1yA 228 8.24e+01 c.1.2.2 76506 1w1jA 560 8.24e+01 d.58.32.1,d.145.1.1 109055,109056 1vaoA 560 8.24e+01 1qltA d.58.32.1,d.145.1.1 39461,41724 1dznA 560 8.29e+01 1qltA d.58.32.1,d.145.1.1 39471,41734 1w1mA 560 8.31e+01 d.58.32.1,d.145.1.1 109067,109068 1e0yA 560 8.38e+01 1qltA d.58.32.1,d.145.1.1 39467,41730 1e8gA 560 8.40e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1qltA 560 8.40e+01 1qltA d.58.32.1,d.145.1.1 39457,41720 1rc7A 220 8.67e+01 a.149.1.1,d.50.1.1 97289,97290 1oyjA 231 8.68e+01 a.45.1.1,c.47.1.5 87597,87598 1yyoA 221 8.69e+01 1s5pA 235 8.75e+01 c.31.1.5 98569 1yz9A 221 8.75e+01 1x3pA 54 8.77e+01 1zt2B 212 8.80e+01 1wjpA 107 8.99e+01