# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 4.09e-52 b.44.2.1 109468 d.250.1.1 109469 1wsrA 375 3.59e-49 1vloA 381 1.03e-48 b.44.2.1 108838 d.250.1.1 108839 1v5vA 401 2.25e-48 1pj5A 830 9.38e-45 b.44.2.1 94742 c.3.1.2 94743 d.16.1.5 94744 d.250.1.1 94745 1vlyA 338 8.01e-16 b.44.2.1 108871 d.250.1.1 108872 1nrkA 328 8.60e-16 b.44.2.1 92089 d.250.1.1 92090 1x31C 206 6.70e-07 1xzpB 150 3.16e-01 1dkgD 383 5.90e-01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1tdj 514 9.30e-01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1dgsA 667 1.20e+00 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1rlw 126 1.32e+00 1rlw b.7.1.1 23177 1g7tA 594 3.18e+00 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1efcA 393 3.57e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1jw3A 140 3.65e+00 d.208.1.1 67373 1ss4A 153 3.93e+00 d.32.1.6 105976 1m2xA 223 4.60e+00 d.157.1.1 84764 1zc1A 208 4.80e+00 1od8A 313 5.22e+00 c.1.8.3 86838 1v0lA 313 5.29e+00 c.1.8.3 108207 1e0wA 313 5.40e+00 1taxA c.1.8.3 59150 1g7rA 594 5.99e+00 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1ur4A 399 6.06e+00 1g7sA 594 6.10e+00 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1tux 301 6.18e+00 1taxA c.1.8.3 28907 1ceqA 316 7.13e+00 1ceqA c.2.1.5 30163 d.162.1.1 42130 1s95A 333 7.17e+00 d.159.1.3 105375 1qydA 313 7.25e+00 c.2.1.2 96583 1vl6A 388 7.58e+00 c.2.1.7 108724 c.58.1.3 108725 1v0eA 666 7.63e+00 1g61A 228 8.55e+00 1g61A d.126.1.1 41126 2minB 522 8.72e+00 1qguB c.92.2.3 35610 3minB 522 8.85e+00 1qguB c.92.2.3 35606 1dleA 298 9.05e+00 1dleA b.47.1.2 26312 1f60A 458 9.25e+00 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1u02A 239 1.03e+01 c.108.1.15 107538 1hrhA 136 1.05e+01 1rthA c.55.3.1 33577 1ukfA 188 1.05e+01 d.3.1.10 99488 1d2eA 397 1.06e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1m1nB 522 1.08e+01 c.92.2.3 78418 1pz1A 333 1.10e+01 c.1.7.1 95390 1gokA 303 1.10e+01 c.1.8.3 65420 1k6aA 303 1.11e+01 c.1.8.3 72081 1c5kA 439 1.12e+01 1crzA b.68.4.1 27630 c.51.2.1 33212 1crzA 403 1.12e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1io1A 398 1.12e+01 1io1A e.32.1.1 62611 1p4kA 295 1.17e+01 d.153.1.5 87772 1ho1A 242 1.18e+01 1ho1A c.1.24.1 61097 2fcr 173 1.19e+01 1rcf c.23.5.1 31151 1b0pA 1231 1.21e+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 2bnjA 303 1.22e+01 1s8fA 177 1.27e+01 c.37.1.8 105370 1uhvA 500 1.27e+01 b.71.1.2 99402 c.1.8.3 99403 1tv8A 340 1.31e+01 c.1.28.3 107352 1xsjA 778 1.37e+01 1a7tA 232 1.37e+01 1a7tA d.157.1.1 42041 1ykjA 394 1.38e+01 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 1bupA 386 1.41e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1m98A 317 1.43e+01 a.175.1.1 78866 d.17.4.6 78867 1i1wA 303 1.47e+01 c.1.8.3 76732 1qysA 106 1.47e+01 k.41.1.1 96603 1vb5A 276 1.48e+01 1bob 320 1.48e+01 1bob d.108.1.1 40816 1pv9A 348 1.50e+01 c.55.2.1 95157 d.127.1.1 95158 1usjA 384 1.53e+01 1b93A 152 1.55e+01 1b93A c.24.1.2 31507 1ispA 181 1.56e+01 c.69.1.18 76778 1jjeA 222 1.58e+01 1a7tA d.157.1.1 63117 2boqA 331 1.58e+01 1ko3A 230 1.60e+01 d.157.1.1 90974 1mwsA 646 1.60e+01 d.17.4.5 79592 d.175.1.1 79593 e.3.1.1 79594 1exmA 405 1.66e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1gcoA 261 1.69e+01 1ybvA c.2.1.2 29884 1geeA 261 1.70e+01 c.2.1.2 90509 2b8nA 429 1.72e+01 1kv8A 216 1.74e+01 c.1.2.3 73054 1q6oA 216 1.74e+01 c.1.2.3 95986 9gafA 295 1.74e+01 1apyA d.153.1.5 42008 1dbxA 