# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1wosA 364 4.85e-54 b.44.2.1 109468 d.250.1.1 109469 1v5vA 401 3.25e-51 1wsrA 375 7.40e-51 1vloA 381 1.07e-50 b.44.2.1 108838 d.250.1.1 108839 1pj5A 830 5.19e-46 b.44.2.1 94742 c.3.1.2 94743 d.16.1.5 94744 d.250.1.1 94745 1vlyA 338 1.19e-16 b.44.2.1 108871 d.250.1.1 108872 1nrkA 328 1.56e-16 b.44.2.1 92089 d.250.1.1 92090 1x31C 206 1.89e-07 1rlw 126 2.95e-01 1rlw b.7.1.1 23177 1dkgD 383 3.13e-01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1ja1A 622 4.86e-01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1b1cA 181 4.97e-01 1amoA c.23.5.2 31212 1xzpB 150 8.11e-01 1ko3A 230 9.05e-01 d.157.1.1 90974 1tdj 514 9.38e-01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1amoA 615 2.08e+00 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1u02A 239 2.22e+00 c.108.1.15 107538 1s95A 333 2.63e+00 d.159.1.3 105375 1b87A 181 2.64e+00 1b87A d.108.1.1 40797 1g7tA 594 2.78e+00 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1j6wA 175 2.87e+00 1j98A d.185.1.2 62663 1pz1A 333 3.07e+00 c.1.7.1 95390 1g7rA 594 3.37e+00 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 2a4nA 182 3.40e+00 1n71A 180 3.70e+00 d.108.1.1 85370 9gafA 295 3.71e+00 1apyA d.153.1.5 42008 1p4kA 295 3.92e+00 d.153.1.5 87772 2ebn 289 4.05e+00 2ebn c.1.8.5 28990 1g7sA 594 5.14e+00 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1efcA 393 5.17e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1q44A 326 5.43e+00 c.37.1.5 95779 1vb5A 276 5.66e+00 1xsjA 778 6.46e+00 1dgsA 667 6.68e+00 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1b93A 152 6.77e+00 1b93A c.24.1.2 31507 1e0wA 313 6.95e+00 1taxA c.1.8.3 59150 1od8A 313 7.08e+00 c.1.8.3 86838 1nmtA 392 7.12e+00 1nmtA d.108.1.2 40823 d.108.1.2 40824 1tv8A 340 7.18e+00 c.1.28.3 107352 1v5sA 126 7.36e+00 d.129.6.1 108384 1ceqA 316 7.37e+00 1ceqA c.2.1.5 30163 d.162.1.1 42130 1ss4A 153 7.39e+00 d.32.1.6 105976 1ur4A 399 7.55e+00 1v0lA 313 7.98e+00 c.1.8.3 108207 1txdA 385 8.01e+00 a.87.1.1 107422 b.55.1.1 107423 1vjtA 483 8.10e+00 c.2.1.5 100833 d.162.1.2 100834 1s6yA 450 8.36e+00 c.2.1.5 105314 d.162.1.2 105315 2fcr 173 8.42e+00 1rcf c.23.5.1 31151 1fjmA 330 8.50e+00 1auiA d.159.1.3 42082 1dbxA 158 8.64e+00 1dbuA d.116.1.1 40928 1io1A 398 8.66e+00 1io1A e.32.1.1 62611 1tux 301 9.13e+00 1taxA c.1.8.3 28907 1nd7A 374 9.34e+00 d.148.1.1 91817 1bob 320 9.35e+00 1bob d.108.1.1 40816 1cz4A 185 9.44e+00 1cz4A b.52.2.3 26934 d.31.1.1 38468 1t2dA 322 9.46e+00 c.2.1.5 99084 d.162.1.1 99085 1l8bA 190 9.79e+00 d.86.1.1 73683 1b93B 152 9.87e+00 1b93A c.24.1.2 31508 1s48A 609 1.00e+01 e.8.1.4 98475 1jcfA 344 1.01e+01 c.55.1.1 62878 c.55.1.1 62879 1ej1A 190 1.02e+01 1ejhA d.86.1.1 40144 1j7nA 776 1.10e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1b0pA 1231 1.10e+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 1hrhA 136 1.12e+01 1rthA c.55.3.1 33577 1rfmA 344 1.13e+01 c.122.1.1 97385 1kfiA 572 1.15e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1jceA 344 1.20e+01 c.55.1.1 62876 c.55.1.1 62877 1li4A 432 1.22e+01 c.2.1.4 84616 c.23.12.3 84617 1ba1 386 1.25e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1wvfA 520 1.28e+01 1bupA 386 1.28e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1jk7A 323 1.32e+01 1auiA d.159.1.3 63144 1a7tA 232 1.33e+01 1a7tA d.157.1.1 42041 1k6aA 303 1.35e+01 c.1.8.3 72081 1nbwA 607 1.36e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1c93A 265 1.36e+01 2ebn c.1.8.5 28998 1nytA 271 1.40e+01 c.2.1.7 86417 