# List of top-scoring protein chains for T0372.t06-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 1v93A 296 2.12e-01 c.1.23.1 100532 1mk4A 157 2.99e-01 d.108.1.1 84979 1kk9A 221 1.59e+00 d.115.1.1 77432 1k7jA 206 2.48e+00 d.115.1.1 72103 2etfA 441 4.47e+00 1f83A 425 4.49e+00 1f82A d.92.1.7 40306 1f82A 424 4.49e+00 1f82A d.92.1.7 40307 1xwgA 221 5.62e+00 1pl2A 222 5.63e+00 a.45.1.1,c.47.1.5 104182,104183 1k3yA 221 5.88e+00 a.45.1.1,c.47.1.5 77245,77246 1pl1A 222 5.89e+00 a.45.1.1,c.47.1.5 104178,104179 1gseA 221 5.91e+00 1pgtA a.45.1.1,c.47.1.5 17667,32961 1ydkA 222 6.46e+00 1twyA 290 6.52e+00 1usbA 225 6.66e+00 a.45.1.1,c.47.1.5 108001,108002 1gawA 314 8.16e+00 1fnc b.43.4.2,c.25.1.1 25643,31533 1cyg 680 9.46e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21843,22512,27750,28737 1ihcA 188 9.52e+00 1di6A c.57.1.1 62379 1jljA 189 9.91e+00 c.57.1.1 63169 2g9iA 249 1.15e+01 2bf1A 316 1.22e+01 1ii8A 195 1.58e+01 1f2tA c.37.1.12 62417 2fvgA 340 1.60e+01 1aop 497 1.65e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1otoA 236 1.77e+01 c.10.2.1 93525 2fug9 182 1.79e+01 1otnA 236 1.83e+01 c.10.2.1 93524 1otmA 236 1.86e+01 c.10.2.1 93523 1d0bA 213 1.87e+01 1d0bA c.10.2.1 30866 1vaeA 111 1.99e+01 b.36.1.1 108466 1kk8C 154 1.99e+01 a.39.1.5 77431 1wdcC 156 1.99e+01 1wdcC a.39.1.5 17317 1vjzA 341 2.00e+01 c.1.8.3 100838 1l5jA 865 2.00e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1p5zB 263 2.10e+01 c.37.1.1 87815 1qgaA 308 2.25e+01 1fnc b.43.4.2,c.25.1.1 25637,31527 1qg0A 308 2.26e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1qfzA 308 2.26e+01 1fnc b.43.4.2,c.25.1.1 25633,31523 4matA 278 2.47e+01 1c24A d.127.1.1 41150 2aj6A 159 2.53e+01 1c1kA 217 2.55e+01 1c1kA a.120.1.1 19239 1dflX 152 2.73e+01 1wdcC a.39.1.5 17321 1v3vA 333 2.82e+01 b.35.1.2,c.2.1.1 108345,108346 1lk5A 229 3.05e+01 c.124.1.4,d.58.40.1 73960,73961 1h6tA 291 3.12e+01 b.1.18.15,c.10.2.1 65686,65687 1s1iR 137 3.16e+01 i.1.1.1 105192 1m9sA 605 3.20e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1scmC 149 3.20e+01 1wdcC a.39.1.5 17319 1b41A 539 3.21e+01 2bce c.69.1.1 34621 1uanA 227 3.21e+01 c.134.1.1 99135 1f8uA 583 3.30e+01 2bce c.69.1.1 34620 1nd7A 374 3.53e+01 d.148.1.1 91817 3matA 265 3.67e+01 1c24A d.127.1.1 41149 2glfA 450 3.83e+01 1slm 255 4.02e+01 1hfc a.20.1.2,d.92.1.11 59042,59043 1vorD 