# 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 1uch 230 1.92e+00 1uch d.3.1.6 37129 1odfA 290 5.80e+00 c.37.1.6 92782 2hhmA 276 7.64e+00 1imbA e.7.1.1 42955 1w6kA 732 7.81e+00 1r0kA 388 8.35e+00 a.69.3.1,c.2.1.3,d.81.1.3 104723,104724,104725 1zuwA 272 8.45e+00 1u8vA 490 8.48e+00 1zyeA 220 9.28e+00 1imdA 277 9.81e+00 1imbA e.7.1.1 42968 1p0hA 318 1.07e+01 d.108.1.1 93866 1jjoC 261 1.11e+01 1cyj 90 1.19e+01 1ctj a.3.1.1 15805 1cyi 90 1.22e+01 1ctj a.3.1.1 15804 1imbA 277 1.24e+01 1imbA e.7.1.1 42957 1to6A 371 1.25e+01 c.141.1.1 107170 1xo7A 166 1.27e+01 1x8gA 227 1.27e+01 1udh 244 1.31e+01 3eugA c.18.1.1 31015 2rmcA 182 1.37e+01 2cpl b.62.1.1 27491 1ak1 310 1.43e+01 1ak1 c.92.1.1 35594 1x8hA 228 1.48e+01 1xat 212 1.60e+01 2xat b.81.1.3 28059 1pdr 99 1.60e+01 1pdr b.36.1.1 24771 2fjbA 643 1.67e+01 1jnrA 643 1.70e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1a3aA 148 1.78e+01 1a3aA d.112.1.1 40917 1r7mA 235 1.79e+01 1a3aC 148 1.94e+01 1a3aA d.112.1.1 40919 1b1yA 500 1.98e+01 1byb c.1.8.1 28796 2a5hA 416 2.01e+01 1neiA 60 2.05e+01 d.253.1.1 91843 1tp9A 162 2.06e+01 1udg 244 2.11e+01 3eugA c.18.1.1 31016 2ac4A 309 2.17e+01 1be9A 119 2.17e+01 1pdr b.36.1.1 24774 1tx2A 297 2.19e+01 c.1.21.1 107420 1j9yA 385 2.20e+01 1j9yA c.1.8.3 62791 1gdvA 85 2.28e+01 1ctj a.3.1.1 60458 2ac2A 309 2.37e+01 1vbuA 328 2.39e+01 2gk4A 232 2.41e+01 1ad4A 266 2.45e+01 1aj2 c.1.21.1 29670 2c2xA 281 2.45e+01 1q9iA 571 2.46e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 2fd4A 122 2.47e+01 2c27A 315 2.48e+01 1vhxA 150 2.50e+01 c.55.3.8 100712 2bjiA 277 2.53e+01 2xat 212 2.56e+01 2xat b.81.1.3 28058 1dozA 309 2.57e+01 1ak1 c.92.1.1 35592 1bfeA 119 2.63e+01 1pdr b.36.1.1 24775 1vj7A 393 2.64e+01 a.211.1.1,d.218.1.8 100801,100802 1v30A 124 2.79e+01 2fnbA 95 2.82e+01 2fnbA b.1.2.1 21979 1y08A 323 2.83e+01 1i1qB 192 2.94e+01 1qdlB c.23.16.1 61544 1ad1A 266 3.20e+01 1aj2 c.1.21.1 29668 1stzA 338 3.23e+01 a.4.5.51,d.110.2.3 106009,106010 2evwX 166 3.28e+01 1ymtA 246 3.47e+01 1n0qA 93 3.50e+01 k.37.1.1 79754 1hxpA 348 3.61e+01 1guqA d.13.1.2,d.13.1.2 37530,37531 1azcA 129 3.69e+01 1nwpA b.6.1.1 22899 1qopA 268 3.73e+01 2tysA c.1.2.4 28570 1eyeA 280 3.73e+01 1aj2 c.1.21.1 29672 1agp 166 3.82e+01 1ctqA c.37.1.8 31985 1cdzA 96 3.86e+01 1cdzA c.15.1.1 30925 2f5xA 312 3.89e+01 2def 147 3.89e+01 1bs4A d.167.1.1 42305 1gupA 348 3.90e+01 1guqA d.13.1.2,d.13.1.2 37534,37535 1h65A 270 3.93e+01 c.37.1.8 65640 1eu1A 780 3.95e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1tp5A 119 4.15e+01 1ayg 80 4.21e+01 451c a.3.1.1 15831 1xd3A 230 4.22e+01 1c4kA 730 4.24e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1aizA 129 4.25e+01 1nwpA b.6.1.1 22903 1jztA 246 4.26e+01 c.104.1.1 63319 1lybB 241 4.27e+01 1smrA 1icjA 168 4.30e+01 1bs4A d.167.1.1 42284 2a6aA 218 4.33e+01 1vk9A 151 4.40e+01 c.139.1.1 108640 1clxA 347 4.49e+01 1taxA c.1.8.3 28899 1aty 79 4.54e+01 1aty j.35.1.1 46259 2ax4A 198 4.55e+01 1guqA 348 4.56e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 