# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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.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 1lddA 74 4.14e-01 a.4.5.34 73841 1xn7A 78 4.81e-01 1d3uB 201 8.95e-01 1aisB a.74.1.2,a.74.1.2 18386,18387 1elvA 333 1.29e+00 5ptp b.47.1.2,g.18.1.1 59454,59455 2fcr 173 1.94e+00 1rcf c.23.5.1 31151 1aisB 200 2.05e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 1t6cA 315 2.12e+00 c.55.1.8,c.55.1.8 106558,106559 1o6jA 150 2.12e+00 c.47.1.10 81089 1i3cA 149 2.13e+00 c.23.1.1 71112 1uv7A 110 2.75e+00 d.67.4.1 100040 2gtsA 86 3.16e+00 1ub9A 100 3.59e+00 a.4.5.28 99159 1y02A 120 3.79e+00 1q1hA 110 4.47e+00 a.4.5.41 95580 1dpuA 99 5.57e+00 1dpuA a.4.5.16 16150 2cfxA 144 5.80e+00 1z1dA 103 6.94e+00 1tcoA 375 7.69e+00 1auiA d.159.1.3 42084 1bc5A 269 8.00e+00 1af7 a.58.1.1,c.66.1.8 17929,34204 1txuA 273 8.17e+00 a.222.1.1 107439 1pueE 89 8.53e+00 1awcA a.4.5.21 16165 2a61A 145 9.13e+00 1vr5A 547 9.22e+00 1k66A 149 9.32e+00 c.23.1.1 90941 1k20A 310 9.79e+00 c.107.1.1 68027 1zs9A 261 1.05e+01 1xmkA 79 1.08e+01 1vdyA 140 1.08e+01 2ethA 154 1.08e+01 1xt5A 135 1.13e+01 1lvaA 258 1.17e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 2ex2A 458 1.23e+01 1auiA 521 1.25e+01 1auiA d.159.1.3 42085 1pswA 348 1.28e+01 c.87.1.7 88287 1rzuA 485 1.28e+01 c.87.1.8 105140 1i5gA 144 1.30e+01 1ewxA c.47.1.10 61784 1vhwA 253 1.35e+01 c.56.2.1 100706 3adk 195 1.44e+01 1zin c.37.1.1 31885 1upqA 123 1.54e+01 1xq6A 253 1.57e+01 1afrA 345 1.60e+01 1afrA a.25.1.2 16805 1qwrA 319 1.65e+01 b.82.1.3 96491 2dbyA 368 1.66e+01 1y0nA 78 1.67e+01 1vi9A 299 1.68e+01 c.72.1.5 100750 1b4pA 217 1.77e+01 a.45.1.1,c.47.1.5 83158,83159 1yvvA 336 1.81e+01 1gtmA 419 1.86e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1oaa 259 1.88e+01 1oaa c.2.1.2 29829 2cj4A 150 1.93e+01 1af7 274 1.93e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1k68A 140 1.97e+01 c.23.1.1 90943 1sep 261 2.01e+01 1oaa c.2.1.2 29830 1hmy 327 2.03e+01 6mhtA c.66.1.26 34229 1xt8A 292 2.08e+01 1wy0A 342 2.13e+01 1eiwA 111 2.22e+01 1eiwA c.23.3.1 31130 2fnaA 357 2.35e+01 1sfe 180 2.42e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 1i74A 309 2.52e+01 1i74A c.107.1.1 61867 1e2xA 243 2.54e+01 1e2xA a.4.5.6,a.78.1.1 16113,18443 1fmcA 255 2.59e+01 1cydA c.2.1.2 29856 1ivyA 452 2.60e+01 1ivyA c.69.1.5 34654 1ni4A 365 2.62e+01 c.36.1.11 85728 1g3qA 237 2.66e+01 1hyqA c.37.1.10 60237 1dqnA 230 2.71e+01 1dqnA c.61.1.1 34067 1nznA 126 2.71e+01 a.118.8.1 92382 1vbuA 328 2.80e+01 1gcoA 261 2.83e+01 1ybvA c.2.1.2 29884 1dqpA 230 2.83e+01 1dqnA