# List of top-scoring protein chains for t04-100-30-alpha 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 1c3hA 137 1.66e-07 1gr3A 160 2.46e-07 b.22.1.1 65476 1c28A 135 2.49e-07 1c28A b.22.1.1 23857 1o91A 178 2.30e-05 1pk6C 129 7.59e-04 1pk6A 133 1.71e-03 1pk6B 132 4.91e-02 1dyoA 160 5.99e-01 1dyoA b.18.1.7 23771 1jj2B 337 6.77e-01 1ffkB b.43.3.2 63086 1dp0A 1023 1.49e+00 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 1opbA 135 1.58e+00 1hmt b.60.1.2 27216 1jz8A 1023 1.88e+00 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1jd0A 263 2.79e+00 2cba b.74.1.1 62888 1shsA 147 2.89e+00 1shsA b.15.1.1 23675 1ut9A 609 3.13e+00 1kqwA 134 3.27e+00 b.60.1.2 72887 1pm4A 119 3.72e+00 1b6rA 355 3.99e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1pl3A 186 4.29e+00 b.1.9.1 88158 1d7cA 190 4.57e+00 1d7bA b.1.9.1 22309 1aly 146 4.87e+00 1aly b.22.1.1 23856 1lf7A 182 5.41e+00 b.60.1.1 73878 1g6gA 127 5.66e+00 1g6gA b.26.1.2 23916 1dg6A 191 5.94e+00 1d4vB b.22.1.1 23883 1kbvA 327 6.18e+00 b.6.1.3 68395 b.6.1.3 68396 1jofA 365 6.84e+00 b.69.10.1 71775 1p42A 270 7.66e+00 d.14.1.7 87754 d.14.1.7 87755 1f15A 218 7.83e+00 1f15B b.121.4.5 23320 1gt1A 159 8.22e+00 3daaA 277 8.47e+00 1daaA e.17.1.1 43272 1obpA 159 8.48e+00 1obpA b.60.1.1 27092 1ee6A 197 8.66e+00 1ee6A b.80.1.1 28024 1a78A 134 8.73e+00 1c1lA b.29.1.3 24212 1hn2A 159 8.90e+00 b.60.1.1 65890 1o9wA 177 9.11e+00 b.2.3.5 86713 1mfa 247 9.13e+00 1mfa b.1.1.1 19888 b.1.1.1 19889 1uisA 231 9.46e+00 1mrzA 293 9.68e+00 1h54A 754 1.08e+01 a.102.1.4 60634 b.30.5.3 60635 1gp0A 143 1.12e+01 b.64.1.1 70300 1lci 550 1.17e+01 1lci e.23.1.1 43349 1g1cA 99 1.20e+01 b.1.1.4 65078 1nh0A 99 1.21e+01 1bteA 97 1.21e+01 1bteA g.7.1.3 44463 1fljA 260 1.23e+01 2cba b.74.1.1 27954 1g6hA 257 1.27e+01 1gajA c.37.1.12 60318 2rhe 114 1.32e+01 8fabA b.1.1.1 20523 1igrA 478 1.33e+01 1igrA c.10.2.5 30877 c.10.2.5 30878 g.3.9.1 44188 1kgcE 242 1.36e+01 b.1.1.1 77386 b.1.1.2 77387 1oaqL 120 1.36e+01 1cd8 114 1.46e+01 1cd8 b.1.1.1 19714 1difA 99 1.50e+01 1fmb b.50.1.1 26503 1g0hA 252 1.54e+01 1dk4A e.7.1.1 60171 1mrj 247 1.56e+01 1mrj d.165.1.1 42177 1luzA 88 1.57e+01 b.40.4.5 74271 1qe3A 489 1.59e+01 2bce c.69.1.1 34630 1giqA 413 1.62e+01 d.166.1.1 76224 d.166.1.1 76225 2rmcA 182 1.63e+01 2cpl b.62.1.1 27491 1qhoA 686 1.78e+01 1cxlA b.1.18.2 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1kxgA 152 1.83e+01 b.22.1.1 73145 1kzkA 99 1.83e+01 b.50.1.1 73371 1yge 839 1.84e+01 1yge a.119.1.1 19234 b.12.1.1 23634 1a1x 108 