# List of top-scoring protein chains for T0296.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 1tozA 116 2.62e-01 1wmiA 90 2.45e+00 1e8gA 560 3.22e+00 1qltA d.58.32.1,d.145.1.1 39455,41718 1dznA 560 3.25e+00 1qltA d.58.32.1,d.145.1.1 39471,41734 1e0yA 560 3.25e+00 1qltA d.58.32.1,d.145.1.1 39467,41730 1qltA 560 3.79e+00 1qltA d.58.32.1,d.145.1.1 39457,41720 1gxsA 270 5.28e+00 c.69.1.5 76375 1zkdA 387 5.32e+00 1wp0A 165 6.69e+00 2ggtA 164 6.93e+00 1w1lA 560 1.04e+01 d.58.32.1,d.145.1.1 109063,109064 1w1jA 560 1.05e+01 d.58.32.1,d.145.1.1 109055,109056 1vaoA 560 1.05e+01 1qltA d.58.32.1,d.145.1.1 39461,41724 1w1mA 560 1.07e+01 d.58.32.1,d.145.1.1 109067,109068 1xdkB 303 1.19e+01 1xapA 267 1.20e+01 1avbA 226 1.34e+01 1led b.29.1.1 24158 2fgyA 542 1.51e+01 2g2jA 179 1.54e+01 1fd0A 235 1.57e+01 a.123.1.1 76164 1fcyA 236 1.57e+01 2lbd a.123.1.1 19282 1exaA 246 1.59e+01 2lbd a.123.1.1 19285 2lbd 267 1.62e+01 2lbd a.123.1.1 19287 1w1kA 560 1.68e+01 d.58.32.1,d.145.1.1 109059,109060 2ad9A 119 1.75e+01 1fcdA 401 1.81e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1q7rA 219 1.84e+01 c.23.16.1 96054 1sjqA 105 2.33e+01 d.58.7.1 105660 1umiA 184 2.37e+01 b.18.1.21 99606 1umhA 184 2.43e+01 b.18.1.21 99605 1dkfB 235 2.52e+01 2lbd a.123.1.1 19281 1hg3A 225 2.61e+01 1hg3A c.1.1.1 61025 1qwgA 251 2.65e+01 c.1.27.1 96473 1r1tA 122 2.94e+01 a.4.5.5 104769 1x3bA 146 2.96e+01 1xg5A 279 3.03e+01 1t91A 207 3.15e+01 1wviA 257 3.16e+01 1so9A 164 3.26e+01 b.146.1.1 105842 2bkaA 242 3.39e+01 1hzmA 154 3.45e+01 c.46.1.1 65975 1mup 166 3.46e+01 1mup b.60.1.1 27133 1jv4A 162 3.52e+01 b.60.1.1 67343 2cu3A 64 3.56e+01 1zndA 174 3.65e+01 1i06A 180 3.68e+01 1mup b.60.1.1 27131 1ps9A 671 3.70e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1xu9A 286 3.87e+01 2belA 283 3.88e+01 1kafA 108 3.91e+01 d.199.1.1 68372 1tq8A 163 4.00e+01 c.26.2.4 107204 1yp6A 174 4.12e+01 1q25A 432 4.17e+01 b.64.1.1,b.64.1.1,b.64.1.1 104493,104494,104495 1wrbA 253 4.24e+01 2augA 126 4.25e+01 1md7A 328 4.32e+01 b.47.1.2,g.18.1.1 91243,91244 1md8A 329 4.33e+01 b.47.1.2,g.18.1.1 91245,91246 1gpzA 399 4.42e+01 b.47.1.2,g.18.1.1,g.18.1.1 70302,70303,70304 1jalA 363 4.56e+01 c.37.1.8,d.15.10.2 84138,84139 1yfzA 205 4.88e+01 1o50A 157 4.91e+01 d.37.1.1,d.37.1.1 92478,92479 2d2mB 142 5.35e+01 1v0bA 288 5.37e+01 d.144.1.7 100241 1v0oA 288 5.44e+01 d.144.1.7 100243 1ob3A 288 5.48e+01 d.144.1.7 92747 1qz9A 416 5.66e+01 c.67.1.3 96621 1gakA 141 5.67e+01 1gakA a.19.1.1 16415 1kuuA 202 5.69e+01 d.153.2.1 73019 1oi6A 205 5.82e+01 b.82.1.1 103940 1xhjA 88 6.09e+01 1e2yA 188 6.30e+01 1qq2A c.47.1.10 59173 2b06A 155 6.74e+01 1fxxA 482 6.76e+01 1fxxA c.55.3.5 33726 1gefA 123 6.77e+01 1gefA c.52.1.18 60465 2bjvA 265 6.83e+01 1g99A 408 6.95e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1pqpA 371 7.00e+01 c.2.1.3,d.81.1.1 104286,104287 1wqsA 173 7.11e+01 1orqB 219 7.22e+01 b.1.1.1,b.1.1.2 87346,87347 1amuA 563 7.23e+01 1amuA e.23.1.1 43351 1boqA 198 7.29e+01 1qq4A b.47.1.1 25797 1y6bA 366 7.39e+01 1x7aL 146 7.39e+01 1necA 216 7.44e+01 1vfrA d.90.1.1 40249 1gbjA 198 7.49e+01 1qq4A b.47.1.1 25776 1kqbA 217 7.50e+01 d.90.1.1 68798 1gbaA 198 7.57e+01 1qq4A b.47.1.1 25783 1roe 97 7.58e+01 1awd d.15.4.1 37672 1mzzA 334 7.59e+01 b.6.1.3,b.6.1.3 103850,103851 1tuuA 399 7.59e+01 2f9jA 125 7.67e+01 1oxkB 134 7.69e+01 c.23.1.1 93691 1ozaA 371 7.69e+01 c.2.1.3,d.81.1.1 104045,104046 1qq4A 198 7.75e+01 1qq4A b.47.1.1 25768 3proA 198 7.84e+01 1qq4A b.47.1.1 25780 2f9dA 125 7.89e+01 1ssxA 198 7.92e+01 b.47.1.1 98978 1nwhA 371 7.95e+01 c.2.1.3,d.81.1.1 92233,92234 2ey4A 333 8.02e+01 1dzkA 157 8.22e+01 1obpA b.60.1.1 27096 2fvkA 559 8.39e+01 1exbA 332 8.43e+01 1qrqA c.1.7.1 28666 1a3yA 149 8.45e+01 1obpA b.60.1.1 27110 1gbfA 198 8.48e+01 1qq4A b.47.1.1 25784 1di1A 300 8.55e+01 1di1A a.128.1.4 19446 2a79A 333 8.59e+01 1pquA 371 8.64e+01 c.2.1.3,d.81.1.1 104288,104289 1r75A 141 8.71e+01 b.134.1.1 97189 1xr4A 509 8.74e+01 2ba0A 229 8.76e+01