# List of top-scoring protein chains for T0327.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 1rsgA 516 4.68e-01 2c71A 216 5.60e-01 1v30A 124 5.93e-01 1tbxA 99 1.44e+00 a.4.5.48 106748 1yyvA 131 2.82e+00 1akhB 83 3.03e+00 1akhB a.4.1.1 15985 1k61A 60 3.12e+00 a.4.1.1 77270 1xmaA 145 3.13e+00 1le8B 83 3.22e+00 a.4.1.1 73868 1gmlA 178 3.23e+00 c.8.5.2 70273 2gftA 399 4.03e+00 1ur4A 399 4.20e+00 1mnmC 87 4.52e+00 1akhB a.4.1.1 15983 2dfkA 402 4.68e+00 1ln4A 104 4.73e+00 d.68.4.1 74043 1i1gA 141 4.96e+00 a.4.5.32,d.58.4.2 65982,65983 1rqgA 722 5.11e+00 a.27.1.1,c.26.1.1,g.41.1.1 105063,105064,105065 1d9uA 154 5.12e+00 1am7A d.2.1.4 59111 1am7A 158 5.18e+00 1am7A d.2.1.4 36981 1efdN 266 7.56e+00 1efdN c.92.2.1 35597 1k2vN 266 7.59e+00 c.92.2.1 72014 1k7sN 265 7.61e+00 c.92.2.1 72105 2afpA 129 7.98e+00 2afpA d.169.1.1 42349 2co5A 99 8.83e+00 1xsqA 168 9.05e+00 1xsrA 168 9.44e+00 1sb2B 129 9.84e+00 2b0tA 738 1.01e+01 1pe0A 197 1.09e+01 c.23.16.2 88045 2g7uA 257 1.25e+01 1fjgH 138 1.29e+01 1seiA d.140.1.1 41468 1an7A 136 1.29e+01 1seiA d.140.1.1 41465 1yvvA 336 1.31e+01 1t93A 406 1.34e+01 1s1fA 406 1.34e+01 2d09A 407 1.34e+01 1se6A 406 1.35e+01 2d0eA 407 1.37e+01 1noyA 388 1.37e+01 1clqA c.55.3.5 33713 1sxrA 183 1.50e+01 d.118.1.1 106101 1fbaA 361 1.52e+01 1fbaA c.1.10.1 29120 2ab5A 269 1.56e+01 1s2jA 209 1.56e+01 d.118.1.1 105227 1bxnI 139 1.60e+01 1rboC d.73.1.1 39666 1yqcA 170 1.61e+01 1yfkA 262 1.76e+01 2f0aA 98 1.76e+01 1p5tA 127 1.90e+01 b.55.1.2 94148 1ub9A 100 2.06e+01 a.4.5.28 99159 1h70A 255 2.18e+01 1h70A d.126.1.3 60711 1i94H 138 2.30e+01 1seiA d.140.1.1 61999 1wa3A 205 2.32e+01 2cugA 88 2.33e+01 1itwA 741 2.35e+01 c.77.1.2 76793 1pls 113 2.46e+01 1pls b.55.1.1 26965 1whaA 105 2.55e+01 4rubS 123 2.62e+01 1rboC d.73.1.1 39621 1zhvA 134 2.68e+01 1ckmA 330 2.69e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1cknB 330 2.70e+01 1ckmA b.40.4.6,d.142.2.3 25361,41588 2dlbA 80 2.76e+01 1l7pA 211 2.76e+01 c.108.1.4 73670 1j97A 211 2.76e+01 1f5sA c.108.1.4 62753 1l7mA 211 2.77e+01 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