# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-scores 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.soe.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 2cirA 297 1.05e-20 2htaA 309 1.41e-19 1snzA 344 1.14e-15 b.30.5.4 98930 1mmuA 347 1.44e-14 b.30.5.4 79303 1nszA 347 3.50e-14 b.30.5.4 80724 1lurA 339 2.88e-13 b.30.5.4 84717 1jovA 270 6.69e-13 b.30.5.7 84192 1z45A 699 1.96e-11 b.30.5.4,c.2.1.2 124427,124428 1ygaA 342 8.62e-10 3bs6A 280 3.11e-01 3blcA 330 4.89e-01 1eonA 245 1.04e+00 1rvaA c.52.1.2 33238 1b96A 244 1.10e+00 1rvaA c.52.1.2 33268 1b94A 244 1.26e+00 1rvaA c.52.1.2 33250 1sx5A 244 1.27e+00 c.52.1.2 99023 1b97A 244 1.34e+00 1rvaA c.52.1.2 33252 1i7pA 274 2.89e+00 b.43.4.2,c.25.1.1 66048,66049 1dq3A 454 3.79e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1ogoX 574 5.63e+00 b.133.1.1,b.80.1.10 92925,92926 2ok8A 316 6.24e+00 1hn0A 1021 6.25e+00 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1umkA 275 6.69e+00 b.43.4.2,c.25.1.1 113312,113313 1bssA 244 7.72e+00 1rvaA c.52.1.2 33256 2r55A 231 7.76e+00 1ndh 272 8.66e+00 1ndh 1kit 757 8.99e+00 1kit 2d73A 738 9.37e+00 1z4vA 532 1.05e+01 1lmiA 131 1.13e+01 b.1.19.1 78098 1qx4A 274 1.14e+01 b.43.4.2,c.25.1.1 104624,104625 1k32A 1045 1.14e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 2bfgA 503 1.18e+01 b.71.1.2,c.1.8.3 128423,128424 2bs9A 503 1.21e+01 b.71.1.2,c.1.8.3 129062,129063 1lm8B 118 1.30e+01 d.15.1.1 74033 1mzyA 333 1.30e+01 b.6.1.3,b.6.1.3 103848,103849 1et7A 341 1.31e+01 1nif b.6.1.3,b.6.1.3 23070,23071 2g8sA 353 1.34e+01 1kz8A 337 1.36e+01 e.7.1.1 77633 1ju3A 583 1.41e+01 b.18.1.13,c.69.1.21 67300,67301 2dawA 154 1.55e+01 1n6eA 1071 1.56e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 80149,80150,80151,80152 1as6A 343 1.57e+01 1nif b.6.1.3,b.6.1.3 23090,23091 1ejxB 101 1.58e+01 b.85.3.1 83183 1jhnA 424 1.60e+01 b.104.1.1,b.29.1.12 66722,70060 1fwcB 106 1.66e+01 1ubpB b.85.3.1 28324 1vcbA 118 1.68e+01 1vcbA d.15.1.1 37603 2shpA 525 1.76e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1frpA 335 1.79e+01 1frpA e.7.1.1 42875 2ovrB 445 1.83e+01 1xe7A 203 1.85e+01 b.82.1.16 115213 2c4xA 260 2.05e+01 2oizA 361 2.14e+01 2h1tA 188 2.15e+01 2agyA 361 2.16e+01 1rdzA 337 2.27e+01 1frpA e.7.1.1 42882 1h54A 754 2.31e+01 a.102.1.4,b.30.5.3 60634,60635 1m8uA 173 2.33e+01 b.11.1.1,b.11.1.1 91233,91234 2pviA 157 2.39e+01 3pviA c.52.1.6 33302 1h4gA 207 2.50e+01 b.29.1.11 70863 2ojhA 297 2.51e+01 2c8mA 262 2.57e+01 1mt6A 280 2.59e+01 b.76.2.1,b.85.7.1 79446,79447 1yewA 382 2.74e+01 1nr0A 611 2.88e+01 b.69.4.1,b.69.4.1 86078,86079 2fujA 137 2.90e+01 d.38.1.1 134175 1pbyA 489 2.95e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1hxn 219 2.98e+01 1hxn 1hxnA 219 2.98e+01 b.66.1.1 27529 2h26A 291 3.02e+01 b.1.1.2,d.19.1.1 135990,135991 2hrgA 496 3.04e+01 1so9A 164 3.06e+01 b.146.1.1 105842 3b2mA 295 3.06e+01 1p7tA 731 3.07e+01 c.1.13.1 94319 5fbpA 335 3.14e+01 1frpA e.7.1.1 42873 2ffsA 157 3.16e+01 d.129.3.7 133391 1ubpB 122 3.20e+01 1ubpB b.85.3.1 28346 1bcpB 199 3.20e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 2cavA 445 3.23e+01 1dgwA b.82.1.2,b.82.1.2 28094,28095 4ubpB 126 3.34e+01 1ubpB b.85.3.1 28345 1mxgA 435 3.35e+01 b.71.1.1,c.1.8.1 