# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-scores 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 1lr0A 129 5.76e-02 d.212.1.1 74213 1hrdA 449 7.25e-01 1k89 c.2.1.7 30219 c.58.1.1 33867 1js8A 394 7.52e-01 a.86.1.1 67219 b.112.1.1 67220 1bgvA 449 7.56e-01 1k89 c.2.1.7 30217 c.58.1.1 33865 1omiA 248 1.56e+00 a.4.5.4 87079 b.82.3.3 87080 1obdA 306 1.72e+00 d.143.1.1 86767 1f35A 162 2.07e+00 1f35A b.94.1.1 59628 1g7sA 594 2.61e+00 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1v74A 107 2.88e+00 unknown_sccs -9319 1ui8A 638 3.01e+00 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1qgoA 264 3.43e+00 1qgoA c.92.1.2 35596 1k2xA 177 4.34e+00 d.153.1.5 -11450 1lqtA 456 4.35e+00 c.3.1.1 74198 c.4.1.1 74199 1cot 129 4.67e+00 1ycc a.3.1.1 15899 1jyaA 130 5.09e+00 d.198.1.1 67453 1g6oA 330 5.13e+00 1g6oA c.37.1.11 32430 1avk 638 5.87e+00 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1o5oA 221 6.04e+00 c.61.1.1 -7954 1i4jA 110 6.67e+00 d.55.1.1 76734 1ui7A 638 6.80e+00 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1a48 306 7.92e+00 1a48 d.143.1.1 41590 1bxeA 113 8.33e+00 1bxeA d.55.1.1 38898 1r4xA 275 8.67e+00 unknown_sccs -2846 unknown_sccs -10776 1eijA 80 9.70e+00 1eijA a.5.6.1 16298 1mn8A 100 9.97e+00 a.61.1.6 79318 1aihA 170 1.01e+01 1aihA d.163.1.1 42149 1kllA 130 1.05e+01 d.32.1.2 72720 1apyA 162 1.08e+01 1apyA d.153.1.5 42004 1r94A 118 1.16e+01 b.124.1.1 -4402 1mveA 243 1.21e+01 b.29.1.2 85140 1iqyA 638 1.25e+01 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 2pvaA 345 1.28e+01 3pvaA d.153.1.3 41850 1gpjA 404 1.31e+01 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1a62 130 1.35e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1p7gA 222 1.40e+01 a.2.11.1 -108 d.44.1.1 -9742 1ntyA 311 1.45e+01 1p9eA 331 1.49e+01 1omwA 689 1.58e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1kxlA 199 1.58e+01 b.40.4.3 73155 1bylA 125 1.64e+01 1bylA d.32.1.2 38495 1nrgA 261 1.65e+01 b.45.1.1 80694 3pvaA 335 1.66e+01 3pvaA d.153.1.3 41854 1k5nA 276 1.85e+01 b.1.1.2 77266 d.19.1.1 77267 1iscA 192 1.93e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1a8vA 121 1.98e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 1mzgA 146 1.99e+01 d.224.1.1 79696 1bsmA 201 2.16e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1pyoB 105 2.59e+01 1dy5A 124 2.67e+01 7rsa d.5.1.1 37163 1oq1A 223 2.68e+01 unknown_sccs -3455 1ay7B 89 2.77e+01 1ay7B c.9.1.1 30836 1p5zB 263 2.77e+01 c.37.1.1 87815 1avmA 201 2.84e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1f86A 115 2.84e+01 1etb1 b.3.4.1 59689 1nt2B 258 2.93e+01 a.183.1.1 86150 1nxzA 246 2.98e+01 b.122.1.2 86391 c.116.1.5 86392 1m1cA 680 3.03e+01 e.42.1.1 78395 1rypE 242 3.03e+01 1rypE d.153.1.4 41936 1o8bA 219 3.05e+01 unknown_sccs 81180 d.58.40.1 81181 1uxxX 133 3.10e+01 b.18.1.10 -3107 1s98A 107 3.19e+01 1cqkA 101 3.25e+01 1cqkA b.1.1.2 21547 1my6A 199 3.26e+01 a.2.11.1 85232 d.44.1.1 85233 1s0uA 408 3.28e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1mixA 206 3.32e+01 a.11.2.1 79166 b.55.1.5 79167 1d0yA 761 3.36e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1kuuA 202 3.44e+01 d.153.2.1 73019 1l1oC 181 3.67e+01 b.40.4.3 73480 1vhyA 257 3.68e+01 b.122.1.2 -5129 c.116.1.5 -6705 1s8fA 177 3.81e+01 1nnwA 252 3.93e+01 d.159.1.5 80674 1v7rA 186 3.93e+01 c.51.4.1 -7546