# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1q48A 134 2.83e-01 unknown_sccs -9776 1rvkA 382 8.59e-01 c.1.11.2 -5568 d.54.1.1 -9826 1fiuA 286 1.14e+00 1fiuA c.52.1.10 33317 1nlfA 279 1.66e+00 c.37.1.11 85850 1g8yA 279 1.79e+00 1g8yA c.37.1.11 32302 1ptmA 329 1.82e+00 unknown_sccs -8456 1kk8B 139 2.36e+00 a.39.1.5 77430 1lshB 319 2.39e+00 f.7.1.1 74245 1kay 381 2.42e+00 1ba1 c.55.1.1 33385 c.55.1.1 33386 1ba1 386 2.54e+00 1ba1 c.55.1.1 33387 c.55.1.1 33388 1i6iA 366 2.67e+00 1bg2 c.37.1.9 61844 1bupA 386 2.69e+00 1ba1 c.55.1.1 33377 c.55.1.1 33378 1i5sA 367 2.81e+00 1bg2 c.37.1.9 61822 1dljA 402 3.25e+00 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1wdcB 156 3.37e+00 1wdcB a.39.1.5 17302 1scmB 145 4.37e+00 1wdcB a.39.1.5 17304 4crxA 322 4.52e+00 4crxA a.60.9.1 18095 d.163.1.1 42155 1o5xA 248 4.77e+00 c.1.1.1 -5157 1j54A 186 4.90e+00 c.55.3.5 77077 1vjpA 394 5.54e+00 c.2.1.3 -5897 d.81.1.3 -10480 1crxA 322 5.56e+00 4crxA a.60.9.1 18097 d.163.1.1 42157 1f44A 324 5.56e+00 a.60.9.1 64982 d.163.1.1 64983 1a0cA 438 5.73e+00 1a0cA c.1.15.3 29529 1dliA 402 5.78e+00 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1ekeA 230 6.45e+00 1ekeA c.55.3.1 33572 1mpxA 615 6.53e+00 b.18.1.13 85041 c.69.1.21 85042 1qi6A 475 7.08e+00 1euhA c.82.1.1 35373 1iz0A 302 7.19e+00 b.35.1.2 83821 c.2.1.1 83822 1exqA 154 7.27e+00 1b9dA c.55.3.2 33646 1mdl 359 7.28e+00 2mnr c.1.11.2 29247 d.54.1.1 38891 1a8d 452 7.53e+00 1a8d b.29.1.6 24262 b.42.4.2 25607 1kbuA 349 7.62e+00 a.60.9.1 72284 d.163.1.1 72285 1dkzA 219 7.77e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1ak1 310 7.89e+00 1ak1 c.92.1.1 35594 1ihrA 76 8.00e+00 1ihrA d.212.1.2 62392 1jdfA 447 8.11e+00 c.1.11.2 62897 d.54.1.1 62898 1dozA 309 8.27e+00 1ak1 c.92.1.1 35592 1dmgA 225 8.33e+00 1dmgA c.22.1.1 31036 1dkxA 219 8.37e+00 1dkzA unknown_sccs -446 unknown_sccs -3061 1r2rA 248 8.85e+00 c.1.1.1 -5147 1lyxA 248 9.52e+00 c.1.1.1 78304 1viaA 175 9.68e+00 c.37.1.2 -7021 1b8oA 284 1.09e+01 1b8oA c.56.2.1 33762 1h2aL 567 1.11e+01 1h2rL e.18.1.1 43299 1ec7A 446 1.27e+01 1bqg c.1.11.2 29218 d.54.1.1 38862 1om1A 332 1.35e+01 d.144.1.7 -11318 1tph1 247 1.35e+01 1amk 1yagG 125 1.37e+01 1d0nA d.109.1.1 40846 1nm1G 125 1.38e+01 d.109.1.1 80653 1uwvA 433 1.40e+01 unknown_sccs -3950 unknown_sccs -8107 1php 394 1.43e+01 16pk c.86.1.1 35452 1bl3A 160 1.45e+01 1b9dA c.55.3.2 33655 1d4xG 126 