# List of top-scoring protein chains for T0293.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 1t3gA 159 1.58e+00 1uuqA 440 3.85e+00 c.1.8.3 100015 1mof 55 9.25e+00 1mof h.3.2.1 46324 1s9uA 207 1.35e+01 a.184.1.1 105390 1h1dA 221 1.46e+01 c.66.1.1 83452 1wmaA 276 1.68e+01 2fviA 301 1.92e+01 1vf8A 377 2.15e+01 1s24A 87 2.19e+01 g.41.5.1 98366 1smmA 54 2.46e+01 g.41.5.1 98923 1t9oA 54 2.52e+01 1akeA 214 2.83e+01 1zin c.37.1.1,g.41.2.1 31905,45185 2cq2A 114 2.84e+01 1e4yA 214 2.84e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1e4vA 214 2.93e+01 1zin c.37.1.1,g.41.2.1 31903,45183 1v76A 96 3.15e+01 1t9qA 54 3.24e+01 1x5qA 110 3.41e+01 1qoyA 318 3.53e+01 1qoyA h.4.4.1 45788 1e0jA 289 3.76e+01 1cr1A c.37.1.11 32290 1cr1A 296 3.79e+01 1cr1A c.37.1.11 32286 1x9iA 302 3.84e+01 1regX 122 3.99e+01 1regX d.58.27.1 39406 1u5mA 73 4.00e+01 1c09A 54 4.06e+01 1rb9 g.41.5.1 45228 2ersA 66 4.06e+01 1t77A 414 4.16e+01 1t9pA 54 4.20e+01 1dpb 243 4.21e+01 1eaf c.43.1.1 32618 2aw4X 63 4.29e+01 2cw5A 255 4.42e+01 1b2oA 54 4.42e+01 1rb9 g.41.5.1 45233 1xe3A 245 4.47e+01 1b13A 54 4.53e+01 1rb9 g.41.5.1 45227 1b2jA 54 4.59e+01 1rb9 g.41.5.1 45231 1s1hO 65 4.73e+01 i.1.1.1 105167 1iro 54 4.74e+01 1rb9 g.41.5.1 45223 5rxn 54 4.88e+01 1rb9 g.41.5.1 45225 2avaA 82 4.94e+01 1g26A 31 5.01e+01 1g26A g.3.16.1 44381 1n5dA 288 5.02e+01 c.2.1.2 80030 1x5kA 124 5.20e+01 1dpc 243 5.28e+01 1eaf c.43.1.1 32619 1eae 243 5.38e+01 1eaf c.43.1.1 32625 1dpd 243 5.39e+01 1eaf c.43.1.1 32624 1t71A 281 5.68e+01 1v5mA 136 5.68e+01 b.55.1.1 108379 1iu5A 53 5.70e+01 g.41.5.1 71434 1t5bA 201 5.80e+01 c.23.5.3 106433 1t8sA 484 5.82e+01 c.56.2.1 106679 1y25A 165 6.03e+01 1xvqA 175 6.29e+01 1qrfA 213 6.57e+01 1qreA b.81.1.5 28067 1thjA 214 6.57e+01 1qreA b.81.1.5 28072 1qrlA 214 6.58e+01 1qreA b.81.1.5 28070 1q57A 503 6.63e+01 c.37.1.11,e.13.1.2 95867,95868 1i13A 221 6.72e+01 c.61.1.1 71098 1tc1A 220 6.81e+01 1tc1A c.61.1.1 34083 2g2dA 193 6.81e+01 1i0lA 221 6.82e+01 c.61.1.1 71096 1tc2A 221 6.85e+01 1tc1A c.61.1.1 34085 1p18A 221 6.87e+01 c.61.1.1 104053 1i14A 221 6.98e+01 c.61.1.1 71100 1i0iA 221 7.00e+01 c.61.1.1 71094 1r1dA 247 7.23e+01 c.69.1.29 96813 1qreA 247 7.27e+01 1qreA b.81.1.5 28066 1tqhA 247 7.29e+01 c.69.1.29 107225 1yk4A 52 7.35e+01 1lqbD 34 7.41e+01 2ayvA 166 7.48e+01 1wiwA 290 7.51e+01 1yk5A 53 7.62e+01 1ywzA 175 7.74e+01 1ufzA 83 8.05e+01 a.5.9.1 107821 2f1vA 197 8.11e+01 1be7 54 8.39e+01 1rb9 g.41.5.1 45232 1brfA 53 8.63e+01 1rb9 g.41.5.1 45236 1i9zA 347 8.67e+01 1i9yA d.151.1.2 62102 1bq8A 54 8.70e+01 1rb9 g.41.5.1 45237 1wdyA 285 8.77e+01 1f80D 81 8.99e+01 1acp a.28.1.1 59686