c.61.1.1 34069 1em9A 154 2.85e+01 1d1dA a.73.1.1 18333 1jl2A 156 2.86e+01 c.55.3.1 66822 1i36A 264 2.89e+01 a.100.1.8,c.2.1.6 71108,71109 1g5aA 628 2.91e+01 b.71.1.1,c.1.8.1 65152,65153 1zin 217 2.96e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1eokA 290 3.00e+01 1eokA c.1.8.5 28991 1vfsA 386 3.01e+01 b.49.2.2,c.1.6.1 108584,108585 1hw1A 239 3.04e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1pk9A 237 3.06e+01 c.56.2.1 94823 1xw5A 217 3.06e+01 1w0pA 781 3.17e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1zip 217 3.22e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1td2A 287 3.29e+01 c.72.1.5 106765 6gsvA 217 3.31e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1a0rP 245 3.37e+01 1b9yC c.47.1.6 33054 2etdA 171 3.56e+01 2fyxA 143 3.56e+01 1hq1A 105 3.58e+01 1dulA a.36.1.1 17120 1h5yA 253 3.58e+01 c.1.2.1 65638 2aeuA 374 3.67e+01 1sumB 235 3.68e+01 a.7.12.1 106025 2bh1A 250 3.76e+01 1y7pA 223 3.77e+01 1zcoA 262 3.91e+01 1sgvA 316 3.92e+01 b.122.1.1,d.265.1.2 98858,98859 1n93X 375 3.97e+01 a.206.1.1 91707 1rzsA 61 3.99e+01 a.35.1.2 105139 2c4jA 218 4.14e+01 1oq9A 363 4.16e+01 a.25.1.2 87257 1geeA 261 4.17e+01 c.2.1.2 90509 1xx6A 191 4.19e+01 1xo0A 324 4.22e+01 1fapB 95 4.24e+01 1nsgB a.24.7.1 16618 1yf5L 254 4.27e+01 3fapB 94 4.41e+01 1nsgB a.24.7.1 16612 2a5hA 416 4.44e+01 1tw4A 125 4.48e+01 1pvaA 110 4.49e+01 1a75A a.39.1.4 17207 1vclA 432 4.51e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1ecpA 238 4.52e+01 1ecpA c.56.2.1 33775 1kkhA 317 4.60e+01 d.14.1.5,d.58.26.3 72645,72646 1noyA 388 4.65e+01 1clqA c.55.3.5 33713 1aueA 100 4.75e+01 1nsgB a.24.7.1 16615 1r3eA 309 4.76e+01 b.122.1.1,d.265.1.2 96907,96908 1souA 194 4.77e+01 c.124.1.6 105858 1d3uA 181 4.82e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1lkyA 77 4.88e+01 a.60.1.1 73985 2a84A 300 4.88e+01 1f16A 192 4.92e+01 1f16A f.1.4.1 43400 1jhfA 202 5.00e+01 a.4.5.2,b.87.1.1 63057,63058 1ysqA 193 5.06e+01 1zxiF 288 5.09e+01 1jvr 137 5.17e+01 1jvr a.61.1.2 18132 1dulA 69 5.26e+01 1dulA a.36.1.1 17121 1fnlA 175 5.29e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1uk8A 282 5.30e+01 c.69.1.10 107907 1b8dA 164 5.31e+01 1cpcA a.1.1.3 15665 1qgrA 876 5.39e+01 1qgrA a.118.1.1 19119 1kid 203 5.41e+01 1derA c.8.5.1 30771 1wstA 417 5.46e+01 1iupA 282 5.48e+01 c.69.1.10 76815 2madH 373 5.65e+01 2bbkH b.69.2.1 27639 2be3A 226 5.65e+01 1hywA 68 5.70e+01 1hywA d.186.1.1 61425 1jdfA 447 5.71e+01 c.1.11.2,d.54.1.1 62897,62898 1x99A 145 5.87e+01 2bptA 861 5.89e+01 1ec7A 446 5.91e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1omoA 322 5.94e+01 c.2.1.13 