# List of top-scoring protein chains for t06-100-30-bys-scores 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 1eu8A 409 2.23e-01 1eu8A c.94.1.1 59502 1d3gA 367 2.75e-01 1d3gA c.1.4.1 28600 1md6A 154 3.23e-01 b.42.1.2 91242 2cqeA 98 6.46e-01 1kcfA 258 7.76e-01 a.140.2.1,c.55.3.7 68434,68435 1n08A 163 1.16e+00 b.43.5.1 79730 1gk9B 557 1.20e+00 1e0cA 271 1.39e+00 1e0cA c.46.1.2,c.46.1.2 32717,32718 2fe5A 94 2.00e+00 1hfuA 503 2.36e+00 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1wtaA 275 2.62e+00 1mtyD 512 3.14e+00 1mhyD a.25.1.2 16742 1cpo 299 3.19e+00 1cpo a.39.3.1,a.39.3.1 17390,17391 1twyA 290 3.24e+00 4ubpB 126 3.41e+00 1ubpB b.85.3.1 28345 2az4A 429 3.43e+00 1l6pA 125 3.49e+00 b.1.17.1 73626 1rf6A 427 3.53e+00 d.68.2.2 97366 1eajA 126 3.64e+00 1f5wA b.1.1.1 59401 1j55A 95 5.65e+00 a.39.1.2 77078 1qwtA 255 5.69e+00 b.26.1.3 96501 1u6zA 513 6.04e+00 1wuiS 267 6.18e+00 1bf5A 545 6.77e+00 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1oa4A 222 6.87e+00 b.29.1.11 86731 1o6dA 163 7.05e+00 c.116.1.3 92567 1ubkS 267 7.05e+00 e.19.1.1 88423 2gkeA 274 7.20e+00 1e9gA 286 7.23e+00 1wgjA b.40.5.1 59393 1gqzA 274 7.52e+00 d.21.1.1,d.21.1.1 83311,83312 2awfA 172 7.91e+00 1vqqA 646 8.02e+00 1oqvA 192 8.29e+00 d.24.1.2 87320 2evrA 246 8.37e+00 2a1vA 144 9.15e+00 1lkqA 21 9.42e+00 1sx5A 244 9.62e+00 c.52.1.2 99023 1xmkA 79 1.03e+01 1qynA 153 1.04e+01 d.33.1.1 96597 1j2gA 319 1.06e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 1tueA 212 1.12e+01 c.37.1.20 107323 2fy6A 143 1.14e+01 1qsgA 265 1.28e+01 1eny c.2.1.2 29935 1wsrA 375 1.32e+01 1e3dA 266 1.32e+01 2frvA e.19.1.1 59188 1wmxA 205 1.36e+01 b.18.1.24 109418 1xzzA 246 1.37e+01 1jjzA 29 1.38e+01 g.3.3.1 71699 1zc1A 208 1.40e+01 2azwA 148 1.53e+01 1wyxA 69 1.56e+01 1os8A 223 1.66e+01 b.47.1.1 93481 3gcb 470 1.79e+01 3gcb d.3.1.1 37032 1nb9A 147 2.02e+01 b.43.5.1 85515 2gcfA 73 2.03e+01 2bjfA 329 2.03e+01 2rslA 140 2.16e+01 2rslA c.53.1.1 33345 1q45A 391 2.17e+01 c.1.4.1 95780 1deuA 277 2.18e+01 1theB d.3.1.1 37085 1lo6A 223 2.20e+01 b.47.1.2 74143 1rvkA 382 2.21e+01 c.1.11.2,d.54.1.1 97928,97929 2fmpA 335 2.35e+01 2a8yA 270 2.46e+01 2d3jA 157 2.52e+01 1wzzA 334 2.54e+01 1wojA 214 2.58e+01 1pufA 77 2.59e+01 a.4.1.1 95131 1l7dA 384 2.63e+01 c.2.1.4,c.23.12.2 77774,77775 2bv5A 282 2.64e+01 2bcqA 335 2.65e+01 1na6A 404 2.66e+01 b.142.1.1,c.52.1.22 91748,91749 1bs0A 