# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 2.22e-03 1ncx a.39.1.5 17223 1ncx 162 3.79e-03 1ncx a.39.1.5 17222 1s29A 92 2.36e-02 unknown_sccs -315 2sas 185 1.25e-01 2sas a.39.1.5 17258 1ecxA 384 2.33e-01 1ecxA c.67.1.3 34431 1ggzA 148 2.76e-01 a.39.1.5 70176 1eg5A 384 2.79e-01 1ecxA c.67.1.3 34429 1e0cA 271 3.34e-01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1ctdA 36 4.08e-01 1ctdA a.39.1.5 17230 1aerA 205 4.64e-01 1aerA d.166.1.1 42249 1f4qA 165 4.99e-01 1alvA a.39.1.8 17360 1oi7A 288 5.74e-01 c.2.1.8 87049 c.23.4.1 87050 1wdcC 156 6.12e-01 1wdcC a.39.1.5 17317 1auiB 169 9.63e-01 1auiB a.39.1.5 17325 1k94A 165 9.68e-01 a.39.1.8 68333 1gnlA 544 1.01e+00 e.26.1.1 70287 1a4iA 301 1.10e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1n25A 368 1.11e+00 c.37.1.20 85264 1avsA 90 1.16e+00 1cll a.39.1.5 17226 1a26 361 1.23e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 2mysB 166 1.24e+00 1wdcB a.39.1.5 17308 1auiA 521 1.29e+00 1auiA d.159.1.3 42085 1efyA 350 1.43e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1nxiA 132 1.73e+00 d.58.47.1 86381 1scmB 145 1.74e+00 1wdcB a.39.1.5 17304 1diaA 306 1.83e+00 1a4iA c.2.1.7 30280 c.58.1.2 33928 1mdc 133 1.85e+00 1hmt b.60.1.2 27198 2cbf 234 1.87e+00 1cbf c.90.1.1 35588 1a4iB 301 1.88e+00 1a4iA c.2.1.7 30279 c.58.1.2 33927 1cbf 285 2.09e+00 1cbf c.90.1.1 35587 1ponA 36 2.18e+00 1ponA a.39.1.5 17239 1q0uA 219 2.22e+00 c.37.1.19 -7205 1nt4A 391 2.24e+00 c.60.1.2 -7942 1cjsA 219 2.25e+00 1cjsA e.24.1.1 43354 1i2aA 219 2.26e+00 e.24.1.1 -12012 1cll 148 2.52e+00 1cll a.39.1.5 17263 1j9jA 247 2.64e+00 c.106.1.1 62758 1kk8B 139 2.68e+00 a.39.1.5 77430 1kgdA 180 2.91e+00 c.37.1.1 68582 1dqeA 137 2.94e+00 1dqeA a.39.2.1 17388 1g4yR 148 2.96e+00 1cll a.39.1.5 60252 3cln 148 3.09e+00 1cll a.39.1.5 17286 1mmiA 366 3.34e+00 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1m45A 148 3.59e+00 a.39.1.5 78598 1dmaA 214 3.62e+00 1aerA d.166.1.1 42251 1p9kA 79 3.78e+00 unknown_sccs -10238 1fezA 256 3.79e+00 1fezA c.108.1.3 43343 1cr5A 189 4.09e+00 1cr5A b.52.2.3 26931 d.31.1.1 38465 1wm1A 317 4.13e+00 1qtrA 317 4.19e+00 1qtrA c.69.1.7 34660 1q15A 503 4.20e+00 c.26.2.1 -6625 d.153.1.1 -11400 1npdA 288 4.23e+00 c.2.1.7 80681 c.58.1.5 80682 1qo7A 394 4.27e+00 1qo7A c.69.1.11 34697 1rqlA 267 4.56e+00 c.108.1.3 -6814 1g33A 73 4.70e+00 a.39.1.4 65121 1vi2A 300 4.71e+00 c.2.1.7 -5960 c.58.1.5 -6366 1on2A 142 4.83e+00 a.4.5.24 87103 a.76.1.1 87104 1a99A 344 4.87e+00 1pot c.94.1.1 35812 1gs5A 258 4.95e+00 c.73.1.2 70395 1ok7A 366 5.10e+00 1din 236 5.11e+00 1din c.69.1.9 34682 1ls8A 142 5.18e+00 a.39.2.1 78176 1rwyA 109 5.20e+00 a.39.1.4 -825 1ggvA 232 5.26e+00 1din c.69.1.9 34683 1zac 90 5.36e+00 1ncx a.39.1.5 17236 2polA 366 5.58e+00 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1k9uA 78 6.09e+00 a.39.1.10 84348 1rv3A 483 6.44e+00 1sc3B 88 6.59e+00 1bmqB 88 6.71e+00 1pauB 1a7w 69 6.80e+00 1a7w a.22.1.2 16477 1lucA 