# List of top-scoring protein chains for T0289.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 1rflA 172 8.23e-01 c.37.1.8 97384 2a72A 146 3.40e+00 2b43A 526 5.45e+00 1rqjA 299 5.92e+00 a.128.1.1 97744 1rqiA 300 5.92e+00 a.128.1.1 97742 2afrA 231 7.13e+00 1vbkA 307 7.45e+00 1sh0A 510 1.14e+01 e.8.1.4 98876 1wwzA 159 1.14e+01 1uqrA 154 1.32e+01 c.23.13.1 99779 2ayuA 417 1.53e+01 1mqhA 263 1.69e+01 c.94.1.1 91397 2anjA 263 1.82e+01 1gtzA 156 1.91e+01 c.23.13.1 70539 1mb4A 370 1.98e+01 c.2.1.3,d.81.1.1 78908,78909 1p1oA 263 2.04e+01 c.94.1.1 87699 1mqdA 261 2.04e+01 c.94.1.1 85049 1m5dA 263 2.06e+01 c.94.1.1 78641 4ubpA 101 2.07e+01 1ubpA d.8.1.1 37352 1lbcA 263 2.07e+01 c.94.1.1 73805 1mqiA 263 2.07e+01 c.94.1.1 91398 1ie7A 100 2.07e+01 1ubpA d.8.1.1 62313 1lbbA 263 2.09e+01 c.94.1.1 73804 1tux 301 2.14e+01 1taxA c.1.8.3 28907 1ftkA 279 2.18e+01 1gr2A c.94.1.1 35819 1p1wA 263 2.26e+01 c.94.1.1 87713 1x5aA 107 2.28e+01 1lb8A 263 2.30e+01 c.94.1.1 73800 2forA 323 2.33e+01 1gu1A 156 2.33e+01 c.23.13.1 70563 2bt4A 157 2.45e+01 1q3eA 207 2.60e+01 b.82.3.2 95669 1udzA 182 2.65e+01 b.51.1.1 99239 1wnyA 186 2.69e+01 1wk8A 194 2.77e+01 1jt8A 102 2.82e+01 b.40.4.5 63279 1ut9A 609 2.91e+01 a.102.1.2,b.1.18.2 99912,99913 1rq5A 610 2.93e+01 a.102.1.2,b.1.18.2 97730,97731 1k46A 136 3.01e+01 d.195.1.1 68125 1hufA 140 3.25e+01 1hufA d.195.1.1 61272 2ftzA 284 3.27e+01 1ks8A 433 3.46e+01 a.102.1.2 77519 1giqA 413 3.64e+01 d.166.1.1,d.166.1.1 76224,76225 1eoqA 96 3.88e+01 1d1dA a.28.3.1 16959 1i6fA 60 4.65e+01 1aho g.3.7.1 61829 1v30A 124 4.71e+01 1zagA 274 4.71e+01 1agdA b.1.1.2,d.19.1.1 20851,38315 2ljrA 244 4.88e+01 1ljrA a.45.1.1,c.47.1.5 17709,33003 1h0cA 392 4.97e+01 c.67.1.3 83424 1xiqA 157 4.99e+01 1m6eX 359 5.14e+01 c.66.1.35 91188 2bnjA 303 5.18e+01 1i1wA 303 5.18e+01 c.1.8.3 76732 1xvuA 408 5.38e+01 1j5uA 136 5.51e+01 d.208.1.1 71584 1j04A 392 5.67e+01 c.67.1.3 90734 1idm 343 5.72e+01 1cnzA c.77.1.1 35035 1ojxA 263 5.85e+01 c.1.10.1 93164 1ipd 345 5.94e+01 1cnzA c.77.1.1 35038 1xaa 345 5.94e+01 1cnzA c.77.1.1 35033 1t7vA 278 5.96e+01 1w8sA 263 5.96e+01 1g2uA 345 5.99e+01 1cnzA c.77.1.1 35036 1w8rA 263 6.01e+01 1va0A 239 6.01e+01 1gc9A 345 6.03e+01 1cnzA c.77.1.1 35037 1k6aA 303 6.06e+01 c.1.8.3 72081 1dr8A 344 6.10e+01 1cnzA c.77.1.1 35051 1osjA 345 6.10e+01 1cnzA c.77.1.1 35039 1dr0A 346 6.12e+01 1cnzA c.77.1.1 35045 1dpzA 349 6.12e+01 1cnzA c.77.1.1 35053 1gc8A 345 6.18e+01 1cnzA c.77.1.1 35042 1walA 345 6.33e+01 1cnzA c.77.1.1 35041 1f6aA 176 6.47e+01 2fcbA b.1.1.4,b.1.1.4 21791,21792 1z1vA 80 6.52e+01 1j87A 172 6.65e+01 2fcbA b.1.1.4,b.1.1.4 62715,62716 1j88A 172 6.67e+01 2fcbA b.1.1.4,b.1.1.4 62717,62718 1xad 345 6.68e+01 1cnzA c.77.1.1 35055 1w07A 659 6.75e+01 1f2qA 176 6.82e+01 2fcbA b.1.1.4,b.1.1.4 21789,21790 1wggA 96 6.89e+01 1pv8A 330 6.94e+01 c.1.10.3 95155 1ue0A 182 6.98e+01 b.51.1.1 99241 1txqA 93 7.00e+01 1dwaM 499 7.18e+01 1e70M c.1.8.4 28928 1e4mM 501 7.22e+01 1e70M c.1.8.4 59226 1ji5A 142 7.27e+01 a.25.1.1 71678 1xn5A 146 7.30e+01 1myr 501 7.44e+01 1e70M c.1.8.4 28925 1uqvA 85 7.53e+01 a.60.1.2 99798 2ai4A 119 7.53e+01 1zt3A 80 7.55e+01 1e51A 330 7.59e+01 1b4kA c.1.10.3 59254 1h2hA 241 7.60e+01 d.81.1.3,c.2.1.3 70861,83058 1uf2K 506 7.67e+01 1ytkA 398 7.68e+01 1qvaA 223 7.85e+01 1qvaA c.37.1.19 32411 1ic6A 279 7.89e+01 1gci c.41.1.1 62257 1qdeA 224 8.02e+01 1qvaA c.37.1.19 32410 1j5pA 253 8.34e+01 d.81.1.3,c.2.1.3 71577,83092 1lrzA 426 8.39e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 2g9dA 350 8.58e+01 4blcA 506 8.58e+01 1cf9A e.5.1.1 42775 1ta3B 303 8.76e+01 c.1.8.3 106732 1mqmA 329 8.89e+01 b.19.1.2 91406 1dgfA 497 8.94e+01 1cf9A e.5.1.1 42782 1dghA 498 8.94e+01 1cf9A e.5.1.1 42790