# List of top-scoring protein chains for t2k-100-30-n_notor2-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 1pft 50 1.21e-01 1pft g.41.3.1 45206 2awpA 198 8.57e-01 1n4oA 276 1.16e+00 e.3.1.1 91621 1lurA 339 1.53e+00 b.30.5.4 84717 2btfA 375 2.30e+00 1yagA c.55.1.1,c.55.1.1 33429,33430 1a4eA 488 2.31e+00 1cf9A e.5.1.1 42806 1dgfA 497 2.77e+00 1cf9A e.5.1.1 42782 1hbzA 498 2.93e+00 1cf9A e.5.1.1 60937 1k0mA 241 3.13e+00 a.45.1.1,c.47.1.5 67949,67950 1y9wA 140 3.15e+00 2cy2A 174 3.28e+00 1foaA 348 3.57e+00 1foaA c.68.1.10 59929 1rc6A 261 3.65e+00 b.82.1.11 97287 1wc2A 181 4.20e+00 1gqoB 143 4.40e+00 c.23.13.1 76296 1s72Z 73 4.65e+00 g.41.8.1 105345 1a88A 275 4.78e+00 1brt c.69.1.12 34707 1xbfA 140 4.82e+00 d.273.1.1 109538 1k0nA 241 5.97e+00 a.45.1.1,c.47.1.5 67953,67954 1vqoZ 83 6.72e+00 1vckA 115 6.99e+00 1hvyA 288 7.12e+00 1bkpA d.117.1.1 41049 1yq7A 374 7.35e+00 1bhe 376 7.36e+00 1bhe b.80.1.3 28030 1zs7A 190 7.94e+00 1dghB 498 8.09e+00 1cf9A e.5.1.1 42791 1theA 260 8.37e+00 1theB d.3.1.1 37056 1mc0A 368 8.57e+00 d.110.2.1,d.110.2.1 78937,78938 1ejhA 190 9.10e+00 1ejhA d.86.1.1 40147 1id1A 153 9.12e+00 1id1A c.2.1.9 62286 1w2wB 191 9.13e+00 2bb6A 414 9.25e+00 1a9xB 379 1.00e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1g4iA 123 1.02e+01 1poa a.133.1.2 60241 1ugmA 125 1.05e+01 d.15.1.3 107827 1xqwA 293 1.07e+01 1akn 579 1.13e+01 2bce c.69.1.1 34626 1ww8A 439 1.17e+01 1s6bA 119 1.19e+01 a.133.1.2 98592 2aheA 267 1.29e+01 1mtzA 293 1.31e+01 c.69.1.7 79467 1bu6O 501 1.31e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1s31A 273 1.32e+01 2fflA 756 1.36e+01 1mioA 534 1.37e+01 1qguA c.92.2.3 35601 1tz9A 367 1.39e+01 c.1.15.6 107466 1vokA 200 1.40e+01 1ytbA d.129.1.1,d.129.1.1 41242,41243 1ogdA 131 1.43e+01 c.133.1.1 92893 117eA 286 1.47e+01 1wgjA b.40.5.1 25401 2exrA 524 1.50e+01 1n62B 809 1.50e+01 d.41.1.1,d.133.1.1 80092,80093 1cs0B 382 1.52e+01 1c3oB c.8.3.1,c.23.16.1 30740,31417 1o7eA 276 1.54e+01 e.3.1.1 92622 1c3oB 382 1.55e+01 1c3oB c.8.3.1,c.23.16.1 30744,31421 1vk6A 269 1.60e+01 d.113.1.4,d.113.1.4 100851,100852 2afwA 329 1.62e+01 3pghA 587 1.69e+01 1cqeA a.93.1.2,g.3.11.1 18726,44269 1ii2A 524 1.75e+01 c.91.1.1,c.109.1.1 66146,66147 1glaG 501 1.76e+01 1glcG c.55.1.4,c.55.1.4 33507,33508 1une 123 1.82e+01 1poa a.133.1.2 19583 1dx4A 586 1.85e+01 2bce c.69.1.1 34622 1cd1A 315 1.92e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1npdA 288 1.97e+01 c.2.1.7,c.58.1.5 80681,80682 1gweA 503 2.09e+01 e.5.1.1 70667 1jj2Y 73 2.16e+01 1ffkW g.41.8.1 63110 2bwrA 401 2.22e+01 1c30B 382 2.22e+01 c.8.3.1,c.23.16.1 30736,31413 1ipcA 217 2.24e+01 d.86.1.1 71257 1v8eA 224 2.24e+01 1kdgA 546 2.26e+01 c.3.1.2,d.16.1.1 77337,77338 2basA 431 2.27e+01 1rgyA 360 2.30e+01 e.3.1.1 97456 1efdN 266 2.36e+01 1efdN c.92.2.1 35597 1gnf 46 2.42e+01 1gatA g.39.1.1 45107 1ffkW 73 2.47e+01 1ffkW g.41.8.1 45315 1kfd 605 2.51e+01 