# List of top-scoring protein chains for T0289.t06-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 1.92e+00 c.37.1.8 97384 2b43A 526 3.54e+00 1sh0A 510 7.54e+00 e.8.1.4 98876 1uqrA 154 9.01e+00 c.23.13.1 99779 1giqA 413 9.35e+00 d.166.1.1,d.166.1.1 76224,76225 1ytkA 398 1.16e+01 4ubpA 101 1.27e+01 1ubpA d.8.1.1 37352 1ie7A 100 1.28e+01 1ubpA d.8.1.1 62313 1zagA 274 1.33e+01 1agdA b.1.1.2,d.19.1.1 20851,38315 1wi3A 71 1.83e+01 1rqjA 299 1.92e+01 a.128.1.1 97744 1rqiA 300 1.92e+01 a.128.1.1 97742 1t7vA 278 2.05e+01 2a72A 146 2.18e+01 1tux 301 2.36e+01 1taxA c.1.8.3 28907 1vlqA 337 2.44e+01 c.69.1.25 108848 1o9rA 162 2.55e+01 a.25.1.1 86706 2afrA 231 2.61e+01 1vbkA 307 2.63e+01 1mb4A 370 3.10e+01 c.2.1.3,d.81.1.1 78908,78909 1i1wA 303 3.11e+01 c.1.8.3 76732 2bnjA 303 3.12e+01 1q3eA 207 3.15e+01 b.82.3.2 95669 1x5aA 107 3.15e+01 1ks8A 433 3.39e+01 a.102.1.2 77519 1k6aA 303 3.59e+01 c.1.8.3 72081 1eoqA 96 3.73e+01 1d1dA a.28.3.1 16959 2ech 50 4.33e+01 1fvl g.20.1.1 44879 1wwzA 159 4.33e+01 1h0cA 392 4.46e+01 c.67.1.3 83424 1ro3A 49 4.65e+01 g.20.1.1 97666 2fpfA 71 4.69e+01 2fpeA 62 4.85e+01 2b8nA 429 4.88e+01 1ffvA 163 5.09e+01 1qj2A a.56.1.1,d.15.4.2 17915,37700 2g5cA 281 5.23e+01 1j04A 392 5.29e+01 c.67.1.3 90734 1nsqA 153 5.32e+01 1npk d.58.6.1 39135 1lxjA 104 5.52e+01 d.58.48.1 84736 2ljrA 244 5.53e+01 1ljrA a.45.1.1,c.47.1.5 17709,33003 1mk4A 157 5.67e+01 d.108.1.1 84979 1ojxA 263 5.77e+01 c.1.10.1 93164 2ayuA 417 5.79e+01 1w8sA 263 5.87e+01 1w8rA 263 5.89e+01 1h2hA 241 5.93e+01 d.81.1.3,c.2.1.3 70861,83058 2ftzA 284 5.95e+01 1j5pA 253 6.24e+01 d.81.1.3,c.2.1.3 71577,83092 1qvaA 223 6.40e+01 1qvaA c.37.1.19 32411 1ut9A 609 6.43e+01 a.102.1.2,b.1.18.2 99912,99913 1rq5A 610 6.44e+01 a.102.1.2,b.1.18.2 97730,97731 1dwaM 499 6.51e+01 1e70M c.1.8.4 28928 1e6bA 221 6.52e+01 1e6bA a.45.1.1,c.47.1.5 59294,59295 1e4mM 501 6.55e+01 1e70M c.1.8.4 59226 2forA 323 6.61e+01 1z1vA 80 6.65e+01 1qdeA 224 6.67e+01 1qvaA c.37.1.19 32410 1ejxA 100 6.82e+01 d.8.1.1 83182 1o0pA 104 6.83e+01 d.58.7.1 86535 1myr 501 7.00e+01 1e70M c.1.8.4 28925 1mqhA 263 7.02e+01 c.94.1.1 91397 1uqvA 85 7.11e+01 a.60.1.2 99798 2g9dA 350 7.21e+01 1vk0A 206 7.42e+01 c.55.3.5 100839 2anjA 263 7.44e+01 1idm 343 7.82e+01 1cnzA c.77.1.1 35035 1ta3B 303 7.97e+01 c.1.8.3 106732 1udzA 182 8.04e+01 b.51.1.1 99239 1p1oA 263 8.07e+01 c.94.1.1 87699 1jt8A 102 8.09e+01 b.40.4.5 63279 1wnyA 186 8.11e+01 1mqdA 261 8.20e+01 c.94.1.1 85049 1ipd 345 8.20e+01 1cnzA c.77.1.1 35038 1xaa 345 8.21e+01 1cnzA c.77.1.1 35033 1m5dA 263 8.30e+01 c.94.1.1 78641 1lbcA 263 8.31e+01 c.94.1.1 73805 1mqiA 263 8.32e+01 c.94.1.1 91398 1gc9A 345 8.32e+01 1cnzA c.77.1.1 35037 1g2uA 345 8.34e+01 1cnzA c.77.1.1 35036 1lbbA 263 8.35e+01 c.94.1.1 73804 1dr8A 344 8.40e+01 1cnzA c.77.1.1 35051 1osjA 345 8.41e+01 1cnzA c.77.1.1 35039 1dr0A 346 8.41e+01 1cnzA c.77.1.1 35045 1dpzA 349 8.45e+01 1cnzA c.77.1.1 35053 1gc8A 345 8.55e+01 1cnzA c.77.1.1 35042 1m2pA 325 8.55e+01 d.144.1.7 84758 1to0A 167 8.56e+01 c.116.1.3 107153 1wk8A 194 8.65e+01 1walA 345 8.66e+01 1cnzA c.77.1.1 35041 2ai4A 119 8.72e+01 1m2rA 327 8.81e+01 d.144.1.7 84760 1p1wA 263 8.92e+01 c.94.1.1 87713 1om1A 332 8.94e+01 d.144.1.7 93347