# 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 1.43e-02 1ncx a.39.1.5 17222 1top 162 1.43e-02 1ncx a.39.1.5 17223 1s29A 92 3.38e-02 unknown_sccs -315 2sas 185 1.70e-01 2sas a.39.1.5 17258 1n25A 368 4.58e-01 c.37.1.20 85264 1ctdA 36 5.12e-01 1ctdA a.39.1.5 17230 1aerA 205 7.91e-01 1aerA d.166.1.1 42249 1wdcC 156 8.17e-01 1wdcC a.39.1.5 17317 1e0cA 271 9.89e-01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1auiB 169 1.10e+00 1auiB a.39.1.5 17325 1k94A 165 1.15e+00 a.39.1.8 68333 1ggzA 148 1.19e+00 a.39.1.5 70176 1gnlA 544 1.36e+00 e.26.1.1 70287 1f4qA 165 1.61e+00 1alvA a.39.1.8 17360 1efyA 350 1.90e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1a26 361 2.04e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 1j9jA 247 2.07e+00 c.106.1.1 62758 1cr5A 189 2.10e+00 1cr5A b.52.2.3 26931 d.31.1.1 38465 1ponA 36 2.15e+00 1ponA a.39.1.5 17239 1oi7A 288 2.68e+00 c.2.1.8 87049 c.23.4.1 87050 1on2A 142 2.69e+00 a.4.5.24 87103 a.76.1.1 87104 1nxiA 132 2.87e+00 d.58.47.1 86381 1mdc 133 2.93e+00 1hmt b.60.1.2 27198 2cbf 234 3.11e+00 1cbf c.90.1.1 35588 1cbf 285 3.25e+00 1cbf c.90.1.1 35587 2polA 366 3.32e+00 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1j9lA 247 3.46e+00 c.106.1.1 62762 1ctaA 36 3.59e+00 1ctdA a.39.1.5 17232 2mysB 166 3.63e+00 1wdcB a.39.1.5 17308 1kk8B 139 4.04e+00 a.39.1.5 77430 1a4iB 301 4.18e+00 1a4iA c.2.1.7 30279 c.58.1.2 33927 1mmiA 366 4.98e+00 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1qwnA 1045 5.18e+00 a.8.3.1 -414 b.30.5.6 -3517 c.6.2.1 -6058 1dmaA 214 5.18e+00 1aerA d.166.1.1 42251 1gosA 520 5.27e+00 c.3.1.2 65425 d.16.1.5 65426 1ok7A 366 5.27e+00 1s3eA 520 5.49e+00 c.3.1.2 -6022 d.16.1.5 -9242 1dt9A 437 5.59e+00 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1zac 90 5.85e+00 1ncx a.39.1.5 17236 1ojaA 520 6.03e+00 c.3.1.2 -6000 d.16.1.5 -9220 1s6cA 183 6.22e+00 a.39.1.5 -858 1fp4A 492 6.81e+00 c.92.2.3 76187 1ecxA 384 6.88e+00 1ecxA c.67.1.3 34431 1rwyA 109 6.94e+00 a.39.1.4 -825 1htyA 1015 7.03e+00 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1hwwA 1015 7.04e+00 a.8.3.1 83067 b.30.5.6 83068 c.6.2.1 83069 1nhkL 144 7.09e+00 1npk d.58.6.1 39142 1a4iA 301 7.09e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1hxkA 1015 7.13e+00 a.8.3.1 83070 b.30.5.6 83071 c.6.2.1 83072 1scmB 145 7.44e+00 1wdcB a.39.1.5 17304 1g8iA 190 7.59e+00 1rec a.39.1.5 60363 1k4iA 233 7.66e+00 d.115.1.2 72056 1qo7A 394 7.72e+00 1qo7A c.69.1.11 34697 1knwA 425 7.90e+00 b.49.2.3 -4274 c.1.6.1 -5229 1hqvA 191 8.49e+00 1hqvA a.39.1.8 61160 1g33A 73 8.92e+00 a.39.1.4 65121 1p9kA 79 9.22e+00 unknown_sccs -10238 1eg5A 384 9.42e+00 1ecxA c.67.1.3 34429 1j2gA 319 9.78e+00 1diaA 306 9.98e+00 1a4iA c.2.1.7 30280 c.58.1.2 33928 1pal 108 1.00e+01 1a75A a.39.1.4 17209 2pvbA 107 1.00e+01 1a75A a.39.1.4 17205 1a99A 344 1.11e+01 1pot c.94.1.1 35812 1d2iA 223 1.14e+01 