# List of top-scoring protein chains for t04-100-30-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.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 1top 162 8.69e-02 1ncx a.39.1.5 17223 1s29A 92 3.66e-01 unknown_sccs -315 2sas 185 7.34e-01 2sas a.39.1.5 17258 1e0cA 271 1.10e+00 1e0cA c.46.1.2 32717 c.46.1.2 32718 1efyA 350 1.32e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1ggzA 148 1.72e+00 a.39.1.5 70176 1p9kA 79 2.60e+00 unknown_sccs -10238 1cbf 285 2.68e+00 1cbf c.90.1.1 35587 1oi7A 288 3.44e+00 c.2.1.8 87049 c.23.4.1 87050 1f4qA 165 3.63e+00 1alvA a.39.1.8 17360 1k4iA 233 3.64e+00 d.115.1.2 72056 1gnlA 544 3.90e+00 e.26.1.1 70287 3cla 213 4.23e+00 3cla c.43.1.1 32610 1k94A 165 4.64e+00 a.39.1.8 68333 1dt9A 437 4.80e+00 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1i2aA 219 4.95e+00 e.24.1.1 -12012 1bmqB 88 5.73e+00 1pauB 1sc3B 88 6.14e+00 1knwA 425 6.18e+00 b.49.2.3 -4274 c.1.6.1 -5229 1n0wA 243 7.18e+00 c.37.1.11 79772 1auiB 169 7.29e+00 1auiB a.39.1.5 17325 1aerA 205 7.50e+00 1aerA d.166.1.1 42249 1p42A 270 9.01e+00 d.14.1.7 87754 d.14.1.7 87755 1j3wA 163 9.90e+00 unknown_sccs -10870 1f6yA 262 9.94e+00 1f6yA c.1.21.2 29673 1dqeA 137 1.03e+01 1dqeA a.39.2.1 17388 2polA 366 1.06e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1eg5A 384 1.06e+01 1ecxA c.67.1.3 34429 1avsA 90 1.09e+01 1cll a.39.1.5 17226 1qtrA 317 1.09e+01 1qtrA c.69.1.7 34660 1g57A 217 1.09e+01 1g57A d.115.1.2 60253 1auiA 521 1.10e+01 1auiA d.159.1.3 42085 1m2xA 223 1.13e+01 d.157.1.1 84764 1j2gA 319 1.17e+01 1mmiA 366 1.21e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1nxiA 132 1.26e+01 d.58.47.1 86381 1g4yR 148 1.27e+01 1cll a.39.1.5 60252 1n25A 368 1.29e+01 c.37.1.20 85264 1ok7A 366 1.30e+01 1exrA 148 1.31e+01 1cll a.39.1.5 17299 1wdnA 226 1.41e+01 1lst c.94.1.1 35816 1mdc 133 1.53e+01 1hmt b.60.1.2 27198 1wm1A 317 1.69e+01 1dqgA 135 1.76e+01 1dqgA b.42.2.2 25579 1nt4A 391 1.79e+01 c.60.1.2 -7942 1cr5A 189 1.83e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1q0uA 219 1.87e+01 c.37.1.19 -7205 1vk1A 242 1.94e+01 1wdcB 156 1.99e+01 1wdcB a.39.1.5 17302 1gmxA 108 2.02e+01 c.46.1.3 65355 1iyeA 309 2.04e+01 e.17.1.1 83786 1i1kA 309 2.12e+01 1daaA e.17.1.1 61533 1aozA 552 2.38e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1f02T 66 2.53e+01 1f02T j.67.1.1 46360 1lucA 355 2.56e+01 1lucA c.1.16.1 29547 1nbwB 117 2.63e+01 c.51.3.2 80396 1pylA 97 2.85e+01 1b5fA 239 3.00e+01 1smrA b.50.1.2 26836 1kk8B 139 3.01e+01 a.39.1.5 77430 1a99A 344 3.16e+01 1pot c.94.1.1 35812 1bt0A 76 3.22e+01 1ubi d.15.1.1 37607 1vi2A 300 3.30e+01 c.2.1.7 -5960 c.58.1.5 -6366 1e6yB 433 3.37e+01 1mroB a.89.1.1 18535 d.58.31.2 39453 1nmeB 92 3.40e+01 1a4iA 301 3.42e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1kgdA 180 3.44e+01 c.37.1.1 68582 1jv4A 162 3.47e+01 b.60.1.1 67343 1iybA 208 3.51e+01 d.124.1.1 -10977 1fkx 349 3.53e+01 1a4mA c.1.9.1 29018 1f46A 140 3.54e+01 1f46A d.129.4.1 59643 1i06A 180 3.60e+01 1mup b.60.1.1 27131 1hd2A 161 3.61e+01 c.47.1.10 60962 1ec7A 446 3.65e+01 1bqg c.1.11.2 29218 d.54.1.1 38862 1k9uA 78 3.69e+01 a.39.1.10 84348 1i05A 180 3.69e+01 1mup b.60.1.1 27130 1a4mA 349 3.73e+01 1a4mA c.1.9.1 29014 1nhkL 144 3.82e+01 1npk d.58.6.1 39142 1et0A 269 3.88e+01 1et0A e.17.1.1 43289 1f89A 291 3.88e+01 d.160.1.1 64988 1t5hX 504 4.00e+01