1.45e+01 1d0nA d.109.1.1 59109 1fds 327 1.48e+01 1fds c.2.1.2 29838 1diwA 441 1.52e+01 1a8d b.29.1.6 24264 b.42.4.2 25609 1huxA 270 1.53e+01 1huxA c.55.1.5 61278 1gg4A 452 1.53e+01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1ubkL 534 1.54e+01 e.18.1.1 88422 1itg 166 1.56e+01 1b9dA c.55.3.2 33661 1k1vA 41 1.59e+01 a.37.1.1 71999 1jtvA 327 1.62e+01 c.2.1.2 84230 1euhA 475 1.66e+01 1euhA c.82.1.1 35369 1a27 289 1.67e+01 1fds c.2.1.2 29839 1lp4A 332 1.69e+01 d.144.1.7 74170 1h2rL 534 1.69e+01 1h2rL e.18.1.1 43298 1ixmB 192 1.70e+01 1ixmA d.123.1.1 41115 1m2rA 327 1.72e+01 d.144.1.7 84760 1bea 127 1.73e+01 1bea a.52.1.2 17826 1ma3A 253 1.78e+01 c.31.1.5 78883 1i5rA 327 1.79e+01 c.2.1.2 83668 1bfa 134 1.81e+01 1bea a.52.1.2 17827 1k8kA 418 1.81e+01 c.55.1.1 68305 c.55.1.1 68306 1gln 468 1.82e+01 1gln a.97.1.1 18752 c.26.1.1 31588 1s1pA 331 1.85e+01 c.1.7.1 -5240 2mnr 357 1.88e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1jq5A 370 1.89e+01 e.22.1.2 67084 1lpuA 332 1.91e+01 d.144.1.7 74177 1fdt 327 1.91e+01 1fds c.2.1.2 29841 1d3vA 323 2.01e+01 1d3vA c.42.1.1 32559 1n83A 270 2.08e+01 a.123.1.1 80276 1o08A 221 2.09e+01 c.108.1.6 86525 1g0oA 283 2.10e+01 1ybvA c.2.1.2 60181 1hdiA 413 2.11e+01 16pk c.86.1.1 60964 1b9dA 163 2.18e+01 1b9dA c.55.3.2 33649 1i45A 248 2.18e+01 1amk c.1.1.1 61665 1sbxA 106 2.19e+01 1o6dA 163 2.22e+01 c.116.1.3 -6689 1h8mA 140 2.24e+01 1h8mA d.110.4.1 60782 1uzbA 516 2.25e+01 c.82.1.1 -8552 1ixmA 192 2.25e+01 1ixmA d.123.1.1 41114 1mwvA 714 2.28e+01 a.93.1.3 85161 a.93.1.3 85162 1nq7A 244 2.31e+01 a.123.1.1 -1682 1rlaA 323 2.31e+01 1d3vA c.42.1.1 32561 1hf8A 289 2.32e+01 1hg5A unknown_sccs -399 unknown_sccs -1628 1bcpC 199 2.35e+01 1bcpB b.40.2.1 25121 d.169.1.2 42430 1gm5A 780 2.42e+01 unknown_sccs 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1r71A 178 2.44e+01 1cv2A 296 2.44e+01 1bn6A c.69.1.8 34680 1hg5A 289 2.45e+01 1hg5A unknown_sccs -400 unknown_sccs -1629 1e3oC 160 2.47e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1mj5A 302 2.47e+01 c.69.1.8 -8326 1iz7A 295 2.48e+01 c.69.1.8 76982 1r0vA 305 2.50e+01 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1j93A 353 2.52e+01 c.1.22.1 66454 1hyvA 166 2.54e+01 1b9dA c.55.3.2 61424 1zpdA 568 2.57e+01 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1bj7 156 2.58e+01 1bj7 b.60.1.1 27113 1jyoA 130 2.60e+01 d.198.1.1 67483 1ad3A 452 