270 4.02e+01 1nwyA 274 4.05e+01 i.1.1.2 86345 1nkwA 275 4.06e+01 i.1.1.2 80586 1s1hH 129 4.08e+01 i.1.1.1 105160 1ylmA 144 4.13e+01 1c24A 263 4.20e+01 1c24A d.127.1.1 41148 1yvmA 264 4.21e+01 1jl5A 454 4.25e+01 c.10.2.6 66830 2ggcA 263 4.39e+01 1xnzA 264 4.40e+01 2avwA 311 4.40e+01 1uj3A 215 4.49e+01 b.1.1.1,b.1.1.2 107888,107889 2au1A 292 4.56e+01 1clkA 387 4.61e+01 4xis c.1.15.3 29438 1bqg 451 4.68e+01 1bqg c.1.11.2,d.54.1.1 29217,38861 2cp7A 84 4.75e+01 1agsA 221 5.01e+01 1pgtA a.45.1.1,c.47.1.5 17691,32985 1wo8A 126 5.03e+01 1c4zA 358 5.08e+01 1c4zA d.148.1.1 41766 2fug4 409 5.11e+01 1y08A 323 5.22e+01 2fp7B 172 5.32e+01 1pg5A 299 5.42e+01 c.78.1.1,c.78.1.1 104146,104147 1wzoA 246 5.50e+01 1z9hA 290 5.71e+01 1msk 331 5.92e+01 1msk d.173.1.1 42495 2d4pA 141 6.05e+01 1qt1A 387 6.09e+01 4xis c.1.15.3 29436 1vp5A 298 6.10e+01 1yqtA 538 6.21e+01 2cvbA 188 6.36e+01 1y1uA 585 6.42e+01 1b1yA 500 6.46e+01 1byb c.1.8.1 28796 1uwjA 276 6.65e+01 d.144.1.7 100125 1xm7A 195 6.66e+01 2g4cA 474 6.68e+01 1uwhA 276 6.71e+01 d.144.1.7 100123 1cjwA 166 6.97e+01 1cjwA d.108.1.1 40818 1nb8A 353 7.12e+01 d.3.1.9 80385 1rdr 461 7.14e+01 1rdr e.8.1.4 43116 1ib1E 200 7.15e+01 1cjwA d.108.1.1 62137 1e3oC 160 7.16e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1w6rA 543 7.20e+01 2cekA 535 7.20e+01 1eeaA 534 7.20e+01 2bce c.69.1.1 34609 1ea5A 537 7.20e+01 2bce c.69.1.1 34592 2dfpA 534 7.20e+01 2bce c.69.1.1 34597 1gqrA 532 7.20e+01 c.69.1.1 70374 1ut6A 537 7.20e+01 1tqlA 461 7.26e+01 e.8.1.4 107235 1ra6A 461 7.27e+01 e.8.1.4 104879 1sd6A 123 7.29e+01 a.4.5.39 98803 1wz2A 967 7.32e+01 1b6bA 174 7.34e+01 1cjwA d.108.1.1 40819 1vhoA 346 7.38e+01 b.49.3.1,c.56.5.4 100694,100695 1kuxA 207 7.43e+01 d.108.1.1 73021 1o4zA 346 7.51e+01 b.29.1.2 92474 1vhsA 175 7.58e+01 d.108.1.1 100698 1wkbA 810 7.62e+01 1eiwA 111 7.65e+01 1eiwA c.23.3.1 31130 2f99A 153 7.68e+01 2c58A 537 7.72e+01 1e19A 314 7.81e+01 1b7bA c.73.1.1 34967 2c4xA 260 7.82e+01 1d2vA 104 7.86e+01 1d2vA a.93.1.2 18697 1idn1 190 7.94e+01 1ido 1mhlA 108 7.99e+01 1d2vA a.93.1.2 18699 1jptL 214 8.00e+01 b.1.1.1,b.1.1.2 67053,67054 1l0cA 207 8.06e+01 d.108.1.1 73393 1pg7L 213 8.09e+01 b.1.1.1,b.1.1.2 94678,94679 1z3yA 238 8.17e+01 1tdiA 222 8.20e+01 1yezA 68 8.27e+01 2fnoA 248 8.34e+01 2fi9A 128 8.35e+01 1csp 67 8.55e+01 1mjc b.40.4.5 25321 1wpmA 309 8.82e+01