355 7.11e+00 1lucA c.1.16.1 29547 1ctaA 36 7.11e+00 1ctdA a.39.1.5 17232 3cla 213 7.39e+00 3cla c.43.1.1 32610 1ibcB 88 7.41e+00 1pauB 1eh2 106 7.66e+00 1eh2 a.39.1.6 17339 1wdcB 156 7.93e+00 1wdcB a.39.1.5 17302 1bj4A 470 8.66e+00 1bj4A c.67.1.4 34479 1j9lA 247 9.00e+00 c.106.1.1 62762 1m46A 148 9.43e+00 a.39.1.5 78599 1bfmA 69 1.02e+01 1a7w a.22.1.2 16479 1htyA 1015 1.03e+01 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1hwwA 1015 1.04e+01 a.8.3.1 83067 b.30.5.6 83068 c.6.2.1 83069 1hxkA 1015 1.04e+01 a.8.3.1 83070 b.30.5.6 83071 c.6.2.1 83072 1o1fC 147 1.04e+01 i.15.1.1 80997 1ggwA 140 1.06e+01 1ggwA a.39.1.5 60490 1sedA 117 1.06e+01 1b5fA 239 1.06e+01 1smrA b.50.1.2 26836 1fsz 372 1.07e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1i1nA 226 1.10e+01 c.66.1.7 71102 1j2gA 319 1.15e+01 1c7gA 456 1.16e+01 c.67.1.2 -8153 1g57A 217 1.22e+01 1g57A d.115.1.2 60253 1dt9A 437 1.22e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 2pvbA 107 1.23e+01 1a75A a.39.1.4 17205 1nhkL 144 1.26e+01 1npk d.58.6.1 39142 1osa 148 1.26e+01 1cll a.39.1.5 17300 1m9nA 613 1.26e+01 c.24.1.3 78870 c.97.2.1 78871 1hqvA 191 1.28e+01 1hqvA a.39.1.8 61160 1qwnA 1045 1.30e+01 a.8.3.1 -414 b.30.5.6 -3517 c.6.2.1 -6058 1ej3A 191 1.33e+01 1ej3A a.39.1.5 17259 1bllE 488 1.34e+01 1lam c.56.5.3 33833 c.50.1.1 33170 1exrA 148 1.40e+01 1cll a.39.1.5 17299 1pal 108 1.41e+01 1a75A a.39.1.4 17209 1knwA 425 1.43e+01 b.49.2.3 -4274 c.1.6.1 -5229 1k4iA 233 1.44e+01 d.115.1.2 72056 5gcnA 166 1.45e+01 1yghA d.108.1.1 40807 1t5hX 504 1.46e+01 1s6cA 183 1.55e+01 a.39.1.5 -858 1f47B 144 1.55e+01 1f46A d.129.4.1 59645 1iynA 295 1.60e+01 a.93.1.1 -1244 2xis 387 1.61e+01 4xis c.1.15.3 29427 1fp4A 492 1.61e+01 c.92.2.3 76187 1aozA 552 1.67e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1br1B 150 1.67e+01 1wdcC a.39.1.5 17309 1eq9A 222 1.68e+01 5ptp b.47.1.2 26068 1uzxA 169 1.68e+01 d.20.1.2 -9409 1k1gA 131 1.69e+01 d.51.1.1 68015 1gosA 520 1.72e+01 c.3.1.2 65425 d.16.1.5 65426 1jevA 517 1.73e+01 1jevA c.94.1.1 35720 1s3eA 520 1.76e+01 c.3.1.2 -6022 d.16.1.5 -9242 1lam 484 1.77e+01 1lam c.56.5.3 33829 c.50.1.1 33166 1s96A 219 1.78e+01 c.37.1.1 -6972 4pep 326 1.80e+01 1smrA b.50.1.2 26843 1el4A 195 1.80e+01 1ej3A a.39.1.5 59453 1iq3A 110 1.83e+01 1iq3A a.39.1.6 62640 2olbA 517 1.84e+01 1jevA c.94.1.1 35721 1g8mA 593 1.86e+01 1g8mA c.24.1.3 60371 c.97.2.1 60372 1n0xL 215 1.88e+01 b.1.1.1 -2063 b.1.1.2 -2429 1ig5A 75 1.90e+01 4icb a.39.1.1 62363 1ge8A 249 1.90e+01 1plq d.131.1.2 41398 d.131.1.2 41399 1kr5A 226 1.91e+01 c.66.1.7 68847 1fgs 428 1.93e+01 1fgs c.59.1.2 33959 c.72.2.2 34962 1qcsA 211 1.93e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1ojaA 520 1.96e+01 c.3.1.2 -6000 d.16.1.5 -9220 1iybA 208 1.97e+01 d.124.1.1 -10977 1f46A 140 1.99e+01 1f46A d.129.4.1 59643 1fdr 248 2.02e+01 1fdr b.43.4.2 25653 c.25.1.1 31543 1wdnA 226 2.05e+01 1lst c.94.1.1 35816 1ht9A 76 2.05e+01 4icb a.39.1.1 61252 