2.61e+01 1ad3A c.82.1.1 35335 1itkA 731 2.69e+01 a.93.1.3 71417 a.93.1.3 71418 1gr0A 367 2.71e+01 c.2.1.3 70379 d.81.1.3 70380 1k4wA 252 2.71e+01 a.123.1.1 72068 1neyA 247 2.77e+01 c.1.1.1 80449 1ybvA 283 2.78e+01 1ybvA c.2.1.2 29948 1uaaA 673 2.80e+01 1pjr c.37.1.19 32401 c.37.1.19 32402 1r5jA 337 2.90e+01 unknown_sccs -8471 1a8vA 121 2.93e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 2sli 679 2.94e+01 2sli b.29.1.9 24274 b.68.1.1 27611 4sli 679 2.94e+01 2sli b.29.1.9 24275 b.68.1.1 27612 2frvB 536 2.94e+01 1h2rL e.18.1.1 43291 1xgsA 295 2.96e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1jpdX 324 3.03e+01 c.1.11.2 67014 d.54.1.1 67015 1iz6A 138 3.04e+01 b.34.5.2 76976 b.40.4.5 76977 2minB 522 3.04e+01 1qguB c.92.2.3 35610 1iw0A 215 3.06e+01 a.132.1.1 83720 1l7vC 249 3.14e+01 c.37.1.12 73674 1is8A 230 3.17e+01 d.96.1.1 66321 1km4A 247 3.20e+01 c.1.2.3 72740 1agrE 205 3.22e+01 1agrE a.91.1.1 18538 1i39A 225 3.23e+01 1ekeA c.55.3.1 61585 1hyeA 313 3.24e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1m1nB 522 3.37e+01 c.92.2.3 78418 3crxA 343 3.37e+01 4crxA a.60.9.1 18101 d.163.1.1 42161 1dvjC 246 3.44e+01 1dvjA c.1.2.3 28548 1a8l 226 3.46e+01 1a8l c.47.1.2 32777 c.47.1.2 32778 1aky 221 3.47e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1ei6A 406 3.48e+01 unknown_sccs -8436 3cbh 365 3.51e+01 1bvwA c.6.1.1 30665 1gw9A 388 3.51e+01 c.1.15.3 70658 1hg2A 289 3.53e+01 1hg5A unknown_sccs -401 unknown_sccs -1630 1d0hA 469 3.54e+01 1a8d b.29.1.6 24265 b.42.4.2 25610 1nnhA 294 3.56e+01 d.104.1.1 -10772 1h7zA 194 3.59e+01 1qhvA b.21.1.1 60733 1v6sA 390 3.63e+01 c.86.1.1 -8567 1tluA 130 3.64e+01 1shkA 173 3.65e+01 1shkA c.37.1.2 31932 1lgyA 269 3.67e+01 3tgl c.69.1.17 34758 1d2eA 397 3.67e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1jfiB 179 3.74e+01 1jfiB a.22.1.3 62937 1i7nA 309 3.74e+01 c.30.1.5 83681 d.142.1.3 83682 1eejA 216 3.75e+01 1eejA c.47.1.9 33057 d.17.3.1 38071 1ltsD 103 3.77e+01 3chbD b.40.2.1 24900 2wsyB 396 3.81e+01 2tysB c.79.1.1 35288 1hqcA 324 3.83e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 3minB 522 3.84e+01 1qguB c.92.2.3 35606 1fjgL 135 3.84e+01 1fjfL b.40.4.5 25346 1efiD 103 3.88e+01 3chbD b.40.2.1 24870 1djrD 103 3.90e+01 3chbD b.40.2.1 24865 1b0uA 262 3.95e+01 1b0uA c.37.1.12 32370 1ltqA 301 3.97e+01 c.108.1.9 78208 c.37.1.1 78209 3pgk 416 3.99e+01 16pk c.86.1.1 35451