1ktbA 405 4.78e+01 b.71.1.1,c.1.8.1 72960,72961 1ctqA 166 4.81e+01 1ctqA c.37.1.8 31965 1i7qB 193 4.83e+01 1qdlB c.23.16.1 61902 1bs4A 168 4.91e+01 1bs4A d.167.1.1 42287 1n5nA 180 4.94e+01 d.167.1.1 85336 1wy6A 172 4.99e+01 1s12A 94 5.00e+01 1avaA 403 5.02e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1ovqA 138 5.10e+01 c.55.3.8 93607 1w32A 348 5.18e+01 1h30A 422 5.19e+01 b.29.1.4,b.29.1.4 76604,76605 1bsjA 168 5.25e+01 1bs4A d.167.1.1 42302 2f2eA 146 5.27e+01 1xiuA 230 5.29e+01 1rvgA 305 5.34e+01 c.1.10.2 97920 1jtdB 273 5.35e+01 b.69.5.2 67265 1eokA 290 5.38e+01 1eokA c.1.8.5 28991 1oi2A 366 5.41e+01 c.119.1.2 103802 1d3hA 367 5.41e+01 1d3gA c.1.4.1 28601 1h0pA 182 5.55e+01 b.62.1.1 76450 2fywA 267 5.55e+01 1ujpA 271 5.57e+01 c.1.2.4 99462 2bhoA 130 5.70e+01 1d3gA 367 5.70e+01 1d3gA c.1.4.1 28600 1a12A 413 5.72e+01 1a12A b.69.5.1 27663 1wnaA 131 5.76e+01 1xeoA 168 5.77e+01 2dvh 79 5.79e+01 1c53 a.3.1.1 15803 1t6cA 315 5.81e+01 c.55.1.8,c.55.1.8 106558,106559 5p21 166 5.86e+01 1ctqA c.37.1.8 31966 821p 166 5.87e+01 1ctqA c.37.1.8 31969 1cec 343 5.87e+01 1ceo c.1.8.3 28809 1hgxA 183 5.89e+01 1tc1A c.61.1.1 34027 2b0mA 393 6.04e+01 1ceo 343 6.10e+01 1ceo c.1.8.3 28808 1zxzA 197 6.12e+01 1a5y 330 6.16e+01 1pty c.45.1.2 32673 2bsjA 133 6.16e+01 1xvxA 312 6.23e+01 2f71A 298 6.32e+01 1g7fA 298 6.37e+01 1pty c.45.1.2 60330 1pa1A 310 6.46e+01 c.45.1.2 94404 2g9zA 348 6.49e+01 1ivnA 190 6.55e+01 c.23.10.5 83719 1pty 321 6.62e+01 1pty c.45.1.2 32656 2axwA 134 6.63e+01 2aorA 223 6.66e+01 1ptvA 321 6.68e+01 1pty c.45.1.2 32665 1g2aA 168 6.70e+01 d.167.1.1 65109 1ordA 730 6.81e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31274,34503,41124 1aax 321 6.86e+01 1pty c.45.1.2 32657 2cc0A 195 6.90e+01 1ys4A 354 6.91e+01 1ii5A 233 6.96e+01 c.94.1.1 62412 1azo 232 7.06e+01 1azo c.52.1.14 33329 1vhwA 253 7.09e+01 c.56.2.1 100706 1aoa 275 7.23e+01 1aoa a.40.1.1,a.40.1.1 17396,17397 1cch 82 7.43e+01 451c a.3.1.1 15902 1zwwA 256 7.45e+01 1zsyA 357 7.47e+01 1ls9A 91 7.47e+01 a.3.1.1 78177 1eeoA 321 7.71e+01 1pty c.45.1.2 32655 1jyhA 157 7.80e+01 d.60.1.3 71956 1flzA 228 7.82e+01 3eugA c.18.1.1 31027 1whi 122 7.84e+01 1whi b.39.1.1 24810 1gaxA 862 7.89e+01 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1rt8A 513 7.89e+01 a.40.1.1 105095 2d09A 407 7.91e+01 2ez3A 302 7.96e+01 1ycyA 71 8.25e+01 1dvh 79 8.37e+01 1c53 a.3.1.1 15802 1o9gA 250 8.40e+01 c.66.1.29 86692 2etvA 346 8.42e+01 1awcA 110 8.45e+01 1awcA a.4.5.21 16167 1hkvA 453 8.45e+01 b.49.2.3,c.1.6.1 83559,83560 1faeA 629 8.51e+01 1fce a.102.1.2 18837 1nrwA 288 8.58e+01 c.108.1.10 86128 1vpdA 299 8.59e+01 1nm8A 616 8.59e+01 c.43.1.3,c.43.1.3 85872,85873 1amy 403 8.60e+01 1jdc b.71.1.1,c.1.8.1 27799,28786 1i6aA 219 8.65e+01 c.94.1.1 61827 1fce 629 8.69e+01 1fce a.102.1.2 18836 1g9gA 629 8.73e+01 a.102.1.2 83279 1a4aA 129 8.73e+01 1nwpA b.6.1.1 22907 1eugA 229 8.78e+01 3eugA c.18.1.1 31021 1def 147 8.79e+01 1bs4A d.167.1.1 42306 1ycdA 243 8.86e+01 1dax 64 8.92e+01 1fxd d.58.1.4 38996