# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1gq6A 313 5.82e-26 c.42.1.1 70341 2cevA 299 2.83e-24 1d3vA c.42.1.1 32576 1rlaA 323 4.10e-23 1d3vA c.42.1.1 32561 1d3vA 323 5.74e-23 1d3vA c.42.1.1 32559 1kzhA 555 3.21e-01 c.89.1.1 73361 1i7qB 193 5.22e-01 1qdlB c.23.16.1 61902 1mnaA 298 5.66e-01 c.69.1.22 79322 1jvbA 347 7.21e-01 b.35.1.2 77181 c.2.1.1 77182 1iyxA 432 7.76e-01 c.1.11.1 83815 d.54.1.1 83816 1rxwA 336 9.13e-01 a.60.7.1 -1041 c.120.1.2 -6680 3rabA 169 9.24e-01 1ctqA c.37.1.8 32018 1ig3A 263 9.32e-01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1e3jA 352 9.49e-01 1e3jA b.35.1.2 24765 c.2.1.1 29781 1jscA 630 9.72e-01 c.31.1.3 67224 c.36.1.5 67225 c.36.1.9 67226 1tk1A 260 1.01e+00 1i2aA 219 1.03e+00 e.24.1.1 -12012 1i1qB 192 1.05e+00 1qdlB c.23.16.1 61544 1g8aA 227 1.12e+00 c.66.1.3 -8049 1sjdA 368 1.22e+00 1pwhA 327 1.36e+00 c.79.1.1 -8524 1l4uA 176 1.38e+00 c.37.1.2 73568 1rjdA 334 1.47e+00 unknown_sccs -8079 1cjsA 219 1.48e+00 1cjsA e.24.1.1 43354 1eceA 358 1.54e+00 1eceA c.1.8.3 28813 1fs5A 266 1.71e+00 unknown_sccs 65044 1i6wA 181 1.76e+00 1i6wA c.69.1.18 61859 1ispA 181 1.84e+00 c.69.1.18 76778 1deaA 266 1.86e+00 1deaA unknown_sccs 31760 1dbqA 289 2.06e+00 1qpzA c.93.1.1 35666 1tk9A 188 2.09e+00 1m1nA 491 2.09e+00 c.92.2.3 78417 1c0dA 358 2.09e+00 1eceA c.1.8.3 28815 1fsfA 266 2.22e+00 unknown_sccs 65047 1vpwA 340 2.35e+00 1qpzA a.35.1.5 17087 c.93.1.1 35680 1i24A 404 2.50e+00 c.2.1.2 83663 1vgvA 384 2.65e+00 c.87.1.3 -8575 1mwmA 320 2.76e+00 c.55.1.1 79580 c.55.1.1 79581 1qpzA 340 2.83e+00 1qpzA a.35.1.5 17097 c.93.1.1 35673 1pbtA 244 3.06e+00 unknown_sccs -6866 1fp4A 492 3.13e+00 c.92.2.3 76187 1h5qA 265 3.38e+00 1cydA c.2.1.2 60643 1qidA 537 3.49e+00 2bce c.69.1.1 34593 1f6dA 376 3.52e+00 1f6dA c.87.1.3 35467 1ks2A 219 3.59e+00 unknown_sccs 72908 d.58.40.1 72909 1qc7A 101 3.64e+00 1qc7A a.118.14.1 18456 1pujA 282 3.66e+00 c.37.1.8 88294 1i36A 264 3.72e+00 a.100.1.8 71108 c.2.1.6 71109 1rkqA 282 4.01e+00 c.108.1.10 -6847 1vj0A 380 4.24e+00 b.35.1.2 -3697 c.2.1.1 -5721 1kagA 173 4.36e+00 c.37.1.2 72249 1lkzA 219 4.54e+00 unknown_sccs 73991 d.58.40.1 73992 1ecl 597 4.57e+00 1ecl e.10.1.1 43238 1g6oA 330 4.83e+00 1g6oA c.37.1.11 32430 1hzdA 272 4.99e+00 c.14.1.3 65969 1rpjA 288 5.05e+00 2dri c.93.1.1 35656 1b57A 358 5.12e+00 1dosA c.1.10.2 29177 1fcjA 322 5.30e+00 1oasA c.79.1.1 35289 1e66A 543 5.54e+00 c.69.1.1 59291 1nriA 306 5.56e+00 c.80.1.3 86123 1o6dA 163 5.59e+00 c.116.1.3 -6689 1mw9X 592 5.62e+00 e.10.1.1 -11986 1o0uA 429 5.65e+00 c.118.1.1 80743 1wetA 340 5.76e+00 1qpzA a.35.1.5 17093 c.93.1.1 35670 1vxrA 537 5.86e+00 2bce c.69.1.1 34595 1lkvX 232 5.99e+00 a.118.14.1 73980 1oasA 322 6.22e+00 1oasA c.79.1.1 35293 6pfkA 319 6.32e+00 3pfk c.89.1.1 35583 1nal1 297 6.89e+00 1nal3 1ea5A 537 7.02e+00 2bce