1d5rA 324 2.08e+01 1d5rA b.7.1.1 23181 c.45.1.1 32697 1plzA 189 2.08e+01 b.82.1.7 88160 1a75A 108 2.09e+01 1a75A a.39.1.4 17216 1dqgA 135 2.09e+01 1dqgA b.42.2.2 25579 1ku1A 230 2.12e+01 a.118.3.1 72996 1ddgA 374 2.15e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1qxrA 189 2.19e+01 b.82.1.7 -4834 1iz5A 249 2.28e+01 d.131.1.2 83834 d.131.1.2 83835 1jv4A 162 2.28e+01 b.60.1.1 67343 1oi2A 366 2.40e+01 c.32.1.2 87039 d.79.2.2 87040 1ex7A 186 2.41e+01 1gky c.37.1.1 59537 1jf2A 195 2.42e+01 1ej3A a.39.1.5 62930 1i06A 180 2.46e+01 1mup b.60.1.1 27131 1ef1A 294 2.48e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1i05A 180 2.48e+01 1mup b.60.1.1 27130 2fokA 579 2.48e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1mzbA 136 2.52e+01 unknown_sccs -266 4cpv 109 2.55e+01 1a75A a.39.1.4 17198 1ew3A 159 2.58e+01 1mup b.60.1.1 27114 1qavB 115 2.59e+01 1qauA b.36.1.1 24780 1p57B 255 2.61e+01 b.47.1.2 -4248 1ly1A 181 2.61e+01 c.37.1.1 74334 1dk4A 252 2.62e+01 1dk4A e.7.1.1 42970 1cdp 109 2.63e+01 1a75A a.39.1.4 17197 1lap 488 2.64e+01 1lam c.56.5.3 33834 c.50.1.1 33171 1qstA 160 2.65e+01 1yghA d.108.1.1 40804 1npyA 271 2.71e+01 c.2.1.7 85995 c.58.1.5 85996 3psg 370 2.73e+01 1smrA b.50.1.2 26841 1l1qA 186 2.79e+01 c.61.1.1 77653 1fwuA 134 2.81e+01 1dqgA b.42.2.2 25580 1vjqA 79 2.83e+01 unknown_sccs -13478 4matA 278 2.84e+01 1c24A d.127.1.1 41150 1mat 264 2.92e+01 1c24A d.127.1.1 41152 1g2iA 166 2.93e+01 1g2iA c.23.16.2 31438 1tljA 213 2.94e+01 1p0iA 529 2.97e+01 c.69.1.1 -8291 1sbxA 106 2.97e+01 1s1qA 145 2.99e+01 d.20.1.2 -9405 1gw9A 388 3.00e+01 c.1.15.3 70658 2matA 264 3.00e+01 1c24A d.127.1.1 41146 1bd3A 243 3.07e+01 1bd3A c.61.1.1 34098 1paz 123 3.08e+01 1bqk b.6.1.1 22878 1vk1A 242 3.10e+01 1g8iA 190 3.15e+01 1rec a.39.1.5 60363 5pal 109 3.17e+01 1a75A a.39.1.4 17215 1gntA 553 3.20e+01 e.26.1.1 70290 1e2uA 553 3.20e+01 1e1dA e.26.1.1 43362 1r9cA 139 3.22e+01 d.32.1.2 -9557 1c24A 263 3.23e+01 1c24A d.127.1.1 41148 1rfzA 168 3.24e+01 unknown_sccs -1206 1qy1A 174 3.30e+01 b.60.1.1 -4445 1pvaA 110 3.36e+01 1a75A a.39.1.4 17207 1mg7A 417 3.37e+01 d.14.1.6 84954 d.58.26.6 84955 1ltqA 301 3.41e+01 c.108.1.9 78208 c.37.1.1 78209 1bt0A 76 3.42e+01 1ubi d.15.1.1 37607 1f7wA 144 3.43e+01 1f46A d.129.4.1 59679 1mcvI 28 3.46e+01 g.3.2.1 78951 1cf9A 753 3.46e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1kdj 102 3.48e+01 1plc b.6.1.1 22864 1jbgA 109 3.49e+01 a.6.1.3 66480 1e1dA 553 3.50e+01 1e1dA e.26.1.1 43363 1pqhA 143 3.53e+01 b.52.2.1 -4318 1d2iA 223 3.61e+01 1d2iA c.52.1.5 33297 1pk9A 237 3.63e+01 c.56.2.1 -7734 1i7dA 659 3.65e+01 1d6mA e.10.1.1 61886 2tmdA 729 3.66e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1m1nA 491 3.81e+01 c.92.2.3 78417 1ffkB 338 3.83e+01 1ffkB b.43.3.2 25719 1h65A 270 3.84e+01 c.37.1.8 65640 1dfmA 223 3.90e+01 1d2iA c.52.1.5 33295 1djnA 729 3.94e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1bxyA 60 3.99e+01 1bxyA d.59.1.1 39525