# List of top-scoring protein chains for T0328.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 2gvkA 317 2.18e-37 1o08A 221 1.73e+00 c.108.1.6 86525 1o12A 376 3.50e+00 b.92.1.5,c.1.9.10 80758,80759 1zdzA 302 4.67e+00 1gkzA 388 5.31e+00 a.29.5.1,d.122.1.4 65268,65269 2fvkA 559 5.98e+00 2bkrA 212 6.15e+00 1xt9A 212 6.66e+00 1t11A 392 1.06e+01 a.223.1.1,d.241.2.1,d.26.1.1 106236,106237,106238 1yfsA 465 1.50e+01 1sqiA 393 1.51e+01 d.32.1.3,d.32.1.3 105914,105915 1zbxA 219 1.54e+01 1zhiA 225 1.55e+01 1pfc 113 1.63e+01 1cqkA b.1.1.2 21546 1m4zA 238 1.81e+01 b.34.12.1 78630 1r4mA 529 2.31e+01 c.111.1.2 96999 1tt5A 531 2.32e+01 c.111.1.2 107291 1ybtA 184 2.49e+01 1i16 130 2.64e+01 1i16 b.36.1.2 24787 1n8fA 350 2.77e+01 c.1.10.4 85397 1yovA 537 2.83e+01 1gg1A 350 2.86e+01 1qr7A c.1.10.4 29187 1r9jA 673 3.14e+01 1dgjA 907 3.27e+01 1alo a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 17909,37694,38585,41415 1nj8A 459 3.32e+01 c.51.1.1,d.68.5.1,d.104.1.1 85769,85770,85771 1wdnA 226 3.36e+01 1lst c.94.1.1 35816 2b34A 199 3.41e+01 1igyB 434 3.76e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 19769,20875,20876,20877 1q3qA 548 3.81e+01 a.129.1.2,c.8.5.2,d.56.1.2 95704,95705,95706 2fug2 181 3.89e+01 1q3rA 548 3.96e+01 a.129.1.2,c.8.5.2,d.56.1.2 95716,95717,95718 1p4cA 380 3.97e+01 c.1.4.1 94100 1q3sA 548 4.07e+01 a.129.1.2,c.8.5.2,d.56.1.2 95728,95729,95730 1z8yA 290 4.29e+01 1jb0A 755 4.37e+01 1jb0A f.29.1.1 62820 1o5kA 306 4.47e+01 c.1.10.1 92504 1fgrA 839 4.56e+01 1yge a.119.1.1,b.12.1.1 59828,59829 1x87A 551 4.57e+01 2aioA 269 4.58e+01 1fgqA 839 4.62e+01 1yge a.119.1.1,b.12.1.1 59826,59827 2c7hA 86 4.75e+01 1y4kA 839 4.84e+01 1fgtA 839 4.89e+01 1yge a.119.1.1,b.12.1.1 59830,59831 1vggA 161 4.94e+01 1yge 839 5.00e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1w18A 493 5.01e+01 1vlbA 907 5.04e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1mcoH 428 5.08e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 20564,21469,21470,21471 1x1nA 524 5.15e+01 1cmxA 236 5.40e+01 1uch d.3.1.6 37130 1cqkA 101 5.69e+01 1cqkA b.1.1.2 21547 2ffhA 425 5.69e+01 1ng1 a.24.13.1,a.36.1.1,c.37.1.10 16965,17122,32276 1r5mA 425 5.71e+01 1wvgA 359 5.93e+01 1cr6A 554 6.02e+01 1cr6B c.69.1.11,c.108.1.2 34687,43337 1ojlA 304 6.23e+01 1i1aC 225 6.60e+01 1igtB b.1.1.2,b.1.1.2 21540,21541 1igtB 444 6.66e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 19765,20867,20868,20869 1i1cA 239 7.04e+01 1igtB b.1.1.2,b.1.1.2 21536,21537 1hh4D 204 7.14e+01 b.1.18.8 61039 1wygA 1331 7.15e+01 2ga9D 469 7.28e+01 1hk8A 605 7.35e+01 c.7.1.3 83540 1fgoA 839 7.43e+01 1yge a.119.1.1,b.12.1.1 59824,59825 1g8jA 825 7.44e+01 1g8jA b.52.2.2,c.81.1.1 26924,35332 1fgmA 839 7.64e+01 a.119.1.1,b.12.1.1 65009,65010 1fstA 182 7.69e+01 1rhoA b.1.18.8 60008 1z6kA 293 7.73e+01 1pbyA 489 7.80e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1adqA 206 7.85e+01 1igtB b.1.1.2,b.1.1.2 21518,21519 1g8kA 825 7.99e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1ldfA 281 8.05e+01 f.19.1.1 73845 1rq2A 382 8.18e+01 c.32.1.1,d.79.2.1 105048,105049 1fo8A 343 8.31e+01 1foaA c.68.1.10 59927 1ms5A 648 8.35e+01 b.29.1.15,b.68.1.1 85076,85077 1fo9A 348 8.36e+01 1foaA c.68.1.10 59928 1iisA 224 8.62e+01 1igtB b.1.1.2,b.1.1.2 62454,62455 1wcdJ 441 8.63e+01 1cxvA 164 8.65e+01 1ck7A d.92.1.11 40404 1s0iA 648 8.70e+01 b.29.1.15,b.68.1.1 105146,105147 2fo3A 125 8.84e+01 1rm6A 769 8.94e+01