c.69.1.1 34592 1ig0A 319 7.07e+00 1ig0A b.82.6.1 62354 c.100.1.1 62355 4pfk 319 7.09e+00 3pfk c.89.1.1 35582 3minC 491 7.14e+00 1qguA c.92.2.3 35607 1nal3 297 7.31e+00 1nal3 1qrrA 394 7.34e+00 1qrrA c.2.1.2 29824 1fdyA 297 7.42e+00 1nal3 c.1.10.1 29071 1ekxA 311 7.44e+00 3csuA c.78.1.1 35088 c.78.1.1 35089 2fcr 173 7.96e+00 1rcf c.23.5.1 31151 1s6yA 450 8.02e+00 1qlpA 394 8.08e+00 1ovaA e.1.1.1 42628 3pfk 319 8.41e+00 3pfk c.89.1.1 35581 1nouA 507 8.50e+00 c.1.8.6 85932 d.92.2.1 85933 1o1zA 234 8.50e+00 c.1.18.3 86555 1a3h 300 8.64e+00 7a3hA c.1.8.3 28819 1e9iA 431 8.75e+00 c.1.11.1 64818 d.54.1.1 64819 1j6nA 303 8.75e+00 1vi2A 300 8.87e+00 c.2.1.7 -5960 c.58.1.5 -6366 1nowA 507 8.95e+00 c.1.8.6 85936 d.92.2.1 85937 1vkmA 297 9.04e+00 1nipA 289 9.13e+00 1cp2A c.37.1.10 32263 1o94A 729 9.82e+00 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1npdA 288 9.83e+00 c.2.1.7 80681 c.58.1.5 80682 1gpjA 404 9.84e+00 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1hjrA 158 9.84e+00 1hjrA c.55.3.6 33727 1d9tA 289 9.96e+00 1deaA 2tmdA 729 1.00e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1gy8A 397 1.01e+01 c.2.1.2 83376 1fgs 428 1.02e+01 1fgs c.59.1.2 33959 c.72.2.2 34962 1q7zA 566 1.03e+01 c.1.21.2 -5638 c.1.26.1 -5666 1ufkA 254 1.05e+01 unknown_sccs -8103 1fp6A 289 1.06e+01 1cp2A c.37.1.10 32243 1vjnA 220 1.07e+01 unknown_sccs -11458 1o58A 303 1.10e+01 c.79.1.1 -8503 2oneA 436 1.10e+01 4enl c.1.11.1 29203 d.54.1.1 38847 1djnA 729 1.11e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1tqyA 424 1.11e+01 1iibA 106 1.12e+01 1iibA c.44.2.1 32648 1ne7A 289 1.12e+01 unknown_sccs -6858 1f74A 293 1.13e+01 1nal3 c.1.10.1 29079 1pdz 434 1.16e+01 4enl c.1.11.1 29215 d.54.1.1 38859 1hdiA 413 1.16e+01 16pk c.86.1.1 60964 4enl 436 1.17e+01 4enl c.1.11.1 29202 d.54.1.1 38846 1dosA 358 1.18e+01 1dosA c.1.10.2 29175 1ba9 153 1.18e+01 1mfmA b.1.8.1 22272 1rvgA 305 1.18e+01 c.1.10.2 -5500 1jpmA 366 1.21e+01 c.1.11.2 67031 d.54.1.1 67032 1u08A 386 1.23e+01 1bzyA 217 1.23e+01 1qk3A c.61.1.1 34071 2minA 491 1.26e+01 1qguA c.92.2.3 35609 1b0pA 1231 1.28e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1kekA 1231 1.29e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1wab 232 1.30e+01 1wab c.23.10.3 31341 1p5jA 372 1.32e+01 1scuA 288 1.33e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1mfmA 153 1.33e+01 1mfmA b.1.8.1 22246 2scuA 288 1.34e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1f2dA 341 1.37e+01 1f2dA c.79.1.1 35298 1j2rA 199 1.37e+01 unknown_sccs -6799 1pedA 351 1.39e+01 1pedA b.35.1.2 24753 c.2.1.1 29769 1d7kA 421 1.42e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 7a3hA 303 1.43e+01 7a3hA c.1.8.3 28817 1ad1A 266 1.44e+01 1aj2 c.1.21.1 29668 1ag9A 175 1.44e+01 1rcf c.23.5.1 31178 1kevA 351 1.47e+01 1pedA b.35.1.2 