1xwl c.55.3.5,e.8.1.1 33694,42987 1ats 386 2.53e+01 1ba1 c.55.1.1,c.55.1.1 33423,33424 1v4pA 157 2.53e+01 1qg3A 195 2.54e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 1xnzA 264 2.55e+01 1cyx 205 2.58e+01 1cyx b.6.1.2 23023 1ba1 386 2.59e+01 1ba1 c.55.1.1,c.55.1.1 33387,33388 1e1hB 174 2.61e+01 2d0iA 333 2.65e+01 1hd5A 213 2.65e+01 2eng b.52.1.1 26896 1g5aA 628 2.66e+01 b.71.1.1,c.1.8.1 65152,65153 1ecfA 504 2.71e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1tnrA 144 2.75e+01 2tnfA b.22.1.1 23867 1i5hW 50 2.76e+01 1i5hW b.72.1.1 61785 2fimA 276 2.79e+01 1yo8A 634 2.80e+01 1ecfB 504 2.81e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 1ui8A 638 2.83e+01 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 1dl0A 37 2.83e+01 1dl0A g.3.6.2 44112 2bcgG 453 2.95e+01 1dsvA 31 2.96e+01 1dsvA g.40.1.1 45174 1dxsA 80 2.97e+01 1cokA a.60.1.2 17944 2ct7A 86 3.00e+01 1bglA 1023 3.07e+01 1bglA b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22097,22098,23734,24358,28857 1ykdA 398 3.12e+01 1nct 106 3.19e+01 1wit b.1.1.4 21708 3vub 101 3.19e+01 3vub b.34.6.1 24613 1q35A 320 3.31e+01 c.94.1.1 95661 2bllA 345 3.34e+01 1tjlA 151 3.38e+01 a.2.14.1,g.39.1.13 107027,107028 1vprA 374 3.38e+01 1vkdA 338 3.39e+01 b.67.2.4 108644 2cfeA 162 3.44e+01 1ukvG 453 3.46e+01 c.3.1.3,c.3.1.3,d.16.1.6 107915,107916,107917 2f8lA 344 3.51e+01 1u04A 771 3.54e+01 b.34.14.1,c.55.3.10 107539,107540 2gw2A 198 3.60e+01 1wd2A 60 3.76e+01 g.44.1.1 109232 1k81A 36 3.86e+01 g.59.1.1 72136 1a0dA 440 3.87e+01 1a0cA c.1.15.3 29533 1w9aA 147 3.90e+01 2aaoA 166 3.94e+01 1gefA 123 3.95e+01 1gefA c.52.1.18 60465 1t3qB 788 4.09e+01 d.41.1.1,d.133.1.1 106369,106370 1miwA 404 4.10e+01 a.173.1.1,d.218.1.4 79162,79163 1qnnA 191 4.12e+01 1avmA a.2.11.1,d.44.1.1 15792,38755 1ypvA 313 4.14e+01 1gmpA 96 4.19e+01 1rgeA d.1.1.2 36036 1woyA 500 4.20e+01 1ifqA 138 4.21e+01 1ifqA d.110.4.1 62350 2std 172 4.25e+01 3stdA d.17.4.1 38085 1htqA 477 4.26e+01 d.15.9.1,d.128.1.1 71035,71036 1ddbA 195 4.26e+01 1ddbA f.1.4.1 43399 2bce 581 4.27e+01 2bce c.69.1.1 34625 1odhA 174 4.28e+01 d.239.1.1 86850 1ivwA 638 4.31e+01 b.30.2.1,d.17.2.1,d.17.2.1 71456,71457,71458 1c3jA 351 4.33e+01 1c3jA c.87.1.1 35459 2bgu 351 4.33e+01 1c3jA c.87.1.1 35460 1qh4A 380 4.34e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1xd3A 230 4.37e+01 1k4iA 233 4.38e+01 d.115.1.2 72056 1fc6A 388 4.51e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1ynfA 458 4.52e+01 1hzdA 272 4.52e+01 c.14.1.3 65969 1yc5A 246 4.53e+01 1a0fA 201 4.74e+01 1a0fA a.45.1.1,c.47.1.5 17737,33031 1tsg 98 4.74e+01 1tsg 1txvB 440 4.74e+01 1ip0A 50 4.77e+01 g.3.11.1 71253 1xxoA 147 4.80e+01 2abbA 364 4.84e+01 1rxwA 336 4.89e+01 a.60.7.1,c.120.1.2 98059,98060 1c76A 136 4.89e+01 2sak d.15.5.1 37718 1ga1A 372 5.04e+01 1ga1A c.41.1.2 32557 1xyfA 436 5.23e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1wrvA 308 