c.58.1.5 86418 1kekA 1231 1.40e+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 1qysA 106 1.40e+01 k.41.1.1 96603 1f06A 320 1.42e+01 1dapA c.2.1.3 59556 d.81.1.3 59557 2a8jA 420 1.51e+01 1xwfA 431 1.51e+01 1k07A 263 1.54e+01 d.157.1.1 77218 1cjaA 342 1.57e+01 1cjaA d.144.1.3 41708 1i1wA 303 1.63e+01 c.1.8.3 76732 1c5kA 439 1.69e+01 1crzA b.68.4.1 27630 c.51.2.1 33212 1nrwA 288 1.71e+01 c.108.1.10 86128 1miwA 404 1.77e+01 a.173.1.1 79162 d.218.1.4 79163 1kcqA 104 1.84e+01 d.109.1.1 68449 1olmA 403 1.89e+01 a.5.3.1 104008 b.132.1.1 104009 c.13.1.1 104010 2a8lA 420 1.90e+01 1m5wA 243 1.91e+01 c.1.24.1 84836 2bi0A 337 1.94e+01 1w9hA 427 2.06e+01 1fvuA 133 2.10e+01 1ixxB d.169.1.1 42345 1rvkA 382 2.12e+01 c.1.11.2 97928 d.54.1.1 97929 3pgm 241 2.12e+01 1qhfA c.60.1.1 33982 1gcoA 261 2.14e+01 1ybvA c.2.1.2 29884 1m98A 317 2.14e+01 a.175.1.1 78866 d.17.4.6 78867 1at0 145 2.15e+01 1at0 b.86.1.1 28374 2as0A 396 2.16e+01 1jl3A 139 2.17e+01 c.44.1.1 66826 1j7nB 776 2.17e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1u0mA 382 2.17e+01 c.95.1.2 107557 c.95.1.2 107558 1ldg 316 2.19e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1ckmA 330 2.24e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 2a8mA 420 2.24e+01 3dapA 320 2.27e+01 1dapA c.2.1.3 30051 d.81.1.3 39966 1xfsA 178 2.32e+01 d.129.3.5 109589 1ipcA 217 2.35e+01 d.86.1.1 71257 1cknA 330 2.38e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1dfmA 223 2.41e+01 1d2iA c.52.1.5 33295 1rz1A 161 2.43e+01 b.45.1.2 98124 1bu5A 147 2.51e+01 5nul c.23.5.1 31155 1bq3B 246 2.51e+01 1qhfA c.60.1.1 33979 2bklA 695 2.51e+01 1d2eA 397 2.52e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1f60A 458 2.53e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1m2xA 223 2.55e+01 d.157.1.1 84764 1d2iA 223 2.58e+01 1d2iA c.52.1.5 33297 1jalA 363 2.59e+01 c.37.1.8 84138 d.15.10.2 84139 1kay 381 2.60e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1b3rA 431 2.62e+01 1b3rA c.2.1.4 30106 c.23.12.3 31366 1te0A 318 2.64e+01 1edt 271 2.70e+01 2ebn c.1.8.5 28993 1dapA 320 2.73e+01 1dapA c.2.1.3 30053 d.81.1.3 39968 1o6uA 403 2.74e+01 a.5.3.1 92589 b.132.1.1 92590 c.13.1.1 92591 2cy0A 263 2.76e+01 1z0wA 207 2.83e+01 1mdwA 328 2.90e+01 d.3.1.3 84934 1jf8A 131 2.92e+01 c.44.1.1 66621 1vjeA 166 2.93e+01 d.185.1.2 100807 1innA 166 3.00e+01 1j98A d.185.1.2 62608 2ac5A 316 3.05e+01 2bnjA 303 3.07e+01 1qu6A 179 3.17e+01 1qu6A d.50.1.1 38784 d.50.1.1 38785 1obbA 480 3.18e+01 c.2.1.5 86760 d.162.1.2 86761 1gokA 303 3.19e+01 c.1.8.3 65420 1f4pA 147 3.19e+01 5nul c.23.5.1 59651 1eagA 342 3.26e+01 1eagA b.50.1.2 26826 1dbuA 158 3.28e+01 1dbuA d.116.1.1 40930 1jjtA 228 3.28e+01 1a7tA d.157.1.1 63139 1a7aA 432 3.30e+01 1b3rA c.2.1.4 30104 c.23.12.3 31364 2bvlA 543 3.30e+01 1geeA 261 3.32e+01 c.2.1.2 90509 1cnuA 137 3.32e+01 1cof d.109.1.2 40862 1jnyA 435 3.37e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1hf2A 210 3.39e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1t8sA 484 3.45e+01 c.56.2.1 106679 1u32A 293 3.54e+01 d.159.1.3 107631 1y9wA 140 3.55e+01 1a8rA 221 3.56e+01 1a8rA d.96.1.1 40587 1kwsA 261 3.58e+01 c.68.1.7 73083 1fggA 261 3.58e+01 1fggA c.68.1.7 34576 1ky9A 448 3.71e+01 b.36.1.4 73198 b.47.1.1 73199 1g6aA 271 3.74e+01 1btl e.3.1.1 42704 1yioA 208 3.76e+01 1cjxA 357 3.77e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 2fx2 147 3.83e+01 1rcf c.23.5.1 31158 1vl7A 157 3.86e+01 b.45.1.1 108732 1cnzA 363 3.87e+01 1cnzA c.77.1.1 35061 1pcfA 66 3.98e+01 1pcfA d.18.1.1 38142