# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1yceA 89 1.26e-12 1a91 79 5.02e-10 1a91 f.17.1.1 43635 2bl2A 156 3.73e-06 1aty 79 1.56e-01 1aty j.35.1.1 46259 1n1bA 549 3.84e-01 a.102.4.1 79799 a.128.1.3 79800 1cpt 412 3.98e-01 1cpt a.104.1.1 18968 2scpA 174 6.11e-01 2scpA a.39.1.5 17256 1avoB 140 7.05e-01 1avoB 1yovA 537 7.65e-01 1ngvA 534 7.67e-01 c.111.1.2 85698 1or7C 90 9.13e-01 a.180.1.1 87336 1m0kA 262 1.08e+00 f.13.1.1 78344 1kgbA 231 1.09e+00 f.13.1.1 68581 1dciA 275 1.11e+00 1dciA c.14.1.3 30918 1c3wA 222 1.15e+00 1c3wA f.13.1.1 43405 1rpmA 278 1.28e+00 2shpA c.45.1.2 32679 1u8vA 490 1.43e+00 1iv8A 720 2.47e+00 b.71.1.1 76842 c.1.8.1 76843 7ceiB 206 2.94e+00 1bxiB d.4.1.1 37134 1vcsA 102 3.13e+00 1up9A 107 3.68e+00 3cyr 107 3.74e+00 3cyr a.138.1.1 19648 1qfjA 232 4.68e+00 1qfjA b.43.4.2 25655 c.25.1.1 31545 1xmxA 385 5.12e+00 1xwrA 97 5.41e+00 1xioA 261 5.73e+00 1ll7A 392 6.39e+00 c.1.8.5 78085 d.26.3.1 78086 1ea7A 310 6.70e+00 c.41.1.1 70086 1qlaA 656 6.72e+00 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1g1iA 43 6.73e+00 1g1iA h.1.13.1 45636 1di1A 300 6.83e+00 1di1A a.128.1.4 19446 1nsgB 94 6.87e+00 1nsgB a.24.7.1 16613 3fapB 94 6.87e+00 1nsgB a.24.7.1 16612 1ir6A 424 7.04e+00 c.107.1.2 71342 1emvB 134 7.07e+00 1bxiB d.4.1.1 37135 1g1jA 43 7.13e+00 1g1iA h.1.13.1 45634 1d2kA 392 7.40e+00 1d2kA c.1.8.5 29008 d.26.3.1 38442 1aueA 100 7.67e+00 1nsgB a.24.7.1 16615 1gcvB 136 8.95e+00 1cg5B a.1.1.2 15589 1v8gA 329 9.64e+00 a.46.2.1 100505 c.27.1.1 100506 1fr2B 134 9.70e+00 d.4.1.1 83257 1q18A 332 1.06e+01 c.55.1.7 104470 c.55.1.7 104471 1qnf 484 1.08e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1pn0A 665 1.12e+01 c.3.1.2 94918 c.47.1.10 94919 d.16.1.2 94920 1bxiB 134 1.19e+01 1bxiB d.4.1.1 37136 1owlA 484 1.25e+01 a.99.1.1 93647 c.28.1.1 93648 1iseA 185 1.25e+01 d.67.3.1 90691 1fiqB 350 1.27e+01 1fiqB d.87.2.1 40229 d.145.1.3 41760 1fohA 664 1.27e+01 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 2at9 247 1.32e+01 1c3wA f.13.1.1 43427 1r3dA 264 1.44e+01 1mtyD 512 1.50e+01 1mhyD a.25.1.2 16742 1yisA 478 1.51e+01 1oyzA 280 1.54e+01 a.118.1.16 93775 1mmoD 512 1.57e+01 1mhyD a.25.1.2 16770 1otsA 465 1.60e+01 f.20.1.1 87415 1sw5A 275 1.62e+01 c.94.1.1 106069 1e3dB 542 1.66e+01 1h2rL e.18.1.1 59189 1jk0B 345 1.73e+01 a.25.1.2 63143 1n7lA 53 1.74e+01 j.37.1.1 91698 1sw5B 275 1.77e+01 c.94.1.1 106070 1ikpA 613 1.79e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1bqv 110 1.92e+01 1bqv a.60.1.1 