1.89e+01 1a1x b.63.1.1 27514 1lxa 262 1.94e+01 1lxa b.81.1.1 28052 1gy7A 125 1.95e+01 d.17.4.2 70738 1pjjA 271 1.97e+01 1cs6A 382 2.00e+01 1cs6A b.1.1.4 21760 b.1.1.4 21761 b.1.1.4 21762 b.1.1.4 21763 1osyA 115 2.00e+01 1iqaA 160 2.02e+01 b.22.1.1 71274 7odcA 424 2.08e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1f7dA 136 2.16e+01 1dun b.85.4.1 28353 1fzoB 99 2.18e+01 1agdB b.1.1.2 60157 1e2tA 284 2.21e+01 1e2tA d.3.1.5 37121 1n08A 163 2.28e+01 b.43.5.1 79730 1ton 235 2.30e+01 5ptp b.47.1.2 26307 1rovA 857 2.31e+01 4ubpB 126 2.34e+01 1ubpB b.85.3.1 28345 1fm2B 520 2.36e+01 1fm2B 1o6uA 403 2.41e+01 1li1A 229 2.44e+01 d.169.1.6 73898 d.169.1.6 73899 1fjgJ 105 2.54e+01 1fjfJ d.58.15.1 39330 1h8eH 146 2.57e+01 1e79H b.93.1.1 60757 1nfa 178 2.58e+01 1a02N b.2.5.3 22442 1oo2A 119 2.59e+01 1ewfA 456 2.60e+01 1bp1 d.83.1.1 40024 d.83.1.1 40025 1pvxA 194 2.61e+01 1axkA b.29.1.11 24341 1fzkB 99 2.64e+01 1agdB b.1.1.2 60151 1nnjA 271 2.67e+01 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1xyn 178 2.76e+01 1axkA b.29.1.11 24322 1cl1A 395 2.80e+01 1cl2A c.67.1.3 34395 1lk2B 99 2.85e+01 1lmiA 131 2.87e+01 b.1.19.1 78098 1han 297 2.87e+01 1han d.32.1.3 38506 d.32.1.3 38507 1nscA 390 2.90e+01 2qwc b.68.1.1 27591 1hmt 132 2.90e+01 1hmt b.60.1.2 27169 1qexA 288 2.96e+01 1qexA b.32.1.1 24425 1k0sA 151 3.02e+01 b.40.7.1 67969 1vh4A 435 3.04e+01 3nul 130 3.16e+01 3nul d.110.1.1 40891 1cb8A 678 3.22e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1lkdA 297 3.30e+01 d.32.1.3 78059 d.32.1.3 78060 1p3cA 215 3.36e+01 1mkaA 171 3.37e+01 1mkaA d.38.1.2 38543 1n62C 288 3.41e+01 d.87.2.1 80094 d.145.1.3 80095 1q33A 292 3.42e+01 1rj8A 164 3.46e+01 1kliH 254 3.48e+01 b.47.1.2 77435 1j1bA 420 3.49e+01 1xypA 190 3.51e+01 1axkA b.29.1.11 24327 1fuxA 166 3.54e+01 1fjjA b.17.1.2 60034 1ca1 370 3.54e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1ctn 540 3.58e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1nkgA 508 3.63e+01 1nciA 110 3.63e+01 1edhA b.1.6.1 22191 2nlrA 234 3.67e+01 2nlrA b.29.1.11 24344 1tlk 154 3.68e+01 1tlk b.1.1.4 21707 4tsvA 150 3.71e+01 2tnfA b.22.1.1 23860 1gwmA 153 3.73e+01 b.18.1.19 83348 1pmi 440 3.85e+01 1pmi b.82.1.3 28114 1qfhA 212 3.85e+01 1qfhA b.1.18.10 21893 b.1.18.10 21894 1or0B 528 3.90e+01 1oejA 193 3.94e+01 1d5rA 324 3.94e+01 1d5rA b.7.1.1 23181 c.45.1.1 32697 1vkdA 338 3.95e+01 1ggxA 223 3.96e+01 1ggxA d.22.1.1 38367 1gsa 316 3.96e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1bvqA 141 3.98e+01 1bvqA d.38.1.1 38542