# List of top-scoring protein chains for t06-100-30-n_sep-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 1xg4A 295 6.42e-41 1s2wA 295 3.28e-34 c.1.12.7 98407 1f8mA 429 2.40e-33 1dquA c.1.12.7 29315 1m3uA 264 3.87e-32 c.1.12.8 84784 1o66A 275 1.64e-31 c.1.12.8 92547 1gvfA 286 6.56e-13 c.1.10.2 70599 1rvgA 305 4.82e-11 c.1.10.2 97920 1rvkA 382 5.32e-09 c.1.11.2,d.54.1.1 97928,97929 1mzhA 225 7.22e-08 c.1.10.1 79698 1xm3A 264 7.88e-08 c.1.31.1 115461 1nvmA 345 1.46e-07 a.5.7.1,c.1.10.5 86249,86250 1mdl 359 1.52e-07 2mnr 1zfjA 491 1.91e-07 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1w5qA 337 2.94e-07 1o5kA 306 3.39e-07 c.1.10.1 92504 1ub3A 220 3.43e-07 c.1.10.1 88395 1rd5A 262 4.83e-07 c.1.2.4 111772 1hl2A 297 4.98e-07 c.1.10.1 83581 1gqnA 252 5.14e-07 c.1.10.1 90514 1q7zA 566 5.36e-07 c.1.21.2,c.1.26.1 96090,96091 1p0kA 349 6.26e-07 c.1.4.1 87648 1w8sA 263 6.72e-07 c.1.10.1 120744 1ad1A 266 8.17e-07 1aj2 c.1.21.1 29668 1tx2A 297 9.41e-07 c.1.21.1 107420 1xi3A 215 1.34e-06 c.1.3.1 109601 1ep3A 311 1.75e-06 2dorA c.1.4.1 28597 1l6sA 323 2.21e-06 c.1.10.3 73627 1xkyA 301 2.30e-06 c.1.10.1 122094 1vhnA 318 2.62e-06 c.1.4.1 100693 2czdA 208 2.77e-06 c.1.2.3 131045 1vhcA 224 3.57e-06 c.1.10.1 100661 1thfD 253 3.95e-06 1thfD c.1.2.1 28535 1o1zA 234 4.15e-06 c.1.18.3 86555 1izcA 339 5.60e-06 c.1.12.5 83838 2gptA 523 5.74e-06 1aj2 282 5.95e-06 1aj2 1v93A 296 6.63e-06 c.1.23.1 100532 1n7kA 234 7.04e-06 c.1.10.1 85374 1ypfA 336 7.49e-06 1twdA 256 8.76e-06 c.1.30.1 107397 1m5wA 243 1.22e-05 c.1.24.1 84836 1x1oA 286 1.28e-05 1q6oA 216 1.39e-05 c.1.2.3 95986 1gox 370 1.49e-05 1gox 1ykwA 435 1.53e-05 c.1.14.1,d.58.9.1 123565,123566 2gjlA 328 1.55e-05 1vzwA 244 1.69e-05 c.1.2.1 120553 1muwA 386 1.86e-05 c.1.15.3 79495 1yxyA 234 2.21e-05 c.1.2.5 124203 1reqA 727 2.40e-05 1reqA c.1.19.1,c.23.6.1 29620,31247 1zxxA 319 3.36e-05 1rhcA 330 3.40e-05 c.1.16.3 97468 1fnnA 389 3.63e-05 1fnnA a.4.5.11,c.37.1.20 16129,32426 1tkkA 366 3.76e-05 c.1.11.2,d.54.1.1 107089,107090 1qwgA 251 4.24e-05 c.1.27.1 96473 1z41A 338 4.45e-05 c.1.4.1 124421 1vc4A 254 4.45e-05 c.1.2.4 100557 1vhqA 232 4.65e-05 c.23.16.2 100696 1jflA 228 4.83e-05 c.78.2.1,c.78.2.1 71656,71657 1qopA 268 6.04e-05 2tysA c.1.2.4 28570 1y0eA 223 6.22e-05 c.1.2.5 116297 1zp4A 304 6.34e-05 1wv2A 265 6.38e-05 c.1.31.1 114910 1vr6A 350 6.52e-05 c.1.10.4 120439 2tpsA 227 6.95e-05 2tpsA c.1.3.1 28591 1d3gA 367 7.40e-05 1d3gA