# List of top-scoring protein chains for T0235.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 1oivA 191 2.55e+00 c.37.1.8 -7074 1oiwA 191 3.38e+00 c.37.1.8 -7076 1lujB 75 3.54e+00 a.161.1.1 78226 1m1eB 81 4.40e+00 a.161.1.1 78400 1aotF 106 4.91e+00 1lckA d.93.1.1 40458 1nmmA 123 5.56e+00 d.2.1.2 80661 1o7lA 262 6.75e+00 a.4.5.8 81147 b.40.6.2 81148 b.40.6.2 81149 1b9mA 265 6.77e+00 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1g83A 165 7.59e+00 1fmk b.34.2.1 60341 d.93.1.1 60342 1l9uD 1524 8.10e+00 i.8.1.1 73751 1kgyE 138 8.45e+00 b.6.1.5 72453 1i6vD 1264 9.65e+00 e.29.1.2 61857 1gpmA 525 9.75e+00 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1snnA 227 9.95e+00 1pvwA 227 1.01e+01 d.115.1.2 -10934 1ikoP 178 1.04e+01 b.6.1.5 71243 1hqmD 1265 1.09e+01 i.8.1.1 45975 1m4xA 413 1.48e+01 i.6.1.1 78627 1m3yA 413 1.53e+01 b.121.2.3 78579 b.121.2.3 78580 1kxrA 339 1.56e+01 d.3.1.3 73175 1j5qA 437 1.60e+01 b.121.2.3 77084 b.121.2.3 77085 1dd3A 128 1.87e+01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1hlb 158 2.07e+01 1hlb a.1.1.2 15625 1qxpA 900 2.08e+01 a.39.1.8 -861 a.39.1.8 -870 b.14.1.1 -3041 d.3.1.3 -8887 1bo0A 76 2.09e+01 2alr 324 2.10e+01 1frb c.1.7.1 28679 1sk4A 163 2.10e+01 1nx8A 273 2.14e+01 b.82.2.8 86374 1sk3A 165 2.15e+01 2hbg 147 2.20e+01 2hbg a.1.1.2 15014 1tiqA 180 2.20e+01 1aye 401 2.22e+01 1aye c.56.5.1 33824 d.58.3.1 39065 1j79A 347 2.27e+01 1j79A c.1.9.4 62675 1d2sA 170 2.31e+01 1d2sA b.29.1.4 24221 1b6q 63 2.41e+01 1nkd a.30.1.1 16977 1nnqA 171 2.43e+01 a.25.1.1 -646 g.41.5.1 -12786 1p2fA 220 2.47e+01 a.4.6.1 87720 c.23.1.1 87721 1jdqA 98 2.56e+01 d.68.3.3 66559 1qqdA 273 2.57e+01 1agdA b.1.1.2 20769 d.19.1.1 38274 1im9A 276 2.60e+01 1agdA b.1.1.2 62582 d.19.1.1 62583 1qxnA 137 2.60e+01 c.46.1.3 -7363 1nfiE 213 2.67e+01 1iknD d.211.1.1 19172 1jf4A 147 2.67e+01 a.1.1.2 71643 1qzqA 483 2.69e+01 d.136.1.3 -11148 d.136.1.3 -11149 1fw4A 71 2.72e+01 1cll a.39.1.5 60056 1jy1A 464 2.72e+01 d.136.1.3 67438 d.136.1.3 67439 1cmf 73 2.75e+01 1cll a.39.1.5 17283 1b4m 134 2.76e+01 1hmt b.60.1.2 27222 1opbA 135 2.78e+01 1hmt b.60.1.2 27216 1rffA 485 2.80e+01 d.136.1.3 -11120 d.136.1.3 -11121 1aol 228 2.81e+01 1aol b.20.1.1 23840 1nekB 238 2.84e+01 a.1.2.1 80429 d.15.4.2 80430 1jkgB 250 2.85e+01 d.17.4.2 66796 2cro 71 2.93e+01 1r69 a.35.1.2 17038 5nul 138 3.02e+01 5nul c.23.5.1 31191 1f71A 67 3.04e+01 1wdcC a.39.1.5 17289 1fpoA 171 3.04e+01 1fpoA a.2.3.1 15693 a.23.1.1 16487 1efxA 278 3.05e+01 1agdA b.1.1.2 20767 d.19.1.1 38273 3hck 107 3.08e+01 1lckA d.93.1.1 40495 1mq0A 140 3.16e+01 c.97.1.1 -8770 1owlA 484 3.18e+01 a.99.1.1 -1296 c.28.1.1 -6646 1iknD 236 3.28e+01 1iknD d.211.1.1 19171 1jweA 114 3.34e+01 1b79A a.81.1.1 18455 1g7dA 106 3.38e+01 1g7dA a.71.1.1 18318 1b79A 119 3.40e+01 1b79A a.81.1.1 18451 1a5t 334 3.82e+01 1a5t a.80.1.1 18450 c.37.1.20 32423 1b47A 304 3.89e+01 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1hqtA 326 3.90e+01 1frb c.1.7.1 61156 2cblA 305 3.91e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1cwn 324 3.97e+01 1frb c.1.7.1 28686 1ae4 325 3.97e+01 1frb c.1.7.1 28689