# List of top-scoring protein chains for T0208.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 1i60A 278 2.86e-12 c.1.15.4 71118 1k77A 260 4.67e-07 c.1.15.5 72096 1oadA 388 2.58e-05 c.1.15.3 81253 1mnzA 388 2.75e-05 c.1.15.3 79328 1o1hA 387 2.77e-05 c.1.15.3 81044 6xia 387 2.82e-05 4xis c.1.15.3 29406 1gw9A 388 3.00e-05 c.1.15.3 70658 1muwA 386 3.68e-05 c.1.15.3 79495 1dxiA 388 8.75e-05 4xis c.1.15.3 29407 1ximA 393 9.61e-05 4xis c.1.15.3 29473 3ximA 393 9.62e-05 4xis c.1.15.3 29477 2ximA 393 9.76e-05 4xis c.1.15.3 29497 2xinA 393 9.98e-05 4xis c.1.15.3 29493 5xinA 393 1.13e-04 4xis c.1.15.3 29481 9ximA 393 1.17e-04 4xis c.1.15.3 29505 4xiaA 393 1.59e-04 4xis c.1.15.3 29439 1xinA 393 1.80e-04 4xis c.1.15.3 29513 1xlaA 394 1.82e-04 4xis c.1.15.3 29445 1xlmA 394 2.11e-04 4xis c.1.15.3 29441 2gyiA 386 2.56e-04 4xis c.1.15.3 29409 3xinA 393 2.79e-04 4xis c.1.15.3 29489 1bxbA 387 3.23e-04 4xis c.1.15.3 29543 1qt1A 387 6.32e-04 4xis c.1.15.3 29436 1clkA 387 7.36e-04 4xis c.1.15.3 29438 1xylA 386 1.37e-03 4xis c.1.15.3 29413 1qtwA 285 2.72e-03 1qumA c.1.15.1 29392 1bxcA 387 4.14e-03 4xis c.1.15.3 29539 1km2A 247 5.33e-01 c.1.2.3 72738 1klyA 247 5.82e-01 c.1.2.3 72730 1loqA 228 5.88e-01 c.1.2.3 74155 1dv7A 227 5.94e-01 1dvjA c.1.2.3 28550 1lp6A 229 5.96e-01 c.1.2.3 74171 1km1A 247 6.03e-01 c.1.2.3 72736 1klzA 247 7.09e-01 c.1.2.3 72731 1km6A 247 7.43e-01 c.1.2.3 72742 1km4A 247 7.51e-01 c.1.2.3 72740 1og8A 406 8.19e-01 1oe4A 247 8.28e-01 c.18.1.3 86895 1dd8A 406 8.31e-01 1dd8A c.95.1.1 35932 c.95.1.1 35933 1dvjA 246 8.33e-01 1dvjA c.1.2.3 28546 1h4fA 406 8.50e-01 1km0A 247 9.65e-01 c.1.2.3 72732 1f91A 406 9.71e-01 1dd8A c.95.1.1 59713 c.95.1.1 59714 1km3A 247 1.04e+00 c.1.2.3 72739 1oeqA 418 1.04e+00 1ek4A 418 1.13e+00 1dd8A c.95.1.1 59436 c.95.1.1 59437 1km5A 247 1.42e+00 c.1.2.3 72741 1m53A 570 1.48e+00 b.71.1.1 84805 c.1.8.1 84806 1gjwA 637 1.71e+00 b.71.1.1 60582 c.1.8.1 60583 1ie7C 570 1.74e+00 1ubpC b.92.1.1 62315 c.1.9.2 62316 4ubpC 570 1.98e+00 1ubpC b.92.1.1 28431 c.1.9.2 29053 1losA 224 2.02e+00 c.1.2.3 74157 1vjzA 341 2.25e+00 1rpxA 230 2.38e+00 1rpxA c.1.2.2 28536 1ouvA 273 2.41e+00 1mjgM 729 2.62e+00 e.26.1.3 79204 1oaoC 729 2.65e+00 e.26.1.3 86746 1qqfA 277 2.65e+00 1c3d a.102.4.4 18875 1ufvA 276 2.96e+00 c.26.1.4 88487 1v8fA 276 2.97e+00 1fa2A 498 2.98e+00 1byb c.1.8.1 28797 1q57A 503 2.98e+00 1nthA 458 3.37e+00 c.1.25.1 80730 1g2uA 345 3.83e+00 1cnzA c.77.1.1 35036 1osjA 345 3.85e+00 1cnzA c.77.1.1 35039 1dr8A 344 3.85e+00 1cnzA c.77.1.1 35051 1dr0A 346 3.85e+00 1cnzA c.77.1.1 35045 1dpzA 349 3.85e+00 1cnzA c.77.1.1 35053 1gc8A 345 3.91e+00 1cnzA c.77.1.1 35042 1xaa 345 3.95e+00 1cnzA c.77.1.1 35033 1gc9A 345 3.96e+00 1cnzA c.77.1.1 