# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-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 1wduA 245 3.74e-01 d.151.1.1 109286 2hvm 273 3.18e+00 1cnv c.1.8.5 28985 1epxA 370 3.24e+00 1fbaA c.1.10.1 29150 1w1wA 430 3.39e+00 1tqjA 230 3.92e+00 c.1.2.2 107228 1s3zA 165 5.93e+00 d.108.1.1 105250 2f5gA 133 7.19e+00 1pvvA 315 7.47e+00 c.78.1.1,c.78.1.1 95190,95191 1ypxA 375 8.07e+00 1a1s 314 8.21e+00 1othA c.78.1.1,c.78.1.1 35258,35259 1kqzA 273 8.67e+00 c.1.8.5 68844 1o7tA 309 8.93e+00 c.94.1.1 86645 1w6uA 302 8.95e+00 1pbn 289 9.42e+00 1b8oA c.56.2.1 33771 1jj2L 194 1.05e+01 1ffkI d.12.1.2 63097 1vjeA 166 1.05e+01 d.185.1.2 100807 1v6tA 255 1.08e+01 1a9t 284 1.09e+01 1b8oA c.56.2.1 33765 1innA 166 1.12e+01 1j98A d.185.1.2 62608 1b8bA 605 1.13e+01 1b8bA 1cp3A 277 1.22e+01 1pauA c.17.1.1 30992 1z0sA 278 1.23e+01 1ji0A 240 1.29e+01 c.37.1.12 71665 1a9r 282 1.34e+01 1b8oA c.56.2.1 33767 1a3wA 500 1.39e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1xc1A 309 1.39e+01 c.94.1.1 109543 1e69B 322 1.41e+01 1e69B c.37.1.12 32377 1uayA 242 1.41e+01 c.2.1.2 88390 1b8oA 284 1.43e+01 1b8oA c.56.2.1 33762 1r30A 369 1.44e+01 c.1.28.1 96895 1vraB 215 1.49e+01 1e9rA 437 1.50e+01 c.37.1.11 64827 1fvaA 217 1.55e+01 1fvaA d.58.28.1 39409 2gzaA 361 1.58e+01 1m3uA 264 1.58e+01 c.1.12.8 84784 1kqyA 273 1.60e+01 c.1.8.5 68843 1rpxA 230 1.63e+01 1rpxA c.1.2.2 28536 1a9s 289 1.65e+01 1b8oA c.56.2.1 33768 1vpqA 273 1.70e+01 1vcvA 226 1.72e+01 1vggA 161 1.76e+01 1fsz 372 1.79e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 2dbbA 151 1.80e+01 2gj8A 172 1.94e+01 3pnp 289 1.96e+01 1b8oA c.56.2.1 33763 1vhwA 253 2.00e+01 c.56.2.1 100706 1efuB 282 2.05e+01 1efuB d.43.1.1,a.5.2.2,d.43.1.1 38677,58975,58976 1gegA 256 2.05e+01 1ybvA c.2.1.2 29888 1b7gO 340 2.06e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1uzmA 247 2.11e+01 1ojxA 263 2.18e+01 c.1.10.1 93164 4lbd 267 2.20e+01 2lbd a.123.1.1 19289 1jpdX 324 2.34e+01 c.1.11.2,d.54.1.1 67014,67015 1ynpA 317 2.39e+01 1r5tA 142 2.40e+01 c.97.1.1 104812 1fcyA 236 2.42e+01 2lbd a.123.1.1 19282 1n82A 331 2.44e+01 c.1.8.3 91703 1nrjB 218 2.48e+01 c.37.1.8 86125 2lbd 267 2.55e+01 2lbd a.123.1.1 19287 2u1a 88 2.56e+01 2u1a d.58.7.1 39164 1b43A 340 2.63e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1ob8A 135 2.63e+01 1fvgA 199 2.63e+01 1fvaA d.58.28.1 39408 1mup 166 2.67e+01 1mup b.60.1.1 27133 1m41A 380 2.69e+01 c.1.16.4 78595 1wh5A 80 2.69e+01 1sgwA 214 2.77e+01 c.37.1.12 105541 2fliA 220 2.77e+01 1k2fA 190 2.77e+01 b.8.1.2 68054 2aorA 223 2.78e+01 1suwA 249 2.79e+01 e.52.1.1 106027 7odcA 424 2.92e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1xw8A 