5.42e+01 1dk4A 252 5.42e+01 1dk4A e.7.1.1 42970 1iciA 256 5.47e+01 1iciA c.31.1.5 62266 1tys 265 5.51e+01 1bkpA d.117.1.1 40937 1a81A 254 5.57e+01 1a81A d.93.1.1,d.93.1.1 40507,40508 1mswD 883 5.57e+01 e.8.1.3 79427 1w0pA 781 5.59e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1idm 343 5.61e+01 1cnzA c.77.1.1 35035 1i50B 1224 5.63e+01 e.29.1.1 61755 1iqyA 638 5.69e+01 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 1eggA 147 5.70e+01 1eggA d.169.1.1 42333 2c07A 285 5.75e+01 1gk1B 522 5.77e+01 1vb5A 276 5.79e+01 3eipA 84 5.91e+01 3eipA d.26.2.1 38434 1uy4A 145 6.01e+01 b.18.1.10 108131 1ooyA 481 6.02e+01 c.124.1.3,c.124.1.2 93388,93389 1zm8A 259 6.07e+01 1mh0A 287 6.13e+01 b.47.1.2 79110 1b9cA 236 6.14e+01 1ema d.22.1.1 38358 1wfxA 186 6.16e+01 1dl6A 58 6.34e+01 1dl6A g.41.3.1 45207 1g8kB 133 6.43e+01 1g8jB b.33.1.1 24435 1dar 691 6.59e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1j1bA 420 6.62e+01 d.144.1.7 90758 1qklA 127 6.64e+01 1qklA a.143.1.2 39754 1kv7A 488 6.64e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1bet 107 6.69e+01 1bndA g.17.1.3 44801 2fqpA 97 6.69e+01 1iv3A 152 6.70e+01 d.79.5.1 76828 1n0uA 842 6.71e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1smlA 269 6.74e+01 1smlA d.157.1.1 42053 1qpbA 563 6.77e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1vk4A 298 6.83e+01 c.72.1.1 100850 1vypX 364 6.86e+01 c.1.4.1 108905 1ptq 50 6.90e+01 1ptq g.49.1.1 45349 1yd0A 96 6.91e+01 1w27A 714 6.99e+01 1qznA 173 7.13e+01 b.2.2.2 104669 1trb 320 7.25e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1olzA 663 7.27e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1ayfB 105 7.34e+01 1ayfA d.15.4.1 37685 2f4eA 180 7.39e+01 2absA 383 7.58e+01 1y8cA 246 7.62e+01 1wxiA 275 7.66e+01 1ci9A 392 7.69e+01 e.3.1.1 64767 1h0hA 977 7.73e+01 b.52.2.2,c.81.1.1 76435,76436 1adn 92 7.75e+01 1adn g.48.1.1 45348 1h6rA 236 7.80e+01 d.22.1.1 65683 1x9pA 523 7.80e+01 1ds9A 198 7.84e+01 1ds9A c.10.3.1 30879 1y7bA 542 7.84e+01 1ubkS 267 7.86e+01 e.19.1.1 88423 1h2rS 267 7.88e+01 2frvA e.19.1.1 43310 1w8oA 601 7.91e+01 1y791 680 7.95e+01 1e4uA 78 7.96e+01 1e4uA g.44.1.1 59231 1mnaA 298 8.01e+01 c.69.1.22 79322 1wuiS 267 8.05e+01 1f83A 425 8.08e+01 1f82A d.92.1.7 40306 1vyrA 364 8.23e+01 c.1.4.1 108906 2aq6A 147 8.23e+01 1a67 108 8.31e+01 1cewI d.17.1.2 38000 4rxn 54 8.32e+01 1rb9 g.41.5.1 45226 1z6uA 150 8.41e+01 1d2tA 231 8.41e+01 1d2tA a.111.1.1 19052 1qdlA 422 8.54e+01 1qdlA d.161.1.1 42088 1qbkB 890 8.54e+01 1qbkB a.118.1.1 19127 1ur6B 52 8.61e+01 g.44.1.1 99812 1suuA 312 8.64e+01 b.68.10.1 99006 1zgmA 248 8.64e+01 1zkcA 197 8.67e+01 1a3gA 308 8.69e+01 1daaA e.17.1.1 43286 1txuA 273 8.72e+01 a.222.1.1 107439 1cojA 212 8.79e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1r17A 343 8.92e+01 b.2.3.4,b.2.3.4 96796,96797 1jbuH 254 8.92e+01 5ptp b.47.1.2 62856 2sak 121 8.95e+01 2sak d.15.5.1 37711