85193,85194 2arcA 164 3.44e+01 2arcA b.82.4.1 28148 2aacA 177 3.46e+01 2arcA b.82.4.1 28150 1fzqA 181 3.47e+01 1hurA c.37.1.8 32060 1fg9C 245 3.60e+01 1jrhI b.1.2.1,b.1.2.1 22060,22061 1oe1A 336 3.64e+01 b.6.1.3,b.6.1.3 86891,86892 1jmcA 246 3.70e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 2sli 679 3.72e+01 2sli 2sliA 679 3.72e+01 b.29.1.9,b.68.1.1 24274,27611 1qwdA 177 3.74e+01 b.60.1.1 96471 2acoA 173 3.74e+01 1iqzA 81 3.83e+01 d.58.1.4 66281 1h3iA 293 3.91e+01 b.76.2.1,b.85.7.1 76635,76636 1n0lA 224 3.97e+01 b.1.11.1,b.7.2.1 79744,79745 1d2pA 373 3.98e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 2eixA 243 4.07e+01 1o7dD 282 4.08e+01 1aol 228 4.28e+01 1aol 1aolA 228 4.28e+01 b.20.1.1 23840 1z9lA 128 4.32e+01 2j2zA 218 4.37e+01 b.1.11.1,b.7.2.1 137974,137975 2retB 175 4.55e+01 1onqA 283 4.56e+01 b.1.1.2,d.19.1.1 93365,93366 2ppvA 332 4.57e+01 1vhzA 198 4.75e+01 d.113.1.1 100718 1nuyA 337 4.77e+01 e.7.1.1 86213 1gzqA 300 4.78e+01 b.1.1.2,d.19.1.1 70818,70819 1snrA 341 4.80e+01 b.6.1.3,b.6.1.3 105823,105824 1zpuA 534 4.85e+01 2pjmA 226 4.88e+01 1zdsA 336 4.89e+01 b.6.1.3,b.6.1.3 124952,124953 1guiA 155 4.96e+01 b.18.1.14 76351 1npsA 88 4.99e+01 1prs b.11.1.1 23622 1ubpC 570 5.08e+01 1ubpC b.92.1.1,c.1.9.2 28432,29054 1ie7C 570 5.08e+01 1ubpC b.92.1.1,c.1.9.2 62315,62316 4ubpC 570 5.09e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1ujxA 119 5.09e+01 b.26.1.2 99473 1j9qA 341 5.24e+01 1nif b.6.1.3,b.6.1.3 62765,62766 2ppeA 343 5.28e+01 2je8A 848 5.29e+01 1qlpA 394 5.36e+01 1ovaA e.1.1.1 42628 1p57B 255 5.60e+01 b.47.1.2 94126 1y14B 171 5.63e+01 b.40.4.5,d.230.1.1 116323,116324 1qwzA 235 5.72e+01 b.100.1.1 96510 1c9oA 66 5.80e+01 1mjc b.40.4.5 25325 1mjc 69 5.83e+01 1mjc 1mjcA 69 5.83e+01 b.40.4.5 25319 1pzsA 208 5.90e+01 b.1.8.1 104397 8rucI 123 5.95e+01 1rboC d.73.1.1 39629 1behA 187 5.95e+01 1a44 b.17.1.1 23700 2hxvA 360 5.96e+01 c.71.1.2,c.97.1.2 136859,136860 1tjxA 159 6.04e+01 b.7.1.2 112465 2de6D 115 6.04e+01 1v0eA 666 6.04e+01 b.68.1.2,b.108.1.3 113466,113467 1d8cA 723 6.27e+01 1d8cA c.1.13.1 29325 3b8bA 292 6.29e+01 2ioiA 201 6.40e+01 1cv8 174 6.41e+01 1cv8 1cv8A 174 6.41e+01 d.3.1.1 37089 1qhuA 460 6.42e+01 1qhuA b.66.1.1,b.66.1.1 27530,27531 1zgsA 447 6.43e+01 2d1eA 248 6.45e+01 2hu5A 582 6.48e+01 b.69.7.2,c.69.1.33 136763,136764 2b5iC 199 6.53e+01 b.1.2.1,b.1.2.1 127898,127899 3cm1A 139 6.57e+01 2iqyA 190 6.58e+01 1ng5A 215 6.59e+01 b.100.1.1 91867 2h9eC 84 6.68e+01 g.22.1.1 136254 1nrvA 105 6.82e+01 d.93.1.1 86126 1azo 232 6.88e+01 1azo 1azoA 232 6.88e+01 c.52.1.14 33329 2nykA 285 6.91e+01 1qr4B 186 6.91e+01 1qr4B b.1.2.1,b.1.2.1 21988,21989 1xf1A 926 6.95e+01 2in5A 207 7.00e+01 1jssA 224 7.05e+01 d.129.3.2 71844 1w0pA 781 7.08e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1cauA 181 7.13e+01 1dgwA b.82.1.2 28102 2otnA 308 7.27e+01 1zoxA 113 7.31e+01 1m9zA 111 7.41e+01 g.7.1.3 78881 1xs1A 193 7.46e+01 b.85.4.1 115892 1pguA 615 7.58e+01 b.69.4.1,b.69.4.1 88069,88070 1ui7A 638 7.77e+01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 1nziA 159 7.79e+01 b.23.1.1,g.3.11.1 86449,86450 1xdyA 298 7.81e+01 d.176.1.1 115186 1kn3A 183 7.87e+01 b.17.1.1 72764 1gxyA 226 7.91e+01 d.166.1.3 76380