# 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.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 1.33e-02 1ncx a.39.1.5 17223 1ncx 162 1.90e-02 1ncx a.39.1.5 17222 1s29A 92 5.13e-02 unknown_sccs -315 2sas 185 2.24e-01 2sas a.39.1.5 17258 1e0cA 271 3.23e-01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1efyA 350 6.76e-01 1a26 a.41.1.1 17413 d.166.1.2 42275 1a26 361 6.89e-01 1a26 a.41.1.1 17412 d.166.1.2 42274 1ggzA 148 9.18e-01 a.39.1.5 70176 1f4qA 165 1.21e+00 1alvA a.39.1.8 17360 1ctdA 36 1.44e+00 1ctdA a.39.1.5 17230 1k94A 165 1.51e+00 a.39.1.8 68333 1p9kA 79 1.51e+00 unknown_sccs -10238 1knwA 425 1.71e+00 b.49.2.3 -4274 c.1.6.1 -5229 1oi7A 288 1.84e+00 c.2.1.8 87049 c.23.4.1 87050 1aerA 205 1.88e+00 1aerA d.166.1.1 42249 1auiB 169 1.89e+00 1auiB a.39.1.5 17325 1eg5A 384 2.32e+00 1ecxA c.67.1.3 34429 1ecxA 384 2.32e+00 1ecxA c.67.1.3 34431 1auiA 521 2.63e+00 1auiA d.159.1.3 42085 1n25A 368 3.06e+00 c.37.1.20 85264 1bmqB 88 3.27e+00 1pauB 1ibcB 88 3.40e+00 1pauB 1wdcC 156 3.83e+00 1wdcC a.39.1.5 17317 1cll 148 4.39e+00 1cll a.39.1.5 17263 1sc3B 88 4.67e+00 1g33A 73 4.97e+00 a.39.1.4 65121 1g4yR 148 5.17e+00 1cll a.39.1.5 60252 1avsA 90 5.46e+00 1cll a.39.1.5 17226 3cla 213 5.65e+00 3cla c.43.1.1 32610 1nxiA 132 6.41e+00 d.58.47.1 86381 1a4iA 301 6.78e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1gnlA 544 6.80e+00 e.26.1.1 70287 1i2aA 219 7.15e+00 e.24.1.1 -12012 1dmaA 214 7.42e+00 1aerA d.166.1.1 42251 1hqvA 191 7.47e+00 1hqvA a.39.1.8 61160 2cbf 234 7.54e+00 1cbf c.90.1.1 35588 1a99A 344 7.80e+00 1pot c.94.1.1 35812 1cbf 285 8.44e+00 1cbf c.90.1.1 35587 12asA 330 8.62e+00 12asA d.104.1.1 40783 3cln 148 8.84e+00 1cll a.39.1.5 17286 2polA 366 9.23e+00 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1wdcB 156 9.37e+00 1wdcB a.39.1.5 17302 1kk8B 139 9.38e+00 a.39.1.5 77430 1ls8A 142 9.42e+00 a.39.2.1 78176 1dqeA 137 9.70e+00 1dqeA a.39.2.1 17388 1j9jA 247 9.73e+00 c.106.1.1 62758 1mmiA 366 1.01e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1a4iB 301 1.02e+01 1a4iA c.2.1.7 30279 c.58.1.2 33927 1dqgA 135 1.04e+01 1dqgA b.42.2.2 25579 1ok7A 366 1.05e+01 1j2gA 319 1.05e+01 1diaA 306 1.11e+01 1a4iA c.2.1.7 30280 c.58.1.2 33928 1brlA 355 1.18e+01 1lucA c.1.16.1 29553 1cr5A 189 1.18e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1k4iA 233 1.19e+01 d.115.1.2 72056 1ponA 36 1.19e+01 1ponA a.39.1.5 17239 1q0uA 219 1.24e+01 c.37.1.19 -7205 1kgdA 180 1.27e+01 c.37.1.1 68582 1fwuA 134 1.30e+01 1dqgA b.42.2.2 25580 1dt9A 437 1.32e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1mdc 133 1.37e+01 1hmt b.60.1.2 27198 1nhkL 144 1.38e+01 1npk d.58.6.1 