384 2.67e+01 1bs0A c.67.1.4 34490 1dp4A 435 2.67e+01 1dp4A c.93.1.1 35710 2fdbM 164 2.79e+01 1uwcA 261 2.79e+01 c.69.1.17 100101 1hn3A 40 2.89e+01 j.91.1.1 65892 1nw1A 429 2.96e+01 d.144.1.8 86286 1qwoA 442 2.98e+01 c.60.1.2 104620 1pidA 21 2.99e+01 1paz 123 3.00e+01 1bqk b.6.1.1 22878 1jznA 135 3.01e+01 d.169.1.1 84262 1tkjA 284 3.06e+01 1vkpA 383 3.09e+01 d.126.1.6 108686 1gttA 429 3.10e+01 d.177.1.1,d.177.1.1 70529,70530 1q4vA 21 3.21e+01 2a6aA 218 3.25e+01 2covD 104 3.31e+01 1avwB 171 3.43e+01 1wba b.42.4.1 25599 1ji6A 589 3.59e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1ton 235 3.60e+01 5ptp b.47.1.2 26307 1edqA 540 3.65e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1zgoA 223 3.65e+01 1ypqA 135 3.70e+01 1ivyA 452 3.73e+01 1ivyA c.69.1.5 34654 1guiA 155 3.81e+01 b.18.1.14 76351 1yvhA 329 3.92e+01 1r1gA 31 3.93e+01 g.3.7.2 96816 1yqzA 438 3.93e+01 1e0nA 27 3.99e+01 b.72.1.1 27807 2crbA 97 4.05e+01 1o7nA 449 4.05e+01 b.33.1.2,d.129.3.3 81162,81163 1w6vA 141 4.06e+01 1uvjA 664 4.07e+01 e.8.1.6 100045 1yrrA 382 4.18e+01 1m1hA 248 4.18e+01 b.114.1.1,d.58.42.1 78415,78416 2bkaA 242 4.26e+01 1rweA 21 4.26e+01 1pm4A 119 4.26e+01 b.135.1.1 94891 3cox 507 4.34e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1no1A 126 4.36e+01 a.179.1.1 85913 1ei9A 279 4.37e+01 1ei9A c.69.1.13 34713 1m40A 263 4.39e+01 e.3.1.1 74437 2bbhA 269 4.40e+01 1msoA 21 4.52e+01 2b1yA 104 4.60e+01 1iz6A 138 4.66e+01 b.34.5.2,b.40.4.5 76976,76977 1reqA 727 4.67e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 2bmoA 447 4.72e+01 1hz4A 373 4.73e+01 a.118.8.2 65960 1r6vA 671 4.73e+01 1faoA 126 4.76e+01 1faoA b.55.1.1 26974 1flcB 175 4.78e+01 1flcB h.3.1.1 45716 1bli 483 4.79e+01 1bli b.71.1.1,c.1.8.1 27715,28702 1y9iA 178 4.81e+01 1jcaA 21 4.81e+01 1aly 146 4.82e+01 1aly b.22.1.1 23856 2a72A 146 4.85e+01 1wznA 252 4.88e+01 1rhfA 182 4.88e+01 b.1.1.1,b.1.1.4 97469,97470 1yt8A 539 4.94e+01 1yo3A 102 4.98e+01 1c9kA 180 5.02e+01 1c9kB c.37.1.11 32363 1r4pA 297 5.03e+01 d.165.1.2 97025 1ru0A 105 5.16e+01 1t0qA 498 5.21e+01 a.25.1.2 106220 2fcfA 103 5.28e+01 1y12A 165 5.28e+01 1oh0A 131 5.30e+01 d.17.4.3 87004 1i1qA 520 5.37e+01 1qdlA d.161.1.1 61543 1eemA 241 5.49e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1i6pA 220 5.52e+01 1ddzA c.53.2.1 61848 2fneA 117 5.59e+01 1qfoA 119 5.64e+01 1qfoA b.1.1.1 19708 1k3mA 21 5.66e+01 1i4mA 108 