# List of top-scoring protein chains for t2k-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 1g2rA 100 2.86e-01 1g2rA d.192.1.1 60231 1d8hA 311 4.89e-01 1d8iA d.63.1.1 39544 1d8iA 311 4.96e-01 1d8iA d.63.1.1 39541 1p4xA 250 8.52e-01 a.4.5.28 87784 a.4.5.28 87785 1icfA 175 1.20e+00 1cs8A d.3.1.1 37067 1dmlA 319 1.98e+00 1dmlA d.131.1.2 41380 d.131.1.2 41381 1vk8A 106 2.64e+00 1jbgA 109 3.64e+00 a.6.1.3 66480 1k8kD 300 4.00e+00 d.198.2.1 68309 d.198.2.1 68310 1n2fA 142 4.82e+00 d.227.1.1 79853 1bif 469 4.88e+00 1bif c.37.1.7 31961 c.60.1.4 34003 2bifA 469 5.56e+00 1bif c.37.1.7 31963 c.60.1.4 34009 1udxA 416 5.98e+00 b.117.1.1 -3546 c.37.1.8 -7101 unknown_sccs -9009 1pil 112 6.45e+00 2pii d.58.5.1 39072 1ox3A 109 6.84e+00 h.1.17.1 -12938 1awcA 110 7.27e+00 1awcA a.4.5.21 16167 1pfjA 108 8.30e+00 2ptd 298 8.91e+00 2plc c.1.18.2 29605 1dkgD 383 8.96e+00 1ba1 c.55.1.1 33427 c.55.1.1 33428 1f9zA 135 9.30e+00 1qipA d.32.1.1 38484 1ly2A 130 9.41e+00 g.18.1.1 74335 g.18.1.1 74336 2pii 112 9.72e+00 2pii d.58.5.1 39071 1se9A 126 1.03e+01 d.15.1.1 -9145 1ujnA 348 1.13e+01 e.22.1.1 -11998 1ag2 103 1.15e+01 1b10A d.6.1.1 37305 2eifA 136 1.16e+01 1bkb b.34.5.2 24607 b.40.4.5 25339 1lnsA 763 1.27e+01 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1gl4B 98 1.28e+01 b.1.1.4 65288 1k2fA 190 1.34e+01 b.8.1.2 68054 1gtkA 313 1.36e+01 c.94.1.1 76346 d.50.2.1 76347 1s7oA 113 1.41e+01 1fa8A 135 1.42e+01 1qipA d.32.1.1 38486 3bifA 468 1.47e+01 1bif c.37.1.7 31962 c.60.1.4 34008 1g3kA 174 1.55e+01 1nedA d.153.1.4 41989 1iujA 106 1.56e+01 unknown_sccs -9953 1l3aA 228 1.60e+01 d.18.1.2 73531 1uspA 139 1.60e+01 d.227.1.1 -11179 1e53A 59 1.62e+01 1e53A g.49.1.2 45356 1ghqB 134 1.63e+01 1ghqB g.18.1.1 60522 g.18.1.1 60523 1o86A 589 1.69e+01 d.92.1.5 81177 1fmaE 150 1.69e+01 1fmaE d.41.5.1 38630 1brlA 355 1.76e+01 1lucA c.1.16.1 29553 2pkaA 80 1.88e+01 2pkaA b.47.1.2 26302 1ekgA 127 1.96e+01 1dlxA d.82.2.1 40021 1earA 147 1.98e+01 b.107.1.1 64875 d.58.38.1 64876 1fm0E 150 2.10e+01 1fmaE d.41.5.1 38629 1ntvA 152 2.23e+01 b.55.1.2 86168 2kaiA 80 2.34e+01 2pkaA b.47.1.2 26306 1auvA 311 2.39e+01 1auvA c.30.1.5 31723 d.142.1.3 41558 1t4oA 117 2.50e+01 1cqkA 101 2.51e+01 1cqkA b.1.1.2 21547 1mk0A 97 2.68e+01 d.226.1.1 79216 1qnxA 209 2.82e+01 1qnxA d.111.1.1 40914 1jt8A 102 2.93e+01 b.40.4.5 63279 1jgsA 138 2.98e+01 a.4.5.28 66683 1eb0A 147 3.01e+01 b.107.1.1 64890 d.58.38.1 64891 1nrwA 288 3.02e+01 c.108.1.10 86128 1kaeA 434 3.07e+01 c.82.1.2 72247 1k75A 434 3.22e+01 c.82.1.2 68253 1sr4A 206 3.22e+01 1iqzA 81 3.22e+01 d.58.1.4 66281 1fzgD 87 3.22e+01 1fzgD h.1.8.1 45605 1auyA 189 3.31e+01 1auyA b.121.4.6 23311 1skoB 130 3.36e+01 1lfjA 119 3.49e+01 1imt 80 3.69e+01 1imt g.3.10.1 44201 g.3.10.1 44202 1mr7A 209 3.86e+01 b.81.1.3 -4798 1hka 158 3.91e+01 1hka d.58.30.1 39433 2kinA 238 3.99e+01 1bg2 c.37.1.9 32190