# List of top-scoring protein chains for t04-100-30-str2 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 1k8wA 327 5.53e-02 b.122.1.1 83094 unknown_sccs -10143 1bquA 215 8.94e-02 1bquA b.1.2.1 22066 b.1.2.1 22067 1nh1A 330 2.18e-01 unknown_sccs -11798 1g1cA 99 2.99e-01 b.1.1.4 65078 1dyoA 160 4.67e-01 1dyoA b.18.1.7 23771 1iw7C 1119 6.10e-01 e.29.1.1 71474 1tlk 154 9.01e-01 1tlk b.1.1.4 21707 1oaoC 729 9.96e-01 e.26.1.3 86746 1fhgA 154 1.04e+00 1tlk b.1.1.4 21706 1iwmA 186 1.15e+00 b.125.1.2 83758 1rn5A 177 1.33e+00 d.167.1.1 -11591 1rg9A 383 1.36e+00 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1tif 78 1.40e+00 1tif d.15.8.1 37836 1hdkA 141 1.47e+00 b.29.1.3 65807 1lcl 142 1.52e+00 1lcl b.29.1.3 24216 1f15A 218 1.88e+00 1f15B b.121.4.5 23320 1senA 164 2.01e+00 1n3oA 252 2.09e+00 b.29.1.1 79967 1ukgA 252 2.15e+00 b.29.1.1 -3390 1nykA 165 2.27e+00 b.33.1.1 86408 1a3k 137 2.61e+00 1a3k b.29.1.3 24218 1mhyD 521 2.78e+00 1mhyD a.25.1.2 16780 1m6iA 493 3.00e+00 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1nciA 110 3.15e+00 1edhA b.1.6.1 22191 1mbyA 88 3.31e+00 d.223.1.1 78931 1uwwA 191 3.48e+00 1e42A 258 3.81e+00 1e42A b.1.10.1 22316 d.105.1.1 40792 1ux6A 350 3.92e+00 unknown_sccs -3451 unknown_sccs -12886 1bjt 793 4.24e+00 1bjt e.11.1.1 43249 1o70A 324 4.29e+00 b.118.1.1 81115 b.118.1.1 81116 1sr4C 166 4.40e+00 1jx2B 315 4.58e+00 c.37.1.8 67404 1o9yA 84 4.68e+00 unknown_sccs -4105 1aohA 147 4.72e+00 1aohA b.2.2.2 22401 1sltA 134 4.75e+00 1c1lA b.29.1.3 24186 1fi8A 228 5.08e+00 5ptp b.47.1.2 26374 1e2wA 251 5.36e+00 1hcz b.2.6.1 22466 b.84.2.2 28252 1h6lA 353 5.51e+00 b.68.3.1 60687 1p7tA 731 5.54e+00 c.1.13.1 -5600 1p3dA 475 5.87e+00 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1p35A 299 6.00e+00 1p35A b.28.1.1 23925 1a49A 530 6.48e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1qxyA 252 6.75e+00 d.127.1.1 -10993 1nkqA 259 6.82e+00 1r3eA 309 6.83e+00 b.122.1.1 -5118 unknown_sccs -10146 1i40A 175 7.09e+00 b.40.5.1 66024 3cms 323 7.10e+00 1smrA b.50.1.2 26865 1fs1B 141 7.39e+00 1vcbB a.157.1.1 19252 d.42.1.1 38664 1aop 497 8.19e+00 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1sluA 142 8.32e+00 1sluA b.16.1.1 23685 1jhfA 202 8.33e+00 a.4.5.2 63057 b.87.1.1 63058 1obwA 175 8.47e+00 2prd b.40.5.1 25416 1cqxA 403 8.59e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1clc 639 8.84e+00 1clc a.102.1.2 18835 b.1.18.2 21872 1p9kA 79 8.95e+00 unknown_sccs -10238 1nowA 507 9.36e+00 c.1.8.6 85936 d.92.2.1 85937 1a0p 290 9.58e+00 1a0p a.60.9.1 18105 d.163.1.1 42165 1xgsA 295 9.98e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1ha3A 405 1.03e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1bkzA 135 1.08e+01 1a3k b.29.1.3 24202 1oihA 301 1.12e+01 b.82.2.5 -4899 1rypL 212 1.12e+01 d.153.1.4 41880 1giqA 413 1.13e+01 d.166.1.1 76224 d.166.1.1 76225 1nijA 318 1.15e+01 c.37.1.10 85741 d.237.1.1 85742 1lktA 104 1.18e+01 1lktA b.90.1.1 28398 1dkzA 219 1.21e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 2dtr 226 1.21e+01 1bi0 a.4.5.24 16193 a.76.1.1 18399 b.34.1.2 24450 1an9A 340 1.24e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1kjkA 64 1.29e+01 d.10.1.4 72613 1i50I 122 1.33e+01 g.41.3.1 61762 g.41.3.1 61763 1qysA 106 1.35e+01 unknown_sccs -13432 1p0zA 131 1.38e+01 unknown_sccs -10853 1d8cA 723 1.38e+01 1d8cA c.1.13.1 29325 1jvnA 555 1.43e+01 c.1.2.1 67355 c.23.16.1 67356 1jpyA 137 1.43e+01 g.17.1.6 67065 1gl4B 98 1.45e+01 b.1.1.4 65288 1bdmA 327 1.45e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1bmdA 327 1.48e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1gu7A 364 1.50e+01 b.35.1.2 83321 c.2.1.1 83322 1kdgA 546 1.50e+01 c.3.1.2 77337 d.16.1.1 77338 1a8p 258 