c.1.4.1 28600 1x1zA 252 8.58e-05 c.1.2.3 121613 1eyeA 280 8.62e-05 1aj2 c.1.21.1 29672 1wa3A 205 8.90e-05 c.1.10.1 120802 1xuuA 349 1.24e-04 b.85.1.1,c.1.10.6 116067,116068 2b7nA 273 1.25e-04 1v5eA 590 1.37e-04 c.31.1.3,c.36.1.5,c.36.1.9 119844,119845,119846 1kfcA 268 1.37e-04 c.1.2.4 77371 1vliA 385 1.40e-04 b.85.1.1,c.1.10.6 108830,108831 2b81A 323 1.62e-04 1geqA 248 1.84e-04 2tysA c.1.2.4 28589 1tcvA 287 2.03e-04 1ujpA 271 2.15e-04 c.1.2.4 99462 1vkfA 188 2.25e-04 c.1.29.1 108656 1km4A 247 2.47e-04 c.1.2.3 72740 2cwxA 430 2.50e-04 c.1.14.1,d.58.9.1 130956,130957 1wbhA 214 2.64e-04 c.1.10.1 120845 1a53 247 2.83e-04 1a53 1dosA 358 2.89e-04 1dosA c.1.10.2 29175 1x9iA 302 3.10e-04 c.80.1.1 114997 1ohlA 342 3.13e-04 c.1.10.3 87035 1rqbA 539 3.39e-04 a.5.7.2,c.1.10.5 105057,105058 1f74A 293 3.40e-04 1nal3 c.1.10.1 29079 2fepA 289 3.70e-04 2fiqA 420 3.96e-04 c.1.10.7 133527 1oi7A 288 4.20e-04 c.2.1.8,c.23.4.1 87049,87050 1pii 452 4.28e-04 1pii 2c4nA 250 4.33e-04 c.108.1.14 129837 2g8yA 385 4.47e-04 2gl5A 410 4.85e-04 c.1.11.2,d.54.1.1 135336,135337 1nu5A 370 5.00e-04 c.1.11.2,d.54.1.1 92183,92184 2d69A 430 7.14e-04 c.1.14.1,d.58.9.1 131292,131293 1ezwA 349 7.15e-04 1ezwA c.1.16.3 29558 1qwkA 317 7.45e-04 c.1.7.1 96482 2dri 271 7.88e-04 2dri 1r0mA 375 8.57e-04 c.1.11.2,d.54.1.1 104747,104748 1o0yA 260 8.58e-04 c.1.10.1 80756 1ls1A 295 8.86e-04 a.24.13.1,c.37.1.10 78170,78171 1vcvA 226 9.03e-04 c.1.10.1 119988 1zcjA 463 9.48e-04 1vfsA 386 1.06e-03 b.49.2.2,c.1.6.1 108584,108585 1h1yA 228 1.13e-03 c.1.2.2 76506 1gca 309 1.19e-03 1gca 1vi2A 300 1.24e-03 c.2.1.7,c.58.1.5 100726,100727 2c6qA 351 1.41e-03 2aeeA 211 1.47e-03 c.61.1.1 126620 1me8A 503 1.55e-03 c.1.5.1 79028 1jhdA 396 1.66e-03 b.122.1.3,c.26.1.5 66712,66713 2cw6A 298 1.94e-03 2ew8A 249 2.21e-03 c.2.1.2 132447 1onrA 316 2.23e-03 1onrA c.1.10.1 29169 1w0mA 226 2.37e-03 c.1.1.1 109027 1zhaA 267 2.51e-03 1yt8A 539 2.61e-03 c.46.1.2,c.46.1.2,c.46.1.2,c.46.1.2 123996,123997,123998,123999 1m6jA 261 2.74e-03 c.1.1.1 78693 1tqjA 230 2.75e-03 c.1.2.2 107228 1iirA 415 2.80e-03 1iirA c.87.1.5 62453 1zzmA 259 2.91e-03 c.1.9.12 125911 1pswA 348 2.95e-03 c.87.1.7 88287 1o4vA 183 2.98e-03 c.23.8.1 86628 1t5iA 172 2.98e-03 c.37.1.19 106450 1u94A 356 3.09e-03 c.37.1.11,d.48.1.1 107743,107744 2fr1A 486 3.10e-03 c.2.1.2,c.2.1.2 133961,133962 1nqkA 381 3.35e-03 c.1.16.4 92050 1neyA 247 3.50e-03 c.1.1.1 80449 1reqB 637 3.51e-03 1reqB