5.70e+01 d.6.1.1 66025 2b7kA 200 5.75e+01 1amuA 563 5.76e+01 1amuA e.23.1.1 43351 1v97A 1332 5.78e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1ivnA 190 5.87e+01 c.23.10.5 83719 1ls9A 91 5.90e+01 a.3.1.1 78177 1m5q1 130 5.95e+01 1gvhA 396 5.98e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1swvA 267 6.01e+01 1kutA 230 6.02e+01 d.143.1.1 73017 1wcdJ 441 6.04e+01 1dcoA 104 6.10e+01 1dcpA d.74.1.1 39680 2g3aA 152 6.10e+01 1yge 839 6.15e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1u55A 188 6.19e+01 d.278.1.1 107677 1vk4A 298 6.36e+01 c.72.1.1 100850 1kamA 194 6.36e+01 c.26.1.3 72254 1xg8A 111 6.46e+01 2fuvA 549 6.50e+01 1q7hA 153 6.51e+01 b.122.1.1,d.17.6.2 96042,96043 1othA 321 6.60e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1y1pA 342 6.70e+01 1cghA 224 6.78e+01 1a7s b.47.1.2 26290 1suwA 249 6.78e+01 e.52.1.1 106027 2a2kA 175 6.80e+01 1em2A 229 6.83e+01 1em2A d.129.3.2 41321 1pfo 500 6.88e+01 1pfo f.9.1.1 43826 2as0A 396 6.92e+01 1v7pB 128 6.96e+01 d.169.1.1 108407 1cg2A 393 7.12e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1e58A 249 7.17e+01 1qhfA c.60.1.1 59262 1rdfA 267 7.23e+01 c.108.1.3 104884 1fmb 104 7.26e+01 1fmb b.50.1.1 26777 1xn5A 146 7.34e+01 1evsA 187 7.36e+01 1evsA a.26.1.1 16845 1qq9A 284 7.46e+01 1xjo c.56.5.4 33841 1or4A 178 7.48e+01 a.1.1.2 93447 1sznA 417 7.49e+01 b.71.1.1,c.1.8.1 106162,106163 1wk2A 121 7.52e+01 1t7vA 278 7.54e+01 1pbyC 79 7.55e+01 a.137.9.1 94423 2aq5A 402 7.55e+01 1xw7A 21 7.57e+01 1ukcA 522 7.59e+01 c.69.1.17 107911 1tp5A 119 7.61e+01 2bpa1 426 7.67e+01 2bpa1 3psg 370 7.71e+01 1smrA b.50.1.2 26841 2c3vA 102 7.73e+01 1hfoA 113 7.77e+01 d.80.1.3 61006 1hrnA 337 7.78e+01 1smrA b.50.1.2 26869 1lr7A 74 7.87e+01 g.3.11.3,g.68.1.1 84679,84680 1gvp 87 7.90e+01 1gvp b.40.4.7 25369 1oygA 447 7.91e+01 b.67.2.2 93726 2g1lA 104 7.91e+01 1zx0A 236 7.94e+01 1wocA 103 8.13e+01 1xe1A 116 8.27e+01 b.43.3.1 109571 1mngA 203 8.29e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 2absA 383 8.35e+01 1wg8A 285 8.45e+01 1znf 27 8.45e+01 g.37.1.1 45036 1vqsA 116 8.51e+01 1a70 97 8.54e+01 1awd d.15.4.1 37678 1b6a 478 8.54e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1i8nA 126 8.58e+01 1i8nA g.10.1.2 61976 2ahmE 203 8.65e+01 1cjwA 166 8.73e+01 1cjwA d.108.1.1 40818 2csoA 127 8.73e+01 2c46A 241 8.88e+01 1e9kA 38 8.89e+01 j.87.1.1 64826 1n9bA 265 8.89e+01 e.3.1.1 85463