35037 1uehA 253 4.08e+00 1e9zB 569 4.26e+00 b.92.1.1 64852 c.1.9.2 64853 1e0jA 289 4.42e+00 1cr1A c.37.1.11 32290 1cr1A 296 5.50e+00 1cr1A c.37.1.11 32286 1l8lA 225 5.52e+00 c.108.1.4 84562 1udeA 195 6.34e+00 1o14A 331 6.62e+00 c.72.1.1 80763 1cec 343 6.70e+00 1ceo c.1.8.3 28809 1ceo 343 7.00e+00 1ceo c.1.8.3 28808 1rktA 205 7.43e+00 1tadA 324 7.45e+00 1cipA a.66.1.1 18194 c.37.1.8 32077 1q3gA 418 8.36e+00 1dlgA 418 8.48e+00 1uae d.68.2.2 39580 1walA 345 8.77e+00 1cnzA c.77.1.1 35041 1ejdA 418 8.96e+00 1uae d.68.2.2 39576 1b1yA 500 9.06e+00 1byb c.1.8.1 28796 1cfr 285 9.12e+00 1cfr c.52.1.7 33312 1nawA 419 9.22e+00 1uae d.68.2.2 39582 1ipd 345 9.23e+00 1cnzA c.77.1.1 35038 1nnlA 225 9.37e+00 c.108.1.4 85906 1j1nA 492 9.92e+00 c.94.1.1 83978 1brwA 433 1.02e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1vhoA 346 1.03e+01 1nr6A 473 1.05e+01 1k6mA 432 1.06e+01 c.37.1.7 77275 c.60.1.4 77276 1f6yA 262 1.07e+01 1f6yA c.1.21.2 29673 1fqjA 325 1.07e+01 1cipA a.66.1.1 18215 c.37.1.8 32098 1n0wA 243 1.11e+01 c.37.1.11 79772 2aaa 484 1.14e+01 7taa b.71.1.1 27777 c.1.8.1 28764 1mi1A 414 1.14e+01 a.169.1.1 79137 b.55.1.6 79138 1ovmA 552 1.21e+01 c.31.1.3 87461 c.36.1.5 87462 c.36.1.9 87463 1gotA 350 1.23e+01 1cipA a.66.1.1 18213 c.37.1.8 32096 1kkhA 317 1.26e+01 d.14.1.5 72645 d.58.26.3 72646 1vmoA 163 1.27e+01 1vmoA b.77.1.1 27974 1upkA 341 1.29e+01 1visA 324 1.35e+01 1m65A 245 1.41e+01 c.6.3.1 84847 1uypA 432 1.44e+01 1pf4A 582 1.55e+01 c.37.1.12 88052 f.37.1.1 88053 1qoxA 449 1.56e+01 c.1.8.4 28965 1rvgA 305 1.61e+01 1gkzA 388 1.64e+01 a.29.5.1 65268 d.122.1.4 65269 1nu5A 370 1.71e+01 1jc4A 148 1.71e+01 1jc4A d.32.1.4 62863 1ezwA 349 1.77e+01 1ezwA c.1.16.3 29558 1e19A 314 1.86e+01 1b7bA c.73.1.1 34967 1p42A 270 1.91e+01 d.14.1.7 87754 d.14.1.7 87755 1nztA 282 1.91e+01 d.14.1.7 86455 d.14.1.7 86456 1r89A 437 1.93e+01 1idm 343 1.98e+01 1cnzA c.77.1.1 35035 1in8A 334 2.02e+01 1hqcA a.4.5.11 62605 c.37.1.20 62606 1a8q 274 2.09e+01 1brt c.69.1.12 34702 1jvnA 554 2.11e+01 c.1.2.1 67355 c.23.16.1 67356 1gxsB 158 2.12e+01 1bw9A 356 2.18e+01 1bw9A c.2.1.7 30274 c.58.1.1 33922 1c1dA 355 2.21e+01 1bw9A c.2.1.7 30270 c.58.1.1 33918 1k03A 399 2.22e+01 c.1.4.1 63322 1c1xA 355 2.25e+01 1bw9A c.2.1.7 30272 c.58.1.1 33920 1r46A 398 2.26e+01 1dtdA 303 2.29e+01 1aye c.56.5.1 33823 1ee8A 266 2.31e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1bh5A 183 2.32e+01 1qipA d.32.1.1 38476 1c4rA 182 2.33e+01 1c4rA b.29.1.4 24229 1g1yA 585 2.34e+01 1bvzA b.1.18.2 60210 b.71.1.1 60211 c.1.8.1 60212 1ezfA 340 2.39e+01 1ezfA a.128.1.2 19440 1qh4A 380 2.41e+01 1qh4A a.83.1.1 18462 d.128.1.2 41197 1hl9A 449 2.42e+01 1mqpA 679 2.43e+01 2csmA 256 2.43e+01 5csmA a.130.1.2 19497 