24749 c.2.1.1 29765 1tbmA 326 1.50e+01 1f6kA 293 1.50e+01 1nal3 c.1.10.1 29081 1pl8A 356 1.52e+01 b.35.1.2 -3716 c.2.1.1 -5740 1t64A 377 1.52e+01 1g99A 408 1.56e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1gudA 288 1.57e+01 c.93.1.1 83326 1at1A 310 1.58e+01 3csuA c.78.1.1 35168 c.78.1.1 35169 1es9A 232 1.58e+01 1wab c.23.10.3 31340 1ka2A 499 1.62e+01 d.92.1.5 77305 1pz1A 333 1.62e+01 c.1.7.1 -5255 2dri 271 1.63e+01 2dri c.93.1.1 35637 1uocA 289 1.64e+01 unknown_sccs -7671 1e2b 106 1.67e+01 1iibA c.44.2.1 32650 1poxA 585 1.67e+01 1poxA c.31.1.3 31731 c.36.1.5 31793 c.36.1.9 31794 1lqaA 346 1.72e+01 c.1.7.1 84674 1qguA 478 1.72e+01 1qguA c.92.2.3 35625 1jqbA 351 1.73e+01 b.35.1.2 77151 c.2.1.1 77152 1jq5A 370 1.74e+01 e.22.1.2 67084 1oneA 436 1.75e+01 4enl c.1.11.1 29200 d.54.1.1 38844 7odcA 424 1.76e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1dcs 311 1.79e+01 1dcs b.82.2.1 28124 1nkqA 259 1.81e+01 9apiA 347 1.83e+01 1ovaA e.1.1.1 42630 1gpmA 525 1.86e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1h5vA 304 1.87e+01 c.1.8.3 70898 1cp3A 277 1.89e+01 1pauA c.17.1.1 30992 1hm5A 558 1.90e+01 c.80.1.2 76717 1qh8A 478 1.91e+01 1qguA c.92.2.3 35633 1mkzA 172 1.92e+01 c.57.1.1 84998 1oivA 191 1.92e+01 c.37.1.8 -7074 1ggqA 174 1.95e+01 1ggqA a.24.12.1 60486 1h1lA 481 1.95e+01 c.92.2.3 70851 1edg 380 1.97e+01 1edg c.1.8.3 28807 1gtmA 419 1.98e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1rxxA 421 2.03e+01 unknown_sccs -10982 3csuA 310 2.06e+01 3csuA c.78.1.1 35094 c.78.1.1 35095 1j97A 211 2.07e+01 1f5sA c.108.1.4 62753 1f5sA 211 2.07e+01 1f5sA c.108.1.4 59656 1iatA 557 2.16e+01 1dqrA c.80.1.2 62123 1ih8A 271 2.20e+01 2nsyA c.26.2.1 62377 1b25A 619 2.23e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1mqsA 671 2.24e+01 e.25.1.1 79414 1pea 385 2.26e+01 1pea c.93.1.1 35662 1eswA 500 2.30e+01 1cwyA c.1.8.1 59500 1eo1A 124 2.32e+01 1eo1A c.55.5.1 33739 3tmkA 216 2.39e+01 3tmkA c.37.1.1 31920 1r2rA 248 2.42e+01 c.1.1.1 -5147 1kezA 300 2.42e+01 c.69.1.22 68546 1nf2A 268 2.44e+01 c.108.1.10 -6842 1vjrA 271 2.44e+01 unknown_sccs -6853 1viaA 175 2.46e+01 c.37.1.2 -7021 1k66A 149 2.47e+01 c.23.1.1 -6406 1oc2A 348 2.48e+01 c.2.1.2 -5753 1js8A 394 2.51e+01 a.86.1.1 67219 b.112.1.1 67220 1ako 268 2.51e+01 1ako d.151.1.1 41779 1qapA 296 2.53e+01 1qpoA c.1.17.1 29559 d.41.2.1 38595 2nsyA 271 2.55e+01 2nsyA c.26.2.1 31612 1rljA 139 2.55e+01 1h0cA 392 2.56e+01 c.67.1.3 83424 1kqpA 271 2.59e+01 c.26.2.1 72883 2tmkA 216 2.62e+01 3tmkA c.37.1.1 31928 1tph1 247 2.63e+01 1amk 1m5tA 124 2.66e+01 c.23.1.1 78660 1h0hA 977 2.68e+01 b.52.2.2 76435 c.81.1.1 76436 1uj2A 252 2.71e+01 c.37.1.6 -7061 1iukA 140 2.71e+01 c.2.1.8 83712 1k8cA 322 2.71e+01 c.1.7.1 72172 1ceqA 316 2.73e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 