# List of top-scoring protein chains for T0557.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.soe.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 3lmmA 583 2.37e-03 1hh1A 143 1.69e+00 1gefA c.52.1.18 61036 1vlmA 219 4.42e+00 c.66.1.41 108836 1u2wA 122 5.20e+00 a.4.5.5 119487 3f72A 122 6.66e+00 1r2jA 366 1.09e+01 a.29.3.1,e.6.1.1 96869,96870 2bnmA 198 1.30e+01 a.35.1.3,b.82.1.10 128835,128836 1f07A 321 1.39e+01 1ezwA c.1.16.3 59560 2eo0A 147 1.40e+01 2ab4A 309 1.77e+01 b.122.1.1,d.265.1.2 126505,126506 1smrA 335 1.92e+01 1smrA b.50.1.2 26878 1ze1A 309 1.93e+01 b.122.1.1,d.265.1.2 124962,124963 1ze2A 309 1.93e+01 b.122.1.1,d.265.1.2 124970,124971 1r3eA 309 1.93e+01 b.122.1.1,d.265.1.2 96907,96908 1pg4A 652 2.17e+01 e.23.1.1 88067 3f9uA 172 2.24e+01 3cjiC 284 2.30e+01 2dq4A 343 2.37e+01 1wcuA 153 2.61e+01 2d8mA 129 2.65e+01 1z69A 327 2.68e+01 1mkyA 439 2.69e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 2dzrA 99 2.79e+01 2f1nA 262 3.11e+01 d.151.1.1 132782 2ec1A 125 3.49e+01 3dzbA 317 4.04e+01 2g0tA 350 4.08e+01 c.37.1.10 134499 2eisA 133 4.31e+01 1jpdX 324 4.58e+01 c.1.11.2,d.54.1.1 67014,67015 1kc2A 103 4.78e+01 d.93.1.1 72291 2p20A 652 5.01e+01 3ircA 108 5.01e+01 3e15A 312 5.03e+01 2p2bA 652 5.04e+01 2p2jA 652 5.06e+01 2p2fA 652 5.08e+01 2p2qA 652 5.10e+01 2hw4A 144 5.11e+01 d.322.1.1 136821 2glvA 171 5.11e+01 3dp1A 159 5.43e+01 3i6sA 649 5.45e+01 1qciA 262 5.52e+01 1qi7A d.165.1.1 42201 2gllA 171 5.55e+01 1p5jA 372 5.59e+01 c.79.1.1 104067 3kstA 306 5.96e+01 3hbwA 193 6.06e+01 2hn1A 266 6.13e+01 2owmA 443 6.14e+01 2pwjA 171 6.34e+01 1scjA 275 6.64e+01 1gci c.41.1.1 32486 3ixtA 225 6.80e+01 1lybB 241 6.94e+01 1smrA 2a8eA 220 6.98e+01 d.296.1.1 126397 3bh6A 164 7.00e+01 3a9iA 376 7.44e+01 2ztjA 382 7.47e+01 1gjiA 275 7.83e+01 b.1.18.1,b.2.5.3 70187,70188 1qdmA 478 7.91e+01 1smrA a.64.1.2,b.50.1.2 18141,26838