# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1ncx 162 2.82e-03 1ncx a.39.1.5 17222 1top 162 2.82e-03 1ncx a.39.1.5 17223 1s29A 92 9.36e-02 unknown_sccs -315 1ggzA 148 2.94e-01 a.39.1.5 70176 1e0cA 271 3.35e-01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1ctdA 36 4.98e-01 1ctdA a.39.1.5 17230 1a26 361 7.19e-01 1a26 a.41.1.1 17412 d.166.1.2 42274 1k94A 165 8.73e-01 a.39.1.8 68333 2sas 185 9.44e-01 2sas a.39.1.5 17258 1wdcC 156 9.77e-01 1wdcC a.39.1.5 17317 1auiB 169 1.10e+00 1auiB a.39.1.5 17325 1efyA 350 1.12e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1ponA 36 1.35e+00 1ponA a.39.1.5 17239 1f4qA 165 1.41e+00 1alvA a.39.1.8 17360 1aerA 205 1.43e+00 1aerA d.166.1.1 42249 1ctaA 36 1.47e+00 1ctdA a.39.1.5 17232 1f6yA 262 1.67e+00 1f6yA c.1.21.2 29673 1mu5A 471 1.67e+00 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1gnlA 544 1.70e+00 e.26.1.1 70287 1wdcB 156 1.93e+00 1wdcB a.39.1.5 17302 1zac 90 2.22e+00 1ncx a.39.1.5 17236 1rvv1 154 2.29e+00 1rvv1 1rvvA 154 2.29e+00 1rvv1 c.16.1.1 30927 1nf2A 268 2.54e+00 c.108.1.10 -6842 2mysB 166 2.56e+00 1wdcB a.39.1.5 17308 1avsA 90 2.83e+00 1cll a.39.1.5 17226 1s6cA 183 2.84e+00 a.39.1.5 -858 1a7w 69 2.94e+00 1a7w a.22.1.2 16477 1kxqE 120 3.00e+00 b.1.1.1 73171 1k9uA 78 3.03e+00 a.39.1.10 84348 3ullA 132 3.07e+00 3ullA b.40.4.3 25282 1f47B 144 3.15e+00 1f46A d.129.4.1 59645 1g4yR 148 3.21e+00 1cll a.39.1.5 60252 1kk8B 139 3.22e+00 a.39.1.5 77430 1f46A 140 3.42e+00 1f46A d.129.4.1 59643 1n25A 368 3.44e+00 c.37.1.20 85264 1g8mA 593 3.58e+00 1g8mA c.24.1.3 60371 c.97.2.1 60372 1m9nA 613 3.66e+00 c.24.1.3 78870 c.97.2.1 78871 1f7wA 144 3.70e+00 1f46A d.129.4.1 59679 1kgdA 180 3.79e+00 c.37.1.1 68582 1bfmA 69 4.00e+00 1a7w a.22.1.2 16479 1dmaA 214 4.32e+00 1aerA d.166.1.1 42251 1hfuA 503 4.64e+00 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1fp4A 492 4.84e+00 c.92.2.3 76187 1qwnA 1045 5.06e+00 a.8.3.1 -414 b.30.5.6 -3517 c.6.2.1 -6058 1nuuA 252 5.15e+00 c.26.1.3 86209 1a75A 108 5.30e+00 1a75A a.39.1.4 17216 1scmB 145 5.45e+00 1wdcB a.39.1.5 17304 1a4iB 301 5.64e+00 1a4iA c.2.1.7 30279 c.58.1.2 33927 1a65A 504 5.68e+00 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1sedA 117 5.90e+00 1ecxA 384 5.94e+00 1ecxA c.67.1.3 34431 1cll 148 6.02e+00 1cll a.39.1.5 17263 1jhfA 202 6.07e+00 a.4.5.2 63057 b.87.1.1 63058 1rwyA 109 6.50e+00 a.39.1.4 -825 1nxiA 132 6.82e+00 d.58.47.1 86381 1m1nA 491 7.04e+00 c.92.2.3 78417 1jakA 512 