252 2.93e+01 2b4vA 468 2.93e+01 1qr6A 584 3.12e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1yacA 208 3.13e+01 1yacA c.33.1.3 31757 1mioB 458 3.14e+01 1qguB c.92.2.3 35602 1d2eA 397 3.19e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1s72M 194 3.27e+01 d.12.1.2 105332 1zaiA 363 3.29e+01 1mit 69 3.29e+01 1hymA d.40.1.1 38582 1rybA 212 3.32e+01 c.56.3.1 98098 1auiB 169 3.33e+01 1auiB a.39.1.5 17325 2fz4A 237 3.40e+01 2cviA 83 3.41e+01 2gnoA 305 3.45e+01 1jkeA 145 3.46e+01 c.110.1.1 66791 1ald 363 3.48e+01 1fbaA c.1.10.1 29100 1i05A 180 3.53e+01 1mup b.60.1.1 27130 1uanA 227 3.58e+01 c.134.1.1 99135 1eriA 276 3.61e+01 1ckqA c.52.1.1 33231 1yh3A 256 3.70e+01 1i60A 278 3.75e+01 c.1.15.4 71118 1jv4A 162 3.75e+01 b.60.1.1 67343 1cl8A 276 3.78e+01 1ckqA c.52.1.1 33230 1o1xA 155 3.82e+01 c.121.1.1 86553 1w8sA 263 3.83e+01 1yp2A 451 3.95e+01 1i06A 180 3.96e+01 1mup b.60.1.1 27131 1fbaA 361 4.02e+01 1fbaA c.1.10.1 29120 1vqoM 195 4.04e+01 1ckqA 276 4.10e+01 1ckqA c.52.1.1 33229 1dcuA 357 4.15e+01 1frpA e.7.1.1 42943 1v10A 521 4.18e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1n3lA 372 4.27e+01 c.26.1.1 79966 1tcvA 287 4.28e+01 2faoA 309 4.32e+01 1zndA 174 4.32e+01 1jj7A 260 4.35e+01 c.37.1.12 63114 1gm6A 175 4.36e+01 b.60.1.1 70272 1j6oA 268 4.36e+01 c.1.9.12 77088 1yzhA 214 4.46e+01 2b4rO 345 4.52e+01 1aqb 183 4.62e+01 1aqb b.60.1.1 27084 1mylA 53 4.66e+01 1bazA a.43.1.1 17427 1qy1A 174 4.66e+01 b.60.1.1 96568 1u1hA 765 4.68e+01 c.1.22.2,c.1.22.2 107580,107581 1adoA 363 4.70e+01 1fbaA c.1.10.1 29124 1f8yA 157 4.73e+01 1f8xA c.23.14.1 31395 1vplA 256 4.79e+01 2eueA 279 4.83e+01 1pk9A 237 4.96e+01 c.56.2.1 94823 1avqA 228 4.96e+01 1avqA c.52.1.13 33326 1obwA 175 5.01e+01 2prd b.40.5.1 25416 1hozA 339 5.03e+01 c.70.1.1 65898 1em8A 147 5.10e+01 c.128.1.1 90457 1dpe 507 5.11e+01 1dpe c.94.1.1 35799 1odkA 235 5.15e+01 c.56.2.1 86863 1lccA 51 5.15e+01 1pru a.35.1.5 17110 1ta3A 274 5.16e+01 c.1.8.5 106731 1bqk 124 5.19e+01 1bqk b.6.1.1 22889 2olbA 517 5.27e+01 1jevA c.94.1.1 35721 1kt6A 183 5.28e+01 b.60.1.1 84466 1r5lA 262 5.30e+01 a.5.3.1,c.13.1.1 97099,97100 1azo 232 5.32e+01 1azo c.52.1.14 33329 1qc9A 276 5.35e+01 1ckqA c.52.1.1 33235 1qpsA 261 5.39e+01 1ckqA c.52.1.1 33234 1zp4A 304 5.47e+01 1oatA 439 5.51e+01 2dkb c.67.1.4 34461 1i3cA 149 5.55e+01 c.23.1.1 71112 1ha3A 405 5.55e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1aocA 175 5.56e+01 1aocA g.17.1.5 44817 1x6mA 196 5.58e+01 1cydA 244 5.59e+01 1cydA c.2.1.2 29825 1sjiA 350 5.80e+01 1hp0A 339 5.83e+01 c.70.1.1 65900 1zzmA 259 5.92e+01 1b44D 129 5.98e+01 3chbD b.40.2.1 24960 2bsxA 253 