# List of top-scoring protein chains for t04-100-30-alpha 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 1dfeA 37 5.84e-01 1dfeA g.42.1.1 45318 1p4xA 250 2.68e+00 a.4.5.28 87784 a.4.5.28 87785 1mk0A 97 2.77e+00 d.226.1.1 79216 1j7xA 302 2.98e+00 c.14.1.2 66425 1vk8A 106 3.37e+00 1oe0A 230 3.55e+00 c.37.1.1 -6976 1io7A 368 3.94e+00 1f4tA a.104.1.1 18971 1m98A 317 3.99e+00 a.175.1.1 78866 d.17.4.6 78867 1k8kD 300 4.12e+00 d.198.2.1 68309 d.198.2.1 68310 1c2aA 120 4.72e+00 1c2aA g.3.13.1 44349 g.3.13.1 44350 1earA 147 5.56e+00 b.107.1.1 64875 d.58.38.1 64876 1qgvA 142 5.75e+00 1qgvA c.47.1.8 33056 1b4bA 71 6.26e+00 1b4aA d.74.2.1 39718 1ef1A 294 6.41e+00 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1sqgA 429 7.37e+00 1evsA 187 8.18e+00 1evsA a.26.1.1 16845 1mai 131 8.29e+00 1mai b.55.1.1 26951 1o5uA 101 8.94e+00 b.82.1.8 -4845 1v3hA 495 9.59e+00 1q6cA 495 9.73e+00 c.1.8.1 -5300 1byb 495 9.83e+00 1byb c.1.8.1 28790 1ollA 188 1.02e+01 b.1.1.4 -2690 b.1.1.4 -2691 1s6bB 119 1.06e+01 a.133.1.2 -1954 1khxA 227 1.12e+01 b.26.1.1 68631 1oaqL 120 1.13e+01 b.1.1.1 -2163 1cjaA 342 1.17e+01 1cjaA d.144.1.3 41708 1poa 118 1.28e+01 1poa a.133.1.2 19514 1qnxA 209 1.47e+01 1qnxA d.111.1.1 40914 1o86A 589 1.49e+01 d.92.1.5 81177 1lfjA 119 1.53e+01 1r4yA 136 1.57e+01 d.1.1.3 -8813 1s6bA 119 1.60e+01 a.133.1.2 -1953 1s7oA 113 1.88e+01 1h9oA 112 1.88e+01 1qadA d.93.1.1 60837 1mf7A 194 1.91e+01 c.62.1.1 84937 1ry6A 360 1.96e+01 c.37.1.9 -7111 1cuk 203 2.01e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1atzA 189 2.09e+01 1atzA c.62.1.1 34132 1rg9A 383 2.10e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1fjsL 52 2.11e+01 1hcgB g.3.11.1 44226 1nfkA 325 2.14e+01 1a3qA b.1.18.1 21929 b.2.5.3 22444 1o2dA 371 2.41e+01 e.22.1.2 86591 1ox3A 109 2.48e+01 h.1.17.1 -12938 1h6kA 757 2.49e+01 unknown_sccs 60675 unknown_sccs 60676 unknown_sccs 60677 1psdA 409 2.52e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1s35A 214 2.58e+01 a.7.1.1 -391 a.7.1.1 -392 1r0wA 286 2.75e+01 c.37.1.12 -7158 1bif 469 2.84e+01 1bif c.37.1.7 31961 c.60.1.4 34003 2hft 218 2.89e+01 1boy b.1.2.1 21951 b.1.2.1 21952 1j98A 157 2.91e+01 1j98A d.185.1.2 62755 1mvfD 82 2.93e+01 b.129.1.1 85143 1jgjA 217 2.94e+01 1c3wA f.13.1.1 62952 1dun 134 2.95e+01 1dun b.85.4.1 28371 1bovA 69 3.00e+01 2bosA b.40.2.1 25070 1um0A 365 3.05e+01 1sfp 114 3.24e+01 1sfp b.23.1.1 23895 1mjnA 179 3.29e+01 c.62.1.1 79210 1cdq 77 3.31e+01 1cds g.7.1.3 44459 1miwA 404 3.45e+01 a.173.1.1 79162 d.218.1.4 79163 1j83A 180 3.47e+01 b.18.1.12 66430 1pz4A 116 3.50e+01 d.106.1.1 -10780 1qg3A 195 3.53e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1kskA 234 3.56e+01 unknown_sccs -10150 d.66.1.5 72920 1pqnA 127 3.59e+01 c.47.1.8 -7479 1fm0E 150 3.79e+01 1fmaE d.41.5.1 38629 1h6fA 193 3.87e+01 b.2.5.4 70901 1grj 158 3.98e+01 1grj a.2.1.1 15691 d.26.1.2 38433