7.13e+00 c.1.8.6 66472 d.92.2.1 66473 1h1lA 481 7.41e+00 c.92.2.3 70851 1hxkA 1015 7.71e+00 a.8.3.1 83070 b.30.5.6 83071 c.6.2.1 83072 1htyA 1015 7.73e+00 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1eg5A 384 7.74e+00 1ecxA c.67.1.3 34429 1lam 484 7.82e+00 1lam c.56.5.3 33829 c.50.1.1 33166 1hwwA 1015 7.82e+00 a.8.3.1 83067 b.30.5.6 83068 c.6.2.1 83069 1lap 488 8.36e+00 1lam c.56.5.3 33834 c.50.1.1 33171 1bqhG 129 8.61e+00 1cd8 b.1.1.1 19715 1cd8 114 8.77e+00 1cd8 b.1.1.1 19714 1a4iA 301 8.78e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1hp5A 512 8.98e+00 1hp4A c.1.8.6 61113 d.92.2.1 61114 1pal 108 9.07e+00 1a75A a.39.1.4 17209 1hp4A 512 9.29e+00 1hp4A c.1.8.6 61111 d.92.2.1 61112 1bmqB 88 9.36e+00 1pauB 5ptp 223 9.41e+00 5ptp b.47.1.2 25831 1qm4A 396 9.62e+00 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 3cln 148 9.69e+00 1cll a.39.1.5 17286 1ibcB 88 9.81e+00 1pauB 2pvbA 107 9.91e+00 1a75A a.39.1.4 17205 3minC 491 1.02e+01 1qguA c.92.2.3 35607 1iyeA 309 1.03e+01 e.17.1.1 83786 1augA 215 1.04e+01 1a2zA c.56.4.1 33798 1tm0A 350 1.12e+01 1hj9A 226 1.13e+01 b.47.1.2 65845 1g8iA 190 1.17e+01 1rec a.39.1.5 60363 2minA 491 1.19e+01 1qguA c.92.2.3 35609 1tplA 426 1.19e+01 1ax4A c.67.1.2 34387 1qguA 478 1.21e+01 1qguA c.92.2.3 35625 1diaA 306 1.22e+01 1a4iA c.2.1.7 30280 c.58.1.2 33928 1dcs 311 1.23e+01 1dcs b.82.2.1 28124 1bllE 488 1.26e+01 1lam c.56.5.3 33833 c.50.1.1 33170 1ja9A 274 1.29e+01 c.2.1.2 62817 1on2A 142 1.30e+01 a.4.5.24 87103 a.76.1.1 87104 1dlfH 124 1.33e+01 1igtB b.1.1.1 20383 1qh8A 478 1.38e+01 1qguA c.92.2.3 35633 1e2gA 215 1.39e+01 3tmkA c.37.1.1 59165 1rro 108 1.40e+01 1a75A a.39.1.4 17195 4blmA 265 1.42e+01 1btl e.3.1.1 42721 1cdp 109 1.46e+01 1a75A a.39.1.4 17197 1nn5A 215 1.46e+01 c.37.1.1 85892 1i1kA 309 1.48e+01 1daaA e.17.1.1 61533 1e2fA 215 1.51e+01 3tmkA c.37.1.1 59164 1e9eA 215 1.52e+01 c.37.1.1 64810 1p9kA 79 1.55e+01 unknown_sccs -10238 4pep 326 1.55e+01 1smrA b.50.1.2 26843 1e9cA 215 1.58e+01 c.37.1.1 64808 1cv8 174 1.58e+01 1cv8 d.3.1.1 37089 1ls8A 142 1.60e+01 a.39.2.1 78176 4cpv 109 1.64e+01 1a75A a.39.1.4 17198 1e32A 458 1.67e+01 1e32A b.52.2.3 59183 c.37.1.20 59184 d.31.1.1 59185 1nezG 128 1.67e+01 b.1.1.1 85592 1m46A 148 1.70e+01 a.39.1.5 78599 1i8dA 213 1.77e+01 b.43.4.3 61953 b.43.4.3 61954 1evhA 112 1.83e+01 1evhA b.55.1.4 26997 1a3gA 308 1.89e+01 1daaA e.17.1.1 43286 1osa 148 1.90e+01 1cll a.39.1.5 17300 1g33A 73 1.90e+01 a.39.1.4 65121 