104017 3crxA 343 5.95e+01 4crxA a.60.9.1,d.163.1.1 18101,42161 1t62A 166 5.96e+01 b.122.1.4 106541 1b77A 228 5.96e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1h6oA 204 6.08e+01 a.146.1.1 60689 1umzA 278 6.16e+01 b.29.1.2 99639 1zjjA 263 6.20e+01 1rj1A 151 6.33e+01 a.29.6.1 97526 2fpoA 202 6.34e+01 1z15A 344 6.39e+01 1srvA 145 6.42e+01 1derA c.8.5.1 30817 1z83A 196 6.43e+01 1f44A 324 6.44e+01 a.60.9.1,d.163.1.1 64982,64983 4crxA 322 6.45e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1io7A 368 6.47e+01 1f4tA a.104.1.1 18971 1t7pA 698 6.50e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 1duxC 94 6.53e+01 1awcA a.4.5.21 16170 1pot 325 6.59e+01 1pot c.94.1.1 35807 1y5eA 169 6.62e+01 16pk 415 6.69e+01 16pk c.86.1.1 35454 1yhpA 212 6.69e+01 1abrA 251 6.74e+01 1mrj d.165.1.1 42196 1hlb 158 6.79e+01 1hlb a.1.1.2 15625 1qgpA 77 6.82e+01 1qbjA a.4.5.19 16158 3mhtA 327 6.83e+01 6mhtA c.66.1.26 34234 1yk3A 210 6.84e+01 1n2eA 300 6.90e+01 c.26.1.4 85268 2btvA 901 6.98e+01 2btvA e.28.1.1 43376 1t6uA 117 6.98e+01 a.24.22.1 106584 1bplB 294 7.01e+01 1bli b.71.1.1 27716 1kit 757 7.02e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 1a05A 358 7.02e+01 1cnzA c.77.1.1 35059 1ajyA 71 7.03e+01 1zmeC g.38.1.1,h.1.3.1 45083,45516 1o6dA 163 7.07e+01 c.116.1.3 92567 1kbuA 349 7.10e+01 a.60.9.1,d.163.1.1 72284,72285 1y0uA 96 7.22e+01 1wmiA 90 7.27e+01 2fiyA 309 7.37e+01 2b0cA 206 7.56e+01 1wxaA 116 7.58e+01 1vllA 334 7.60e+01 c.2.1.13 108834 1prtF 98 7.63e+01 1prtF b.40.2.1 25140 2fuqA 747 7.64e+01 1q6zA 528 7.70e+01 1wi9A 72 7.70e+01 1z2lA 423 7.71e+01 1crxA 322 7.79e+01 4crxA a.60.9.1,d.163.1.1 18097,42157 1tuzA 118 7.84e+01 1yiiA 320 7.92e+01 2fg1A 158 8.00e+01 1fohA 664 8.18e+01 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 2ifeA 100 8.19e+01 1tig d.68.1.1 39567 1jweA 114 8.20e+01 1b79A a.81.1.1 18455 1djxB 624 8.29e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1uzxA 169 8.33e+01 d.20.1.2 100238 2fbhA 146 8.34e+01 1i2hA 168 8.37e+01 b.55.1.4 71103 2c7pA 327 8.40e+01 1kb5A 115 8.44e+01 1tvdA b.1.1.1 20611 1t3tA 1303 8.49e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1hyhA 309 8.64e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1b88A 114 8.67e+01 1tcrA b.1.1.1 20608 6mhtA 327 8.72e+01 6mhtA c.66.1.26 34226 1zzpA 130 8.73e+01 487dH 224 8.77e+01 1ad2 i.1.1.2 45835 2liv 344 8.80e+01 2liv c.93.1.1 35708 1kl9A 182 8.80e+01 b.40.4.5 72681 1vqzA 341 8.83e+01 1csgA 127 8.84e+01 2gmfA a.26.1.2 16851 1dcuA 357 8.89e+01 1frpA e.7.1.1 42943 1ad2 228 8.95e+01 1ad2 e.24.1.1 43353 2ebn 289 8.97e+01 2ebn c.1.8.5 28990