158 1.78e+01 1dbuA d.116.1.1 40928 1ha3A 405 1.84e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1jcfA 344 1.92e+01 c.55.1.1 62878 c.55.1.1 62879 1jjtA 228 1.94e+01 1a7tA d.157.1.1 63139 1r3eA 309 1.94e+01 b.122.1.1 96907 d.265.1.2 96908 1i6wA 181 1.98e+01 1i6wA c.69.1.18 61859 1jceA 344 1.99e+01 c.55.1.1 62876 c.55.1.1 62877 1ba1 386 1.99e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1bg4 302 2.00e+01 1taxA c.1.8.3 28806 1b31A 302 2.00e+01 1taxA c.1.8.3 28892 2cunA 410 2.00e+01 1t2dA 322 2.00e+01 c.2.1.5 99084 d.162.1.1 99085 1fnd 314 2.03e+01 1fnc b.43.4.2 25626 c.25.1.1 31516 1kfiA 572 2.03e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1rfmA 344 2.09e+01 c.122.1.1 97385 1d0nA 729 2.10e+01 1d0nA d.109.1.1 40834 d.109.1.1 40835 d.109.1.1 40836 d.109.1.1 40837 d.109.1.1 40838 d.109.1.1 40839 2phh 394 2.10e+01 1pbe c.3.1.2 30353 d.16.1.2 37884 2a4nA 182 2.11e+01 1dd6A 228 2.13e+01 1a7tA d.157.1.1 42054 1jl3A 139 2.13e+01 c.44.1.1 66826 1fzaB 328 2.19e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1y7rA 133 2.20e+01 1zpvA 91 2.25e+01 1nmtA 392 2.29e+01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1qh8B 519 2.29e+01 1qguB c.92.2.3 35634 1b93B 152 2.31e+01 1b93A c.24.1.2 31508 1sheA 103 2.46e+01 d.274.1.1 105551 1ev7A 317 2.50e+01 1ev7B c.52.1.9 33315 1nf3A 195 2.50e+01 c.37.1.8 85594 1at0 145 2.52e+01 1at0 b.86.1.1 28374 1zhvA 134 2.52e+01 1m5wA 243 2.55e+01 c.1.24.1 84836 1jnyA 435 2.58e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 2fx2 147 2.59e+01 1rcf c.23.5.1 31158 1s72H 171 2.65e+01 d.41.4.1 105327 1b87A 181 2.66e+01 1b87A d.108.1.1 40797 1o6uA 403 2.68e+01 a.5.3.1 92589 b.132.1.1 92590 c.13.1.1 92591 1n71A 180 2.75e+01 d.108.1.1 85370 1yuwA 554 2.76e+01 1iq4A 179 2.78e+01 1iq4A d.77.1.1 62641 1miwA 404 2.79e+01 a.173.1.1 79162 d.218.1.4 79163 1kay 381 2.90e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1s6yA 450 2.95e+01 c.2.1.5 105314 d.162.1.2 105315 2bi0A 337 2.98e+01 1olmA 403 3.07e+01 a.5.3.1 104008 b.132.1.1 104009 c.13.1.1 104010 2a8lA 420 3.08e+01 1ldg 316 3.12e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1ky9A 448 3.15e+01 b.36.1.4 73198 b.47.1.1 73199 1t5hX 504 3.16e+01 e.23.1.1 106449 1ek0A 170 3.16e+01 1ctqA c.37.1.8 32076 1o97D 320 3.17e+01 c.26.2.3 81233 c.31.1.2 81234 1qguB 519 3.22e+01 1qguB c.92.2.3 35626 1vljA 407 3.26e+01 e.22.1.2 108832 1qhtA 775 3.27e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1h6oA 204 3.27e+01 a.146.1.1 60689 1inlA 296 3.28e+01 c.66.1.17 66220 1jdw 423 3.30e+01 1jdw d.126.1.2 41129 1u8vA 490 3.32e+01 1fnc 314 3.37e+01 1fnc b.43.4.2 25627 c.25.1.1 31517 1w9zA 283 3.41e+01 1k0rA 366 3.43e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 3pgm 241 3.43e+01 1qhfA c.60.1.1 33982 1iwmA 186 3.49e+01 b.125.1.2 83758 1li4A 432 3.51e+01 c.2.1.4 84616 c.23.12.3 84617 1bu5A 147 3.51e+01 5nul c.23.5.1 31155 2hrvA 142 3.52e+01 2hrvA b.47.1.4 26429 1fvuA 133 3.61e+01 1ixxB d.169.1.1 42345 1xq6A 253 3.61e+01 2a8mA 420 3.67e+01 1txdA 385 3.69e+01 a.87.1.1 107422 b.55.1.1 107423 1j9eA 147 3.73e+01 c.23.5.1 62756 2aqjA 538 3.73e+01 1oacA 727 3.77e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1sxrA 183 3.78e+01 d.118.1.1 106101 1cz4A 185 3.84e+01 1cz4A b.52.2.3 26934 d.31.1.1 38468 1wljA 189 3.85e+01 2bi7A 384 3.88e+01 1xe1A 116 3.89e+01 b.43.3.1 109571 1z0wA 207 3.90e+01 1io2A 213 3.90e+01 1ekeA c.55.3.1 62612 1wmsA 177 3.97e+01 c.37.1.8 109414