17932 1xp8A 366 1.97e+01 1quuA 250 1.97e+01 1quuA a.7.1.1 16320 a.7.1.1 16321 1bj5 585 1.99e+01 1bj5 a.126.1.1 19369 a.126.1.1 19370 a.126.1.1 19371 1gvfA 286 1.99e+01 c.1.10.2 70599 1pzlA 237 2.03e+01 a.123.1.1 104393 1allA 160 2.03e+01 1qgwC a.1.1.3 15647 1c0aA 585 2.05e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1sz2A 332 2.19e+01 1oaa 259 2.34e+01 1oaa c.2.1.2 29829 1z8oA 404 2.36e+01 1ha2A 585 2.39e+01 1bj5 a.126.1.1 60866 a.126.1.1 60867 a.126.1.1 60868 1szqA 483 2.42e+01 e.44.1.1 99045 1xg0C 177 2.42e+01 1qgwC 177 2.43e+01 1qgwC a.1.1.3 15673 1o1yA 239 2.44e+01 c.23.16.1 86554 1gpmA 525 2.54e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1mhyD 521 2.57e+01 1mhyD a.25.1.2 16780 1nm8A 616 2.57e+01 c.43.1.3 85872 c.43.1.3 85873 1sep 261 2.62e+01 1oaa c.2.1.2 29830 1t0qA 498 2.66e+01 a.25.1.2 106220 1fjkA 52 2.69e+01 1fjkA j.37.1.1 46288 5cpp 414 2.87e+01 1phd a.104.1.1 18935 1e2fA 215 2.88e+01 3tmkA c.37.1.1 59164 1e2gA 215 2.91e+01 3tmkA c.37.1.1 59165 1e9eA 215 2.92e+01 c.37.1.1 64810 1pmi 440 2.92e+01 1pmi b.82.1.3 28114 1e9cA 215 2.93e+01 c.37.1.1 64808 1dz4A 414 2.94e+01 1phd a.104.1.1 18903 1cpcL 172 2.95e+01 1qgwC a.1.1.3 15646 1yrcA 414 2.97e+01 1nn5A 215 2.97e+01 c.37.1.1 85892 1gv3A 248 3.01e+01 a.2.11.1 70585 d.44.1.1 70586 1phnB 172 3.03e+01 1qgwC a.1.1.3 15642 1y9bA 90 3.03e+01 1ash 150 3.04e+01 1ash a.1.1.2 15622 1kdxB 28 3.06e+01 1xtnA 120 3.07e+01 1phd 414 3.08e+01 1phd a.104.1.1 18913 1cpcB 172 3.09e+01 1qgwC a.1.1.3 15644 1xteA 154 3.16e+01 1xfuA 747 3.18e+01 1brd 248 3.24e+01 1c3wA f.13.1.1 43404 1bnxA 34 3.24e+01 1bnxA j.35.1.1 46247 2e2aA 105 3.25e+01 a.7.2.1 88499 1fz1C 389 3.26e+01 1mtyB a.25.1.2 16746 1jboB 172 3.28e+01 a.1.1.3 84151 1mtyB 384 3.30e+01 1mtyB a.25.1.2 16740 1e2aA 105 3.36e+01 1e2aA a.7.2.1 16322 1gci 269 3.36e+01 1gci c.41.1.1 32503 1phg 414 3.38e+01 1phd a.104.1.1 18910 1phb 414 3.39e+01 1phd a.104.1.1 18906 1pszA 303 3.48e+01 1toaA c.92.2.2 35600 1ktpB 172 3.50e+01 a.1.1.3 72991 1oe0A 230 3.51e+01 c.37.1.1 92788 1iq8A 582 3.57e+01 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1ra6A 461 3.63e+01 e.8.1.4 104879 1yg2A 179 3.67e+01 1gxyA 226 3.73e+01 d.166.1.3 76380 1gw5A 621 3.79e+01 a.118.1.10 70629 1h80A 464 3.80e+01 b.80.1.8 65714 1j90A 230 3.81e+01 c.37.1.1 66448 1n40A 396 3.88e+01 a.104.1.1 79977 1dgkN 917 3.89e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1mmoB 384 3.97e+01 1mtyB a.25.1.2 16768 1adn 92 3.98e+01 1adn g.48.1.1 45348 1x3zB 72 4.00e+01