1l8nA 679 2.43e+01 c.1.8.10 84564 d.92.2.2 84565 1mqrA 679 2.44e+01 1fjmA 330 2.45e+01 1auiA d.159.1.3 42082 1vh1A 256 2.45e+01 1csmA 256 2.46e+01 5csmA a.130.1.2 19495 1o12A 376 2.46e+01 b.92.1.5 80758 c.1.9.10 80759 1bwkA 399 2.47e+01 1oyc c.1.4.1 28605 1m7yA 435 2.48e+01 c.67.1.4 78761 1b8gA 429 2.49e+01 1b8gA c.67.1.4 34499 1in6A 334 2.54e+01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1oyc 400 2.56e+01 1oyc c.1.4.1 28603 1b85A 351 2.58e+01 1arv a.93.1.1 18581 1pjzA 203 2.58e+01 1qipA 183 2.59e+01 1qipA d.32.1.1 38470 1in4A 334 2.62e+01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1f60A 458 2.63e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1r7aA 504 2.63e+01 1heiA 451 2.65e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1ht6A 405 2.68e+01 b.71.1.1 83629 c.1.8.1 83630 1k9fA 679 2.69e+01 c.1.8.10 77296 d.92.2.2 77297 1yacA 208 2.70e+01 1yacA c.33.1.2 31757 3rp2A 224 2.71e+01 1a7s b.47.1.2 26298 1bwlA 399 2.71e+01 1oyc c.1.4.1 28606 1i4nA 251 2.74e+01 c.1.2.4 71114 1aazA 87 2.78e+01 1aba c.47.1.1 32761 1rjqA 496 2.79e+01 1pe1A 267 2.81e+01 1cw0A 155 2.85e+01 1vsrA c.52.1.15 33333 1ji2A 585 2.87e+01 b.1.18.2 71672 b.71.1.1 71673 c.1.8.1 71674 1lroA 267 2.91e+01 c.1.10.4 78161 1j5tA 242 2.93e+01 c.1.2.4 71583 1jk7A 323 2.94e+01 1auiA d.159.1.3 63144 1b80A 351 2.95e+01 1arv a.93.1.1 18579 1jf6A 585 2.99e+01 b.1.18.2 71650 b.71.1.1 71651 c.1.8.1 71652 1oywA 523 2.99e+01 1rk6A 496 3.08e+01 1jl8A 585 3.08e+01 b.1.18.2 63163 b.71.1.1 63164 c.1.8.1 63165 1m7jA 484 3.09e+01 b.92.1.6 78732 b.92.1.6 78733 c.1.9.11 78734 1aba 87 3.12e+01 1aba c.47.1.1 32760 2taaA 478 3.12e+01 7taa b.71.1.1 27780 c.1.8.1 28767 1j32A 388 3.27e+01 c.67.1.1 77067 1lc5A 364 3.28e+01 c.67.1.1 73827 1ly8A 343 3.29e+01 a.93.1.1 74340 1ie9A 259 3.33e+01 1db1A a.123.1.1 62318 1in7A 334 3.34e+01 1hqcA a.4.5.11 62603 c.37.1.20 62604 1s19A 263 3.34e+01 1mp4A 292 3.35e+01 c.68.1.6 79376 1in5A 334 3.35e+01 1hqcA a.4.5.11 62599 c.37.1.20 62600 1d9xA 658 3.40e+01 1d2mA c.37.1.19 32419 c.37.1.19 32420 1r1dA 247 3.42e+01 1ukoA 495 3.47e+01 1ukpA 495 3.47e+01 1q6gA 495 3.49e+01 1aye 401 3.58e+01 1aye c.56.5.1 33824 d.58.3.1 39065 1uecA 193 3.58e+01 b.34.2.1 88481 b.34.2.1 88482 1q6dA 495 3.68e+01 1uasA 362 3.72e+01 b.71.1.1 88388 c.1.8.1 88389 1q6cA 495 3.73e+01 1jf5A 585 3.74e+01 b.1.18.2 71644 b.71.1.1 71645 c.1.8.1 71646 1lvaA 258 3.78e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1gkrA 458 3.79e+01 b.92.1.3 70251 c.1.9.6 70252 1ujuA 111 3.81e+01 1m6sA 347 3.86e+01 c.67.1.1 78701 1ox6A 555 3.90e+01 c.1.2.1 87505 c.23.16.1 87506 1a0cA 438 3.92e+01 1a0cA c.1.15.3 29529 1c6vA 164 3.95e+01 1b9dA c.55.3.2 33672 1kgsA 225 3.96e+01 a.4.6.1 68596 c.23.1.1 68597