c.1.19.1,c.23.6.1 29621,31248 1b8oA 284 3.51e-03 1b8oA c.56.2.1 33762 1yyaA 250 3.60e-03 2a4aA 281 3.81e-03 c.1.10.1 126150 1umdB 324 3.90e-03 c.36.1.7,c.48.1.2 99600,99601 1ccwB 483 4.24e-03 1cb7B c.1.19.2 29646 1im5A 180 4.27e-03 c.33.1.3 66211 1vyrA 364 4.29e-03 c.1.4.1 108906 1mucA 373 4.49e-03 1mucA c.1.11.2,d.54.1.1 29236,38880 1epxA 370 4.59e-03 1fbaA c.1.10.1 29150 1mi3A 322 4.66e-03 c.1.7.1 91274 1p4cA 380 4.75e-03 c.1.4.1 94100 2fqxA 318 4.78e-03 2ashA 381 4.99e-03 1j24A 143 5.10e-03 c.52.1.20 84008 2cvzA 289 5.24e-03 a.100.1.1,c.2.1.6 130890,130891 1ktbA 405 5.39e-03 b.71.1.1,c.1.8.1 72960,72961 1v6tA 255 5.45e-03 c.6.2.5 113550 1ja9A 274 5.50e-03 c.2.1.2 62817 1onwA 390 5.52e-03 b.92.1.7,c.1.9.13 87172,87173 1ynpA 317 5.59e-03 1v4vA 376 5.93e-03 c.87.1.3 100313 1sffA 426 6.16e-03 c.67.1.4 105482 1nsj 205 6.20e-03 1nsj 1dkuA 317 6.34e-03 1dkuA c.61.1.2,c.61.1.2 34118,34119 1wd7A 261 6.74e-03 c.113.1.1 114526 1vicA 262 6.80e-03 c.68.1.13 100756 1g57A 217 6.88e-03 1g57A d.115.1.2 60253 1rxdA 159 7.02e-03 c.45.1.1 111959 1yxcA 292 7.09e-03 c.1.10.1 124183 1mvoA 136 7.21e-03 c.23.1.1 79513 1zud1 251 7.65e-03 1zgzA 122 7.96e-03 c.23.1.1 125065 1v7cA 351 8.06e-03 c.79.1.1 100446 2ajrA 331 8.44e-03 c.72.1.1 126892 1w3iA 293 8.61e-03 c.1.10.1 109152 1wyuA 438 8.89e-03 c.67.1.7 121452 1s8nA 205 9.00e-03 c.23.1.1 105374 1dxeA 256 9.23e-03 1dxeA c.1.12.5 29310 1p1xA 260 9.25e-03 c.1.10.1 104060 1xfcA 384 9.33e-03 1zvkA 358 9.81e-03 1dbqA 289 1.02e-02 1qpzA c.93.1.1 35666 1kv5A 250 1.09e-02 c.1.1.1 73052 2d13A 227 1.10e-02 c.26.2.1 131121 1gpjA 404 1.13e-02 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1luaA 287 1.14e-02 c.2.1.7,c.58.1.4 78216,78217 1gkpA 458 1.16e-02 b.92.1.3,c.1.9.6 70231,70232 1wcwA 261 1.16e-02 1xwyA 264 1.17e-02 c.1.9.12 122411 1o60A 292 1.24e-02 c.1.10.4 92532 1jbwA 428 1.28e-02 c.59.1.2,c.72.2.2 62860,62861 1m65A 245 1.28e-02 c.6.3.1 84847 1bf6A 291 1.29e-02 1pscA c.1.9.3 29065 1cs1A 386 1.35e-02 1ibjA c.67.1.3 34399 1l6wA 220 1.40e-02 c.1.10.1 73632 1zh2A 121 1.44e-02 c.23.1.1 125069 1wqaA 455 1.44e-02 1x6vA 630 1.45e-02 b.122.1.3,c.26.1.5,c.37.1.4 121755,121756,121757 1j6oA 268 1.48e-02 c.1.9.12 77088 1xmpA 170 1.49e-02 c.23.8.1 115521 1zaiA 363 1.52e-02 c.1.10.1 124828 1yeyA 444 1.57e-02 c.1.11.2,d.54.1.1 116664,116665 2chgA 226 1.58e-02 2gokA 429 1.58e-02 1fcqA 350 1.59e-02 c.1.8.9 65006 1h3fA 432 1.62e-02 c.26.1.1,d.66.1.4 76631,76632 1f0kA 