# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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.soe.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 1jtgB 165 2.55e-07 d.98.1.1 67267 2g2uB 165 2.55e-07 d.98.1.1 134541 1wdvA 152 2.15e-01 d.116.1.1 114539 2h36X 112 2.73e-01 2oajA 902 2.85e+00 1ucrA 78 3.02e+00 a.4.5.45 99188 2j3mA 572 3.61e+00 2i0oA 304 3.93e+00 1zh5A 195 4.23e+00 a.4.5.46 125073 d.58.7.1 125074 2grvA 621 4.86e+00 1h6vA 499 5.34e+00 3grs c.3.1.5 60693 c.3.1.5 60694 d.87.1.1 60695 1gweA 503 6.34e+00 e.5.1.1 70667 1hbzA 498 6.83e+00 1cf9A e.5.1.1 60937 1ui7A 638 7.74e+00 b.30.2.1 99413 d.17.2.1 99414 d.17.2.1 99415 1j3wA 163 8.39e+00 d.110.7.1 90833 2afbA 351 8.60e+00 c.72.1.1 126674 2cw9A 194 8.64e+00 d.17.4.13 130920 2j8qA 227 8.91e+00 2amyA 246 9.60e+00 c.108.1.10 127026 2pbiB 354 1.05e+01 2oseA 234 1.05e+01 2c9wA 169 1.17e+01 1a99A 344 1.25e+01 1pot c.94.1.1 35812 2iorA 235 1.30e+01 2g17A 337 1.31e+01 c.2.1.3 134512 d.81.1.1 134513 1ywuA 149 1.32e+01 b.45.2.1 124164 2b0vA 153 1.34e+01 d.113.1.1 127650 1vcoA 550 1.35e+01 c.23.16.1 108508 c.37.1.10 108509 2bjfA 329 1.40e+01 2p36A 335 1.45e+01 2z0xA 158 1.47e+01 3bhoA 208 1.57e+01 2fgtA 417 1.57e+01 1b1gA 75 1.57e+01 1psrA a.39.1.1 17151 1b8aA 438 1.60e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1zckA 154 1.60e+01 2cx5A 158 1.63e+01 2gx9A 129 1.67e+01 d.299.1.1 135828 1pn2A 280 1.72e+01 d.38.1.4 94930 d.38.1.4 94931 2glcA 342 1.76e+01 2odiA 238 1.85e+01 2h8gA 267 1.94e+01 1h65A 270 1.97e+01 c.37.1.8 65640 2isbA 192 2.06e+01 c.8.9.1 137601 2c2aA 258 2.09e+01 a.30.2.1 129662 d.122.1.3 129663 2g6yA 217 2.25e+01 1j7jA 178 2.29e+01 c.61.1.1 84131 1hlcA 129 2.29e+01 1c1lA b.29.1.3 24208 2yvdA 431 2.30e+01 1ikpA 613 2.41e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 2gjsA 176 2.41e+01 c.37.1.8 135287 1rxdA 159 2.44e+01 c.45.1.1 111959 1r4aA 165 2.49e+01 c.37.1.8 96986 2gmqA 118 2.51e+01 1zghA 260 2.53e+01 b.46.1.1 125028 c.65.1.1 125029 2nvmA 126 2.65e+01 d.326.1.1 138631 1aapA 58 2.68e+01 1bpi g.8.1.1 44543 1g99A 408 2.70e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 2g09A 297 2.72e+01 1tg7A 971 2.79e+01 b.149.1.1 112418 b.18.1.27 112419 b.18.1.27 112420 b.71.1.5 112421 c.1.8.14 112422 2q7eA 291 2.80e+01 3bw8A 217 2.80e+01 2dkfA 431 2.81e+01 1konA 249 2.95e+01 e.39.1.1 72823 2oiwA 136 2.98e+01 1on3A 523 3.05e+01 c.14.1.4 87107 c.14.1.4 87108 1c0pA 363 3.06e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1qnaA 200 3.12e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 2dekA 265 3.16e+01 c.90.1.1 131430 1ys1X 320 3.17e+01 1jl0A 334 3.19e+01 1jenA d.156.1.1 63155 1nox 205 3.23e+01 1nox 1noxA 205 3.23e+01 d.90.1.1 40242 1plq 258 3.33e+01 1plq 1plqA 258 3.33e+01 d.131.1.2 41388 d.131.1.2 41389 2c60A 111 3.33e+01 d.15.2.2 129966 1yn3A 98 3.41e+01 1hzgA 295 3.46e+01 1hzgA d.194.1.1 61436 2zceA 291 3.47e+01 1zkiA 133 3.47e+01 d.38.1.5 125199 2a50B 168 3.57e+01 1vjnA 220 3.63e+01 d.157.1.4 100825 2fuvA 549 3.68e+01 1txdA 385 3.69e+01 a.87.1.1 107422 b.55.1.1 107423 2o35A 105 3.69e+01 2dpxA 174 3.69e+01 1ztcA 221 3.81e+01 d.157.1.11 125635 1ta8A 332 3.86e+01 d.142.2.2 112375 2fziA 206 3.88e+01 c.71.1.1 134448 1v5rA 97 3.93e+01 d.82.4.1 119854 1d3uA 181 3.96e+01 1ytbA d.129.1.1 41290 d.129.1.1 41291