# List of top-scoring protein chains for T0296.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 1tozA 116 9.80e-01 2g2jA 179 4.74e+00 1wmiA 90 7.35e+00 1gxsA 270 7.82e+00 c.69.1.5 76375 2d2mB 142 1.46e+01 1kafA 108 1.72e+01 d.199.1.1 68372 1avbA 226 2.03e+01 1led b.29.1.1 24158 1hzmA 154 2.18e+01 c.46.1.1 65975 1jqxA 311 2.23e+01 c.1.4.1 90902 2augA 126 2.33e+01 1jueA 311 2.39e+01 c.1.4.1 90910 1jqvA 311 2.41e+01 c.1.4.1 90900 1jubA 311 2.45e+01 c.1.4.1 90908 1hg3A 225 2.58e+01 1hg3A c.1.1.1 61025 1xapA 267 2.67e+01 1q7rA 219 2.70e+01 c.23.16.1 96054 1jrbA 311 2.73e+01 c.1.4.1 90904 1jrcA 311 2.77e+01 c.1.4.1 90906 1xdkB 303 2.82e+01 2fgyA 542 2.96e+01 1ps9A 671 3.13e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1xhjA 88 3.50e+01 1wviA 257 3.57e+01 1oxkB 134 3.72e+01 c.23.1.1 93691 1gegA 256 4.31e+01 1ybvA c.2.1.2 29888 1fqvB 149 4.34e+01 1fqvD a.157.1.1,d.42.1.1 19262,38666 1s1mA 545 4.34e+01 c.23.16.1,c.37.1.10 105201,105202 1zkdA 387 4.38e+01 2cu3A 64 5.68e+01 1roe 97 5.79e+01 1awd d.15.4.1 37672 1wzuA 300 6.02e+01 1jalA 363 6.83e+01 c.37.1.8,d.15.10.2 84138,84139 1kmmA 424 6.86e+01 1adjA c.51.1.1,d.104.1.1 33174,40723 1r1tA 122 6.92e+01 a.4.5.5 104769 1fd0A 235 7.24e+01 a.123.1.1 76164 1fcyA 236 7.28e+01 2lbd a.123.1.1 19282 1fuoA 467 7.28e+01 1furA a.127.1.1 19411 1furA 467 7.30e+01 1furA a.127.1.1 19403 1fuqA 472 7.31e+01 1furA a.127.1.1 19405 2fusA 467 7.31e+01 1furA a.127.1.1 19409 1di1A 300 7.33e+01 1di1A a.128.1.4 19446 1exaA 246 7.36e+01 2lbd a.123.1.1 19285 1httA 423 7.54e+01 1adjA c.51.1.1,d.104.1.1 33178,40727 2lbd 267 7.70e+01 2lbd a.123.1.1 19287 2aw4O 117 7.76e+01 1naaA 541 7.83e+01 c.3.1.2,d.16.1.1 80365,80366 1kdgA 546 7.87e+01 c.3.1.2,d.16.1.1 77337,77338 1wrbA 253 7.96e+01 1ma3A 253 8.14e+01 c.31.1.5 78883 1xr4A 509 8.28e+01 1t91A 207 8.29e+01 1a45 173 8.93e+01 1amm b.11.1.1,b.11.1.1 23602,23603 1gakA 141 8.99e+01 1gakA a.19.1.1 16415