2napA 723 2.75e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1gd9A 389 2.76e+01 c.67.1.1 60454 1o5kA 306 2.77e+01 c.1.10.1 -5482 1dqrA 557 2.77e+01 1dqrA c.80.1.2 35305 1fsz 372 2.78e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1ofuA 320 2.78e+01 c.32.1.1 86972 d.79.2.1 86973 1gdeA 389 2.82e+01 c.67.1.1 60456 1dhpA 292 2.84e+01 1dhpA c.1.10.1 29097 1na3A 91 2.85e+01 k.38.1.1 85481 1usgA 346 2.85e+01 c.93.1.1 -8635 1cwyA 500 2.91e+01 1cwyA c.1.8.1 28789 1nsyA 271 2.92e+01 2nsyA c.26.2.1 31614 1srrA 124 2.98e+01 1dz3A c.23.1.1 31110 1f89A 291 3.00e+01 d.160.1.1 64988 1h2bA 359 3.00e+01 b.35.1.2 -3679 c.2.1.1 -5703 1k8qA 377 3.03e+01 c.69.1.6 72177 1ldg 316 3.04e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1j5rA 371 3.05e+01 1pii 452 3.05e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1ls6A 295 3.11e+01 c.37.1.5 -7026 1h3fA 432 3.12e+01 c.26.1.1 76631 d.66.1.4 76632 1fnnA 389 3.12e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1khdA 345 3.12e+01 a.46.2.1 77400 c.27.1.1 77401 1l6oA 95 3.14e+01 b.36.1.1 84534 1i1gA 141 3.15e+01 a.4.5.32 65982 d.58.4.2 65983 1mi3A 322 3.16e+01 c.1.7.1 -5257 1a8i 842 3.16e+01 1a8i c.87.1.4 35490 1p0kA 349 3.16e+01 c.1.4.1 87648 1l7mA 211 3.19e+01 c.108.1.4 73664 1o2dA 371 3.19e+01 e.22.1.2 86591 1bix 287 3.27e+01 1bix d.151.1.1 41781 1k4iA 233 3.30e+01 d.115.1.2 72056 1v3vA 333 3.30e+01 1xo1A 291 3.34e+01 1exnA a.60.7.1 18086 c.120.1.2 33356 1ebbA 202 3.34e+01 c.60.1.1 64900 1kepA 348 3.34e+01 c.2.1.2 68536 1gca 309 3.36e+01 1gca c.93.1.1 35659 1hgxA 183 3.36e+01 1tc1A c.61.1.1 34027 1ko7A 314 3.36e+01 c.98.2.1 72797 c.91.1.2 72798 1ewkA 490 3.42e+01 1ewkA c.93.1.1 35712 1oyb 400 3.44e+01 1oyc c.1.4.1 28602 1knqA 175 3.46e+01 c.37.1.17 72786 1c3pA 375 3.47e+01 1c3pA c.42.1.2 32606 1bmtA 246 3.48e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1hl2A 297 3.49e+01 c.1.10.1 83581 1g5pA 289 3.52e+01 1cp2A c.37.1.10 32253 1ix9A 205 3.63e+01 a.2.11.1 76899 d.44.1.1 76900 1mh1 186 3.64e+01 1eesA c.37.1.8 32002 1eexA 554 3.69e+01 1dioA c.1.19.3 29650 1mx3A 347 3.71e+01 c.2.1.4 79638 c.23.12.1 79639 1t2dA 322 3.71e+01 c.2.1.5 -5920 d.162.1.1 -11487 1edt 271 3.72e+01 2ebn c.1.8.5 28993 1hlgA 371 3.72e+01 1hlgA c.69.1.6 34656 1oyc 400 3.73e+01 1oyc c.1.4.1 28603 1t6t1 118 3.76e+01 1n57A 291 3.78e+01 c.23.16.2 85328 1lk5A 229 3.78e+01 unknown_sccs 73960 d.58.40.1 73961 1q3kA 259 3.80e+01 unknown_sccs -6335 1gtxA 472 3.82e+01 1gtxA 1ut8A 291 3.83e+01 a.60.7.1 -1036 c.120.1.2 -6675 1exnA 290 3.87e+01 1exnA a.60.7.1 18088 c.120.1.2 33358 1dn1A 594 3.87e+01 1dn1A e.25.1.1 43357 1t6cA 315 3.89e+01 1km4A 247 3.89e+01 c.1.2.3 72740 1kt6A 183 3.93e+01 b.60.1.1 84466 1h2eA 207 3.94e+01 c.60.1.1 70857 1exnB 290 3.95e+01 1exnA a.60.7.1 18089 c.120.1.2 33359 1bgp 309 3.96e+01 1bgp a.93.1.1 18690