1.58e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1guiA 155 1.59e+01 b.18.1.14 76351 1ru3A 732 1.72e+01 e.26.1.3 -12021 1bg2 325 1.77e+01 1bg2 c.37.1.9 32189 1c24A 263 1.77e+01 1c24A d.127.1.1 41148 1d2eA 397 1.79e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1mtyD 512 1.85e+01 1mhyD a.25.1.2 16742 1qqhA 144 1.87e+01 1dtoA b.91.1.1 28404 1c96A 753 1.87e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1gx5A 536 1.90e+01 e.8.1.4 70682 1kzqA 289 1.90e+01 b.6.2.1 73374 b.6.2.1 73375 1s9rA 410 1.90e+01 unknown_sccs -10989 1mh9A 197 1.96e+01 c.108.1.8 79118 1az9 457 2.00e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1rsy 152 2.00e+01 1rsy b.7.1.2 23192 1r0kA 388 2.00e+01 1l6pA 125 2.05e+01 b.1.17.1 73626 1e0tA 470 2.06e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1m93B 245 2.07e+01 1jv2B 692 2.09e+01 b.1.15.1 67338 c.62.1.1 67339 d.200.1.1 67340 g.3.11.6 67341 g.3.11.6 67342 1uvjA 664 2.10e+01 e.8.1.6 -11964 1qwyA 291 2.11e+01 unknown_sccs -5023 1mdoA 393 2.16e+01 c.67.1.4 79013 1c1lA 136 2.20e+01 1c1lA b.29.1.3 24219 1hhsA 664 2.21e+01 1hi0P e.8.1.6 61045 1bt0A 76 2.21e+01 1ubi d.15.1.1 37607 1ixmA 192 2.23e+01 1ixmA d.123.1.1 41114 1n1tA 641 2.25e+01 b.29.1.15 79821 b.68.1.1 79822 1q92A 197 2.32e+01 c.108.1.8 -6819 1evuA 731 2.39e+01 1f13A b.1.18.9 21883 b.1.5.1 22175 b.1.5.1 22176 d.3.1.4 37113 1omp 370 2.39e+01 4mbp c.94.1.1 35778 1c2pA 576 2.41e+01 1quvA e.8.1.4 43117 1qm4A 396 2.44e+01 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1mwxA 646 2.47e+01 d.17.4.5 79610 d.175.1.1 79611 e.3.1.1 79612 1t7pA 698 2.48e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1k0sA 151 2.53e+01 b.40.7.1 67969 1hfuA 503 2.53e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1dpgA 485 2.55e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1v84A 253 2.55e+01 1l4iA 206 2.56e+01 b.1.11.1 73564 b.7.2.1 73565 8acn 754 2.56e+01 1amj c.8.2.1 30724 c.83.1.1 35400 2kinA 238 2.61e+01 1bg2 c.37.1.9 32190 1pqnA 127 2.64e+01 c.47.1.8 -7479 1e19A 314 2.67e+01 1b7bA c.73.1.1 34967 1nrwA 288 2.71e+01 c.108.1.10 86128 1mi8A 158 2.72e+01 b.86.1.2 -5061 1ckaA 57 2.76e+01 1ckaA b.34.2.1 24459 1idaA 99 2.77e+01 1fmb b.50.1.1 26715 1lnsA 763 2.80e+01 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1exmA 405 2.96e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1knmA 130 2.98e+01 b.42.2.1 72781 1m4jA 142 3.00e+01 d.109.1.2 78602 1ve9A 347 3.01e+01 c.4.1.2 -6056 d.16.1.3 -9214 1th8A 145 3.02e+01 1j7nA 776 3.07e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1n0uA 842 3.12e+01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1obpA 159 3.14e+01 1obpA b.60.1.1 27092 1id2A 106 3.14e+01 1aac b.6.1.1 62288 1neiA 60 3.14e+01 unknown_sccs -10324 1n13B 113 3.18e+01 1e6wA 260 3.20e+01 1e6wA c.2.1.2 59326 1ac5 483 3.28e+01 1ac5 c.69.1.5 34653 1gzcA 239 3.30e+01 b.29.1.1 70803 1s0uA 408 3.32e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1j7dA 145 3.32e+01 1jatB d.20.1.1 62680 1rypG 244 3.33e+01 d.153.1.4 41938 1ci3M 249 3.42e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 1o7zA 77 3.42e+01 d.9.1.1 86660 1gttA 429 3.42e+01 d.177.1.1 70529 d.177.1.1 70530 1ax0 239 3.43e+01 1led b.29.1.1 24042 1vavA 222 3.44e+01 1szwA 379 3.44e+01 unknown_sccs -10164 1wba 175 3.49e+01 1wba b.42.4.1 25591 1s3eA 520 3.52e+01 c.3.1.2 -6022 d.16.1.5 -9242 1qgvA 142 3.56e+01 1qgvA c.47.1.8 33056 1aa8A 347 3.62e+01 1an9A 1jvsA 400 3.67e+01 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1q33A 292 3.68e+01 d.113.1.1 -10901 1gpmA 525 3.68e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1v9yA 167 3.78e+01 1gzwA 134 3.81e+01 b.29.1.3 -3412 1eybA 471 3.85e+01 1ey2A b.82.1.4 28115 1sr9A 644 3.85e+01 1of4A 179 3.87e+01 b.18.1.18 86932 1oh4A 179 3.98e+01 b.18.1.18 -3123