5.98e+01 1k7jA 206 5.99e+01 d.115.1.1 72103 4ts1A 319 6.01e+01 2ts1 c.26.1.1 31565 1e5dA 402 6.01e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1zl0A 311 6.04e+01 1vr5A 547 6.04e+01 1kz8A 337 6.07e+01 e.7.1.1 77633 1a4iB 301 6.07e+01 1a4iA c.2.1.7,c.58.1.2 30279,33927 1fezA 256 6.08e+01 1fezA c.108.1.3 43343 2ts1 419 6.09e+01 2ts1 c.26.1.1 31564 1ws6A 171 6.10e+01 1df3A 162 6.11e+01 1mup b.60.1.1 27134 1o6zA 303 6.11e+01 c.2.1.5,d.162.1.1 81107,81108 1phk 298 6.12e+01 1cdkA d.144.1.7 41635 1y0eA 223 6.16e+01 1tin 69 6.17e+01 2sniI d.40.1.1 38580 1x1eA 239 6.35e+01 1feuA 206 6.45e+01 1feuA b.53.1.1 59801 1lkdA 297 6.46e+01 d.32.1.3,d.32.1.3 78059,78060 1u0jA 267 6.57e+01 c.37.1.20 107546 1f8xA 157 6.57e+01 1f8xA c.23.14.1 31397 1cwyA 500 6.65e+01 1cwyA c.1.8.1 28789 2g0wA 296 6.76e+01 2ucz 165 6.84e+01 1u9aA d.20.1.1 38330 2g2dA 193 6.86e+01 2bk7B 222 6.89e+01 2bo9B 222 6.89e+01 1sviA 195 6.92e+01 c.37.1.8 106048 1zpvA 91 6.94e+01 5fbpA 335 6.98e+01 1frpA e.7.1.1 42873 2aumA 317 7.01e+01 1bxyA 60 7.03e+01 1bxyA d.59.1.1 39525 1ws0A 156 7.06e+01 1fnmA 691 7.11e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 25709,32144,37546,39302,39303 1k3rA 268 7.26e+01 b.40.4.10,c.116.1.2 72018,72019 4enl 436 7.26e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1pyoA 167 7.28e+01 c.17.1.1 95370 1jevA 517 7.31e+01 1jevA c.94.1.1 35720 1yseA 141 7.35e+01 1fa0A 537 7.37e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1zrsA 317 7.39e+01 1f61A 429 7.39e+01 1dquA c.1.12.7 29319 2b4aA 138 7.40e+01 1vypX 364 7.41e+01 c.1.4.1 108905 2asbA 251 7.43e+01 1eulA 994 7.45e+01 1eulA 2aw5A 541 7.52e+01 1eswA 500 7.53e+01 1cwyA c.1.8.1 59500 1fxlA 167 7.54e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1x7oA 287 7.61e+01 1q74A 303 7.61e+01 c.134.1.1 96019 2a14A 263 7.67e+01 1h65A 270 7.70e+01 c.37.1.8 65640 1bax 94 7.74e+01 1bax a.61.1.3 18133 1wraA 308 7.77e+01 1jetA 517 7.77e+01 1jevA c.94.1.1 35718 1xuuA 349 7.85e+01 1xg1A 67 7.94e+01 1qwdA 177 8.03e+01 b.60.1.1 96471 1xwyA 264 8.13e+01 1a4yA 460 8.15e+01 1a4yA c.10.1.1 30852 1cmbA 104 8.25e+01 1cmbA a.43.1.5 17460 1xocA 520 8.28e+01 2ftxB 64 8.31e+01 2byjA 439 8.32e+01 2oatA 439 8.45e+01 2dkb c.67.1.4 34452 1a4iA 301 8.47e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 2bylA 439 8.48e+01 1y8qA 346 8.51e+01 1diaA 306 8.61e+01 1a4iA c.2.1.7,c.58.1.2 30280,33928 1w3iA 293 8.62e+01 c.1.10.1 109152 1cmaA 104 8.68e+01 1cmbA a.43.1.5 17486 1vlwA 217 8.77e+01 c.1.10.1 108868 1ydlA 79 8.78e+01 2fwtA 125 8.81e+01 1rq2A 382 8.85e+01 c.32.1.1,d.79.2.1 105048,105049 1lt8A 406 8.92e+01 c.1.26.1 78186 1n3bA 216 8.93e+01 c.37.1.1 79959