39142 1zac 90 1.42e+01 1ncx a.39.1.5 17236 1exrA 148 1.48e+01 1cll a.39.1.5 17299 1scmB 145 1.52e+01 1wdcB a.39.1.5 17304 1hwwA 1015 1.56e+01 a.8.3.1 83067 b.30.5.6 83068 c.6.2.1 83069 1cjsA 219 1.56e+01 1cjsA e.24.1.1 43354 1osa 148 1.57e+01 1cll a.39.1.5 17300 1qwnA 1045 1.61e+01 a.8.3.1 -414 b.30.5.6 -3517 c.6.2.1 -6058 1nmeB 92 1.62e+01 1rwyA 109 1.65e+01 a.39.1.4 -825 1jdfA 447 1.66e+01 c.1.11.2 62897 d.54.1.1 62898 1iynA 295 1.67e+01 a.93.1.1 -1244 1s1iF 162 1.69e+01 1kfwA 435 1.70e+01 c.1.8.5 77376 d.26.3.1 77377 1npyA 271 1.71e+01 c.2.1.7 85995 c.58.1.5 85996 3icb 75 1.72e+01 4icb a.39.1.1 17147 2mysB 166 1.80e+01 1wdcB a.39.1.5 17308 1din 236 1.89e+01 1din c.69.1.9 34682 1pauB 102 1.95e+01 1pauB 1g8mA 593 2.08e+01 1g8mA c.24.1.3 60371 c.97.2.1 60372 1q41A 424 2.11e+01 d.144.1.7 -11308 1htyA 1015 2.11e+01 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1hxkA 1015 2.11e+01 a.8.3.1 83070 b.30.5.6 83071 c.6.2.1 83072 1rv3A 483 2.16e+01 1pylA 97 2.27e+01 1a75A 108 2.27e+01 1a75A a.39.1.4 17216 1m9nA 613 2.34e+01 c.24.1.3 78870 c.97.2.1 78871 1fsz 372 2.39e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1s6cA 183 2.41e+01 a.39.1.5 -858 1bj4A 470 2.45e+01 1bj4A c.67.1.4 34479 1lucA 355 2.48e+01 1lucA c.1.16.1 29547 1d2iA 223 2.58e+01 1d2iA c.52.1.5 33297 1dfmA 223 2.58e+01 1d2iA c.52.1.5 33295 1eh2 106 2.66e+01 1eh2 a.39.1.6 17339 1k9uA 78 2.67e+01 a.39.1.10 84348 1ht9A 76 2.68e+01 4icb a.39.1.1 61252 1smrA 335 2.71e+01 1smrA b.50.1.2 26878 1ggwA 140 2.72e+01 1ggwA a.39.1.5 60490 5gcnA 166 2.79e+01 1yghA d.108.1.1 40807 1fgs 428 2.85e+01 1fgs c.59.1.2 33959 c.72.2.2 34962 1hkyA 86 2.86e+01 g.10.1.3 76714 1g57A 217 2.89e+01 1g57A d.115.1.2 60253 1qtnB 95 2.89e+01 1pauB 1qo7A 394 2.90e+01 1qo7A c.69.1.11 34697 1vi2A 300 2.92e+01 c.2.1.7 -5960 c.58.1.5 -6366 1o94A 729 2.98e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 2olbA 517 3.08e+01 1jevA c.94.1.1 35721 1jetA 517 3.14e+01 1jevA c.94.1.1 35718 1jevA 517 3.15e+01 1jevA c.94.1.1 35720 1hp0A 339 3.28e+01 c.70.1.1 65900 1f47B 144 3.30e+01 1f46A d.129.4.1 59645 1bt0A 76 3.32e+01 1ubi d.15.1.1 37607 1hozA 339 3.40e+01 c.70.1.1 65898 1ggvA 232 3.41e+01 1din c.69.1.9 34683 1o1fC 147 3.49e+01 i.15.1.1 80997 1wdnA 226 3.55e+01 1lst c.94.1.1 35816 1ddgA 374 3.56e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1ctaA 36 3.64e+01 1ctdA a.39.1.5 17232 1on2A 142 3.66e+01 a.4.5.24 87103 a.76.1.1 87104 1m1nA 491 3.66e+01 c.92.2.3 78417 1npdA 288 3.73e+01 c.2.1.7 80681 c.58.1.5 80682 1m46A 148 3.73e+01 a.39.1.5 78599 1f46A 140 3.85e+01 1f46A d.129.4.1 59643 1j9lA 247 3.88e+01 c.106.1.1 62762 2pvbA 107 3.95e+01 1a75A a.39.1.4 17205