# List of top-scoring protein chains for t2k-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 1gm1A 94 1.27e+00 1qfoA 119 2.49e+00 1qfoA b.1.1.1 19708 1qfoC 119 2.49e+00 1qfoA b.1.1.1 19710 1d5gA 96 3.43e+00 1e7pA 656 3.61e+00 1qlaA a.7.3.1 59347 c.3.1.4 59348 d.168.1.1 59349 1e7pG 655 3.61e+00 1qlaA a.7.3.1 59359 c.3.1.4 59360 d.168.1.1 59361 1rblA 467 4.39e+00 1burA c.1.14.1 29380 d.58.9.1 39286 1rscA 472 4.41e+00 1burA c.1.14.1 29381 d.58.9.1 39287 1kbvA 327 4.58e+00 b.6.1.3 68395 b.6.1.3 68396 1ig8A 486 4.93e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 3rubL 477 5.09e+00 1burA c.1.14.1 29326 d.58.9.1 39232 1gvhA 396 5.56e+00 1rldA 446 5.72e+00 1burA c.1.14.1 29328 d.58.9.1 39234 1gk8A 475 5.86e+00 c.1.14.1 65234 d.58.9.1 65235 1qlaA 656 5.92e+00 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 4rubA 477 5.93e+00 1burA c.1.14.1 29331 d.58.9.1 39237 1ej7L 475 5.93e+00 1burA c.1.14.1 29327 d.58.9.1 39233 1mldA 314 6.93e+00 2cmd c.2.1.5 30122 d.162.1.1 42089 1preB 470 7.12e+00 1preA d.169.1.2 42438 f.8.1.1 43825 1preA 470 7.12e+00 1preA d.169.1.2 42437 f.8.1.1 43824 1eo6A 117 7.19e+00 1eo6A d.15.1.3 37609 1fm0E 150 7.55e+00 1fmaE d.41.5.1 38629 1fmaE 150 7.55e+00 1fmaE d.41.5.1 38630 1hx1A 400 7.62e+00 1ba1 c.55.1.1 61348 c.55.1.1 61349 1f59A 442 8.48e+00 1qgrA a.118.1.1 19123 1ibrB 462 8.77e+00 1qgrA a.118.1.1 19120 1gcjA 460 1.28e+01 1qgrA a.118.1.1 19125 1guhA 221 1.28e+01 1pgtA a.45.1.1 17671 c.47.1.5 32965 1gseA 221 1.28e+01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1gw0A 559 1.33e+01 3gpdG 334 1.49e+01 1dssG c.2.1.3 30029 d.81.1.1 39944 1bla 155 1.54e+01 1bfg b.42.1.1 25502 1bfc 147 1.56e+01 1bfg b.42.1.1 25492 1bfg 146 1.57e+01 1bfg b.42.1.1 25485 1iilA 155 1.57e+01 1bfg b.42.1.1 62433 1bas 154 1.57e+01 1bfg b.42.1.1 25488 1iunA 282 1.71e+01 2fgf 146 1.93e+01 1bfg b.42.1.1 25487 4fgf 146 1.93e+01 1bfg b.42.1.1 25486 1nsa 395 1.94e+01 1aye c.56.5.1 33825 d.58.3.1 39066 1bupA 386 1.99e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1eysL 280 2.05e+01 6prcL f.2.1.2 43515 1qgrA 876 2.09e+01 1qgrA a.118.1.1 19119 1rfnA 235 2.36e+01 5ptp b.47.1.2 26354 1dawA 327 2.42e+01 1a6o d.144.1.1 41668 1lpuA 332 2.44e+01 6prcL 273 2.47e+01 6prcL f.2.1.2 43434 1dxrL 273 2.48e+01 6prcL f.2.1.2 43431 7ca2 260 2.57e+01 2cba b.74.1.1 27949 1j71A 334 2.62e+01 1eagA b.50.1.2 62669 1agsA 221 2.64e+01 1pgtA a.45.1.1 17691 c.47.1.5 32985 1hjoA 380 2.69e+01 1ba1 c.55.1.1 33425 c.55.1.1 33426 2tryA 127 2.86e+01 1etb1 b.3.4.1 22595 1fnyA 237 3.13e+01 1led b.29.1.1 59920 1fs2A 272 3.53e+01 1fs1A a.122.1.1 19270 c.10.1.3 30864 1uteA 313 3.55e+01 1uteA d.159.1.1 42078 1b74A 254 3.59e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1b73A 254 3.59e+01 1b74A c.78.2.1 35266 c.78.2.1 35267 1fcqA 350 3.64e+01 c.1.8.9 65006 1ko7A 314 3.65e+01 1bc9 200 3.74e+01 1pbv a.118.3.1 19180 1f7cA 231 3.76e+01 1f7cA a.116.1.1 19107 1rxoB 475 3.79e+01 1burA c.1.14.1 29352 d.58.9.1 39258 8rucA 475 3.80e+01 1burA c.1.14.1 29339 d.58.9.1 39245 1nulA 152 3.86e+01 1nulA c.61.1.1 34011 1eljA 381 3.86e+01 4mbp c.94.1.1 35791 1gt7A 274 3.91e+01 1couA 85 3.95e+01 1eaiC g.22.1.1 44896