1d2iA c.52.1.5 33297 1m46A 148 1.15e+01 a.39.1.5 78599 1m1nA 491 1.15e+01 c.92.2.3 78417 1kgdA 180 1.16e+01 c.37.1.1 68582 1cll 148 1.19e+01 1cll a.39.1.5 17263 1dfmA 223 1.22e+01 1d2iA c.52.1.5 33295 1g4yR 148 1.31e+01 1cll a.39.1.5 60252 1bmqB 88 1.31e+01 1pauB 1wdcB 156 1.35e+01 1wdcB a.39.1.5 17302 1k9uA 78 1.41e+01 a.39.1.10 84348 3minC 491 1.42e+01 1qguA c.92.2.3 35607 1avsA 90 1.44e+01 1cll a.39.1.5 17226 1m45A 148 1.46e+01 a.39.1.5 78598 1ibcB 88 1.48e+01 1pauB 1ddgA 374 1.55e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1sc3B 88 1.59e+01 1auiA 521 1.59e+01 1auiA d.159.1.3 42085 1rv3A 483 1.65e+01 1ej3A 191 1.68e+01 1ej3A a.39.1.5 17259 1o1fC 147 1.78e+01 i.15.1.1 80997 3cln 148 1.80e+01 1cll a.39.1.5 17286 1cf9A 753 1.84e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1aozA 552 1.84e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1p80A 753 1.88e+01 c.23.16.3 -6547 e.5.1.1 -11840 1dqeA 137 1.89e+01 1dqeA a.39.2.1 17388 1h1lA 481 1.90e+01 c.92.2.3 70851 1j3wA 163 1.94e+01 unknown_sccs -10870 1j75A 67 1.98e+01 a.4.5.19 62673 2minA 491 2.01e+01 1qguA c.92.2.3 35609 1qtrA 317 2.01e+01 1qtrA c.69.1.7 34660 1jdfA 447 2.02e+01 c.1.11.2 62897 d.54.1.1 62898 1mkmA 249 2.15e+01 a.4.5.33 79242 d.110.2.2 79243 1q0uA 219 2.18e+01 c.37.1.19 -7205 3cla 213 2.20e+01 3cla c.43.1.1 32610 1lucA 355 2.30e+01 1lucA c.1.16.1 29547 1sedA 117 2.31e+01 1ls8A 142 2.36e+01 a.39.2.1 78176 1q15A 503 2.40e+01 c.26.2.1 -6625 d.153.1.1 -11400 1lam 484 2.43e+01 1lam c.56.5.3 33829 c.50.1.1 33166 1fsz 372 2.63e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1pixA 587 2.76e+01 c.14.1.4 -6282 1iynA 295 2.79e+01 a.93.1.1 -1244 1wm1A 317 2.81e+01 1hb6A 86 2.83e+01 a.11.1.1 70959 1bj4A 470 2.91e+01 1bj4A c.67.1.4 34479 1lap 488 3.02e+01 1lam c.56.5.3 33834 c.50.1.1 33171 1fezA 256 3.03e+01 1fezA c.108.1.3 43343 1n0xL 215 3.21e+01 b.1.1.1 -2063 b.1.1.2 -2429 1ggwA 140 3.24e+01 1ggwA a.39.1.5 60490 1rlzA 369 3.31e+01 1qguA 478 3.35e+01 1qguA c.92.2.3 35625 1cdp 109 3.36e+01 1a75A a.39.1.4 17197 1qxrA 189 3.41e+01 b.82.1.7 -4834 1ffkB 338 3.41e+01 1ffkB b.43.3.2 25719 7atjA 308 3.42e+01 1bgp a.93.1.1 18673 1plzA 189 3.43e+01 b.82.1.7 88160 1g57A 217 3.52e+01 1g57A d.115.1.2 60253 1nt4A 391 3.53e+01 c.60.1.2 -7942 1din 236 3.53e+01 1din c.69.1.9 34682 4cpv 109 3.54e+01 1a75A a.39.1.4 17198 1bllE 488 3.60e+01 1lam c.56.5.3 33833 c.50.1.1 33170 1pylA 97 3.64e+01 1qfjA 232 3.65e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1iq3A 110 3.67e+01 1iq3A a.39.1.6 62640 1ggvA 232 3.70e+01 1din c.69.1.9 34683 1gwuA 309 3.73e+01 a.93.1.1 83351 1p57B 255 3.75e+01 b.47.1.2 -4248 1sgoA 139 3.78e+01 unknown_sccs -10487 1g0uI 205 3.79e+01 d.153.1.4 41891 1wdnA 226 3.79e+01 1lst c.94.1.1 35816 1qh8A 478 3.81e+01 1qguA c.92.2.3 35633 1qjtA 99 3.84e+01 1eh2 a.39.1.6 17335 1rypJ 204 3.85e+01 d.153.1.4 41878 1v9wA 130 3.99e+01