364 1.66e-02 1f0kA c.87.1.2 35465 1wdpA 495 1.67e-02 c.1.8.1 120907 1ufkA 254 1.70e-02 c.66.1.39 99340 2cglA 489 1.73e-02 1mo0A 275 1.78e-02 c.1.1.1 79329 1gntA 553 1.79e-02 e.26.1.1 70290 1x7oA 287 1.80e-02 1exbA 332 1.84e-02 1qrqA c.1.7.1 28666 1sflA 238 1.85e-02 c.1.10.1 112077 1npyA 271 1.89e-02 c.2.1.7,c.58.1.5 85995,85996 1nnsA 326 1.91e-02 c.88.1.1 85910 1m3kA 392 1.94e-02 c.95.1.1,c.95.1.1 78565,78566 1pe1A 267 1.97e-02 c.1.10.4 94591 1rzuA 485 1.98e-02 c.87.1.8 105140 2g50A 530 2.00e-02 b.58.1.1,c.1.12.1,c.49.1.1 134618,134619,134620 1ccwA 137 2.02e-02 1be1 c.23.6.1 31238 1tjyA 316 2.03e-02 c.93.1.1 107062 1uuqA 440 2.05e-02 c.1.8.3 100015 1v8fA 276 2.16e-02 c.26.1.4 100503 1tv8A 340 2.16e-02 c.1.28.3 107352 1knwA 425 2.17e-02 b.49.2.3,c.1.6.1 90969,90970 1yc5A 246 2.23e-02 c.31.1.5 122910 1zjjA 263 2.23e-02 2rslA 140 2.26e-02 2rslA c.53.1.1 33345 1oxkB 134 2.30e-02 c.23.1.1 93691 2a1fA 247 2.31e-02 c.73.1.3 125991 1e5dA 402 2.31e-02 1e5dA c.23.5.1,d.157.1.3 31208,42061 1gg4A 452 2.36e-02 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1wx1A 335 2.46e-02 1f5vA 240 2.53e-02 1bkjA d.90.1.1 40255 1ht6A 405 2.61e-02 b.71.1.1,c.1.8.1 83629,83630 1lt8A 406 2.67e-02 c.1.26.1 78186 1tr9A 341 2.68e-02 c.1.8.7 112617 1zczA 464 2.75e-02 c.24.1.3,c.97.1.4 124923,124924 2ag5A 246 2.77e-02 c.2.1.2 126719 1tqhA 247 2.79e-02 c.69.1.29 107225 1n55A 251 2.89e-02 c.1.1.1 80007 2bfdA 400 2.93e-02 1ub0A 258 2.94e-02 c.72.1.2 88394 1wtjA 343 2.95e-02 1bd0A 388 2.96e-02 1bd0A b.49.2.2,c.1.6.1 26480,28642 1nmoA 247 2.98e-02 c.135.1.1 91980 1g3qA 237 3.04e-02 1hyqA c.37.1.10 60237 1yzyA 413 3.10e-02 c.146.1.1 124292 1vhyA 257 3.14e-02 b.122.1.2,c.116.1.5 100714,100715 1vi9A 299 3.14e-02 c.72.1.5 100750 1c4oA 664 3.17e-02 1d2mA c.37.1.19,c.37.1.19 32415,32416 1brwA 433 3.17e-02 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1brt 277 3.22e-02 1brt 2f5xA 312 3.23e-02 1uasA 362 3.25e-02 b.71.1.1,c.1.8.1 88388,88389 1pl8A 356 3.28e-02 b.35.1.2,c.2.1.1 94878,94879 1i0dA 332 3.34e-02 1pscA c.1.9.3 61487 1jftA 340 3.36e-02 a.35.1.5,c.93.1.1 66652,66653 2g0wA 296 3.42e-02 c.1.15.4 134503 1zgdA 312 3.45e-02 1qv9A 283 3.45e-02 c.127.1.1 96356 1e5kA 201 3.49e-02 1fr9A c.68.1.8 34578 1e8gA 560 3.51e-02 1qltA d.58.32.1,d.145.1.1 39455,41718 1x7yA 400 3.54e-02 c.36.1.11 114944 1cb0A 283 3.64e-02 1cb0A c.56.2.1 33790 1k8wA 327 3.70e-02 b.122.1.1,d.265.1.2 83094,90388 1vbiA 344 3.70e-02 