# List of top-scoring protein chains for t04-100-30-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 1mrzA 293 5.22e-01 b.43.5.1 -4048 c.26.1.3 -6616 1geqA 248 9.83e-01 2tysA c.1.2.4 28589 1e4yA 214 1.17e+00 1zin c.37.1.1 31901 g.41.2.1 45181 1tqnA 486 1.93e+00 2ak3A 226 2.39e+00 1zin c.37.1.1 31892 g.41.2.1 45193 1hw1A 239 3.40e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1lfpA 249 3.44e+00 e.39.1.1 73885 1p3jA 217 4.23e+00 c.37.1.1 -6996 g.41.2.1 -12769 1g73C 121 4.53e+00 1g3fA g.52.1.1 45375 1se0A 116 5.37e+00 g.52.1.1 -12841 1xyzA 347 5.47e+00 1taxA c.1.8.3 28804 1nf2A 268 5.94e+00 c.108.1.10 -6842 1wdkC 390 8.25e+00 1scy 32 8.47e+00 1pnh g.3.7.2 44155 1lxa 262 8.68e+00 1lxa b.81.1.1 28052 1iirA 415 8.87e+00 1iirA c.87.1.5 62453 1r5rA 119 9.46e+00 a.39.2.1 -893 1o9gA 250 9.74e+00 c.66.1.29 86692 1sdoA 203 1.04e+01 unknown_sccs -7558 1bjt 793 1.07e+01 1bjt e.11.1.1 43249 1cc8A 73 1.07e+01 1cc8A d.58.17.1 39343 1o0pA 104 1.14e+01 d.58.7.1 86535 1id1A 153 1.17e+01 1id1A c.2.1.9 62286 1fm9D 272 1.19e+01 2prgA a.123.1.1 19313 1h75A 81 1.22e+01 1h75A c.47.1.1 60716 1s5aA 150 1.33e+01 unknown_sccs -9300 1zrn 232 1.38e+01 1qq5A c.108.1.1 43323 1g6sA 427 1.44e+01 1eps d.68.2.2 39584 1a78A 134 1.45e+01 1c1lA b.29.1.3 24212 1qd1A 325 1.46e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1g57A 217 1.49e+01 1g57A d.115.1.2 60253 1q9uA 130 1.59e+01 unknown_sccs -11025 1o6aA 96 1.60e+01 unknown_sccs -4101 1ub0A 258 1.62e+01 c.72.1.2 88394 1mu5A 471 1.64e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1kwgA 645 1.65e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1ne2A 200 1.71e+01 c.66.1.32 85586 1ejdA 419 1.73e+01 1uae d.68.2.2 39576 1cby 259 1.74e+01 1cby d.103.1.1 40705 1kngA 156 1.87e+01 c.47.1.10 72777 1m3uA 264 1.94e+01 c.1.12.8 84784 1dfoA 417 1.97e+01 1bj4A c.67.1.4 34480 1ptmA 329 1.98e+01 unknown_sccs -8456 2fokA 579 2.04e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1akz 223 2.09e+01 3eugA c.18.1.1 31007 1ia9A 280 2.16e+01 1ia9A d.144.1.5 62113 1qflA 389 2.23e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1mdbA 539 2.25e+01 e.23.1.1 79008 1kevA 351 2.35e+01 1pedA b.35.1.2 24749 c.2.1.1 29765 1db3A 372 2.36e+01 1db3A c.2.1.2 29813 1m3kA 392 2.36e+01 c.95.1.1 78565 c.95.1.1 78566 1m4tA 392 2.39e+01 c.95.1.1 78617 c.95.1.1 78618 1i1kA 309 2.40e+01 1daaA e.17.1.1 61533 1jmvA 141 2.41e+01 c.26.2.4 66897 1n3bA 216 2.50e+01 c.37.1.1 79959 1oj5A 132 2.55e+01 unknown_sccs -10848 1jqbA 351 2.55e+01 b.35.1.2 77151 c.2.1.1 77152 1qopA 268 2.56e+01 2tysA c.1.2.4 28570 1im5A 180 2.57e+01 unknown_sccs 66211 1ica 40 2.59e+01 1ica g.3.7.4 44173 1vhtA 218 2.68e+01 c.37.1.1 -7004 1gsa 316 2.69e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1fmjA 351 2.74e+01 c.37.1.5 59879 1mmsA 140 2.78e+01 1mmsA a.4.7.1 16247 d.47.1.1 38766 1i60A 278 2.81e+01 c.1.15.4 71118 1gmxA 108 2.90e+01 c.46.1.3 65355 1okrA 123 2.92e+01 unknown_sccs -235 1so9A 164 2.98e+01 1eu8A 409 3.07e+01 1eu8A c.94.1.1 59502 1qniA 581 3.13e+01 1qniA b.6.1.4 23042 b.69.3.1 27642 1jqgA 433 3.14e+01 c.56.5.1 71791 d.58.3.1 71792 1rf6A 427 3.19e+01 d.68.2.2 -10314 1hk9A 74 3.22e+01 b.38.1.2 83541 1vjqA 79 3.27e+01 unknown_sccs -13478 5croA 66 3.33e+01 1orc a.35.1.2 17044 1sacA 204 3.34e+01 1sacA b.29.1.5 24237 1nar 290 3.36e+01 1nar c.1.8.5 28988 1adn 92 3.49e+01 1adn g.48.1.1 45348 1v5xA 203 3.50e+01 c.1.2.4 -5169 2tysA 268 3.55e+01 2tysA c.1.2.4 28572 1j3mA 129 3.55e+01 1e9rA 437 3.55e+01 c.37.1.11 64827 1e8yA 966 3.57e+01 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1ipaA 274 3.62e+01 c.116.1.1 71254 d.79.3.3 71255 1j09A 468 3.64e+01 a.97.1.1 77025 c.26.1.1 77026 1gx3A 284 3.68e+01 d.3.1.5 70678 1r0vA 305 3.69e+01 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1te2A 226 3.74e+01 1id2A 106 3.78e+01 1aac b.6.1.1 62288 1o94A 729 3.80e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1kzlA 208 3.84e+01 b.43.4.3 77635 b.43.4.3 77636 1djnA 729 3.92e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 2tmdA 729 3.95e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602