1al3 324 1.91e+01 1al3 c.94.1.1 35835 3htsB 102 1.91e+01 2hts a.4.5.22 16175 1fu1A 203 1.93e+01 1fu1B b.59.1.1 27076 h.1.11.1 45630 1aua 296 1.99e+01 1aua a.5.3.1 16290 c.13.1.1 30882 1h6tA 291 1.99e+01 b.1.18.15 65686 c.10.2.1 65687 1p1mA 406 2.09e+01 b.92.1.4 87696 c.1.9.9 87697 1p57B 255 2.13e+01 b.47.1.2 -4248 1k4iA 233 2.14e+01 d.115.1.2 72056 1j75A 67 2.21e+01 a.4.5.19 62673 1g7fA 298 2.24e+01 1pty c.45.1.2 60330 1ogsA 497 2.25e+01 b.71.1.2 86997 c.1.8.3 86998 1bj4A 470 2.31e+01 1bj4A c.67.1.4 34479 1q0uA 219 2.35e+01 c.37.1.19 -7205 1d2iA 223 2.39e+01 1d2iA c.52.1.5 33297 1c24A 263 2.40e+01 1c24A d.127.1.1 41148 2matA 264 2.41e+01 1c24A d.127.1.1 41146 1dfmA 223 2.43e+01 1d2iA c.52.1.5 33295 1b6sA 355 2.43e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1d0bA 213 2.45e+01 1d0bA c.10.2.1 30866 1n0xL 215 2.54e+01 b.1.1.1 -2063 b.1.1.2 -2429 1dqeA 137 2.54e+01 1dqeA a.39.2.1 17388 1k20A 310 2.56e+01 c.107.1.1 68027 1o91A 178 2.56e+01 b.22.1.1 -3282 1uesA 191 2.57e+01 1fu1B 203 2.57e+01 1fu1B b.59.1.1 27077 h.1.11.1 45631 3psg 370 2.61e+01 1smrA b.50.1.2 26841 1mrzA 293 2.63e+01 b.43.5.1 -4048 c.26.1.3 -6616 1ik9A 213 2.64e+01 b.59.1.1 66176 h.1.11.1 66177 1ig5A 75 2.67e+01 4icb a.39.1.1 62363 1m45A 148 2.68e+01 a.39.1.5 78598 1rg9A 383 2.75e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 4icb 76 2.77e+01 4icb a.39.1.1 17145 4matA 278 2.88e+01 1c24A d.127.1.1 41150 2liv 344 2.90e+01 2liv c.93.1.1 35708 1exrA 148 2.91e+01 1cll a.39.1.5 17299 1fnnA 389 2.94e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1ggwA 140 2.94e+01 1ggwA a.39.1.5 60490 1ey2A 471 2.94e+01 1ey2A b.82.1.4 28116 1b6rA 355 2.98e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1cbf 285 3.02e+01 1cbf c.90.1.1 35587 1klaA 112 3.03e+01 2tgi g.17.1.2 44779 1esxA 96 3.06e+01 1esxA j.11.1.1 59501 1uiuA 502 3.12e+01 c.94.1.1 -8674 1vjpA 394 3.15e+01 c.2.1.3 -5897 d.81.1.3 -10480 1iynA 295 3.16e+01 a.93.1.1 -1244 1rv3A 483 3.19e+01 1kn1A 160 3.20e+01 a.1.1.3 77455 1j2gA 319 3.25e+01 1j6uA 469 3.48e+01 c.5.1.1 77094 c.59.1.1 77095 c.72.2.1 77096 1sr9A 644 3.49e+01 1a9nA 176 3.49e+01 1a9nA c.10.2.4 30875 1rypL 212 3.50e+01 d.153.1.4 41880 1g65K 211 3.59e+01 d.153.1.4 41907 1qnnA 191 3.62e+01 1avmA a.2.11.1 15792 d.44.1.1 38755 1svfB 38 3.68e+01 1svfB h.3.2.1 45764 1o0xA 262 3.78e+01 d.127.1.1 80755 1hqvA 191 3.79e+01 1hqvA a.39.1.8 61160 1exzA 141 3.83e+01 1exzA a.26.1.2 16877 1j3wA 163 3.85e+01 unknown_sccs -10870