1uwkA 557 3.70e-02 e.51.1.1 108065 1va4A 279 3.76e-02 c.69.1.12 108458 1g55A 343 3.76e-02 1g55A c.66.1.26 34247 4pgaA 337 3.91e-02 4pgaA c.88.1.1 35565 1n4wA 504 3.92e-02 c.3.1.2,d.16.1.1 91676,91677 1o58A 303 3.94e-02 c.79.1.1 92491 1ulyA 192 3.94e-02 a.4.5.58 113297 1bqcA 302 4.04e-02 1bqcA c.1.8.3 28831 1eljA 381 4.05e-02 4mbp c.94.1.1 35791 1jkmB 361 4.09e-02 1jkmA c.69.1.2 34634 1odkA 235 4.14e-02 c.56.2.1 86863 1li4A 432 4.22e-02 c.2.1.4,c.23.12.3 84616,84617 1uslA 170 4.23e-02 c.121.1.1 99871 1f6yA 262 4.27e-02 1f6yA c.1.21.2 29673 1wg8A 285 4.30e-02 a.60.13.1,c.66.1.23 114605,114606 1oe4A 247 4.30e-02 c.18.1.3 86895 1zmdA 474 4.30e-02 1n82A 331 4.31e-02 c.1.8.3 91703 1tk9A 188 4.31e-02 c.80.1.3 107082 1edt 271 4.45e-02 2ebn 1ejdA 419 4.56e-02 1uae d.68.2.2 39576 1jbeA 128 4.57e-02 3chy c.23.1.1 62845 1wlsA 328 4.65e-02 2aq8A 269 4.86e-02 c.2.1.2 127166 1zsxA 347 4.94e-02 1c93A 265 5.03e-02 2ebn c.1.8.5 28998 1q74A 303 5.12e-02 c.134.1.1 96019 1gdhA 320 5.14e-02 1gdhA c.2.1.4,c.23.12.1 30095,31355 1g60A 260 5.19e-02 c.66.1.11 70151 1mrzA 293 5.31e-02 b.43.5.1,c.26.1.3 91452,91453 1wzaA 488 5.32e-02 b.71.1.1,c.1.8.1 121489,121490 1t1gA 364 5.32e-02 c.41.1.2 106246 1vd6A 224 5.39e-02 c.1.18.3 119991 1vflA 356 5.39e-02 c.1.9.1 120041 1mnaA 298 5.40e-02 c.69.1.22 79322 2f6uA 234 5.51e-02 c.1.4.1 133061 7aatA 401 5.56e-02 1ajsA c.67.1.1 34250 1gegA 256 5.72e-02 1ybvA c.2.1.2 29888 1e0tA 470 5.75e-02 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1r5yA 386 5.77e-02 c.1.20.1 97134 1zjrA 211 5.86e-02 1e19A 314 5.92e-02 1b7bA c.73.1.1 34967 1ve2A 235 5.92e-02 c.90.1.1 120008 1jubA 311 6.00e-02 c.1.4.1 90908 1g5cA 170 6.08e-02 1g5cA c.53.2.1 60264 1xx1A 285 6.18e-02 1vk3A 615 6.18e-02 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 2d5cA 263 6.19e-02 1xp8A 366 6.20e-02 c.37.1.11,d.48.1.1 115735,115736 1mv8A 436 6.26e-02 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1vizA 240 6.30e-02 c.1.4.1 100784 1ve3A 227 6.37e-02 c.66.1.43 120010 1wwkA 307 6.38e-02 1q45A 391 6.45e-02 c.1.4.1 95780 1dd9A 338 6.46e-02 1dd9A e.13.1.1 43254 2gm5A 139 6.55e-02 1ajsA 412 6.59e-02 1ajsA c.67.1.1 34276 1uanA 227 6.60e-02 c.134.1.1 99135 1sjdA 368 6.65e-02 c.1.11.2,d.54.1.1 105632,105633 1tuoA 464 6.82e-02 1tzzA 392 6.85e-02 c.1.11.2,d.54.1.1 112896,112897 1wddA 477 6.89e-02 c.1.14.1,d.58.9.1 114528,114529 1m4tA 392 6.90e-02 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