# 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 1nfjA 89 6.22e-05 1nh9A 87 8.45e-04 1ml8A 134 6.93e-02 d.227.1.2 85013 1ukkA 142 1.53e-01 1udvA 89 7.18e-01 1bpyA 335 9.54e-01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1h1wA 289 1.10e+00 d.144.1.7 83460 1uu3A 310 1.16e+00 1nwaA 203 1.73e+00 d.58.28.1 86295 1rg9A 383 2.42e+00 1rztA 331 2.55e+00 1vhwA 253 2.63e+00 1jqeA 292 3.33e+00 c.66.1.19 71789 1no5A 114 3.35e+00 1pyaB 228 3.96e+00 1pyaB 1dz4A 414 4.06e+00 1phd a.104.1.1 18903 1hyeA 313 4.11e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1qmqA 414 4.78e+00 1phd a.104.1.1 18907 1i50K 120 5.39e+00 d.74.3.2 61765 1k4nA 192 5.62e+00 d.32.1.5 72059 1j7gA 144 5.64e+00 c.110.1.1 84130 1wba 175 6.17e+00 1wba b.42.4.1 25591 1oniA 137 6.32e+00 d.79.1.1 87144 1dar 691 6.37e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 2fokA 579 6.76e+00 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1qwiA 143 6.96e+00 1ukuA 102 7.05e+00 1q0bA 367 7.66e+00 1seiA 130 7.72e+00 1seiA d.140.1.1 41463 1qahA 136 7.72e+00 1jkeA 145 8.24e+00 c.110.1.1 66791 1hzpA 335 8.60e+00 1hn9A c.95.1.1 61455 c.95.1.1 61456 1fi2A 201 9.53e+00 1fi2A b.82.1.2 59845 1avqA 228 9.59e+00 1avqA c.52.1.13 33326 1mk4A 157 9.68e+00 d.108.1.1 84979 1odkA 235 9.70e+00 c.56.2.1 86863 1a8e 329 9.90e+00 1cb6A c.94.1.2 35888 1regX 122 1.01e+01 1regX d.58.27.1 39406 1bia 321 1.02e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1g60A 260 1.04e+01 c.66.1.11 70151 1sphA 88 1.10e+01 1ptf d.94.1.1 40544 1jkxA 212 1.12e+01 c.65.1.1 66813 1o65A 246 1.13e+01 1lci 550 1.14e+01 1lci e.23.1.1 43349 1m0kA 262 1.15e+01 f.13.1.1 78344 1ewfA 456 1.23e+01 1bp1 d.83.1.1 40024 d.83.1.1 40025 1sgzA 389 1.24e+01 1br9 194 1.25e+01 1br9 b.40.3.1 25235 1px5A 349 1.27e+01 1uz5A 402 1.27e+01 1uolA 219 1.34e+01 1fnoA 417 1.37e+01 c.56.5.4 75841 d.58.19.1 70145 1p1lA 102 1.49e+01 d.58.5.2 87695 1gnyA 153 1.54e+01 b.18.1.11 65404 1l3iA 192 1.58e+01 c.66.1.22 77676 1hfuA 503 1.58e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1jd1A 129 1.58e+01 1qu9A d.79.1.1 62890 1dmhA 311 1.62e+01 1dmhA b.3.6.1 22633 1ryoA 327 1.63e+01 1qpoA 284 1.67e+01 1qpoA c.1.17.1 29561 d.41.2.1 38597 1bt0A 76 1.78e+01 1ubi d.15.1.1 37607 1nzaA 103 1.84e+01 d.58.5.2 86444 1bvoA 175 1.84e+01 1a3qA b.2.5.3 22457 1hbnB 442 1.88e+01 1mroB a.89.1.1 60900 d.58.31.2 60901 1mroB 442 1.94e+01 1mroB a.89.1.1 18531 d.58.31.2 39449 1qm4A 396 1.95e+01 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1acf 125 1.97e+01 3nul d.110.1.1 40882 1cqmA 101 1.98e+01 1ris d.58.14.1 39321 1bvyF 191 1.99e+01 1bvyF c.23.5.1 31207 1tupA 219 2.02e+01 1tupA b.2.5.2 22434 1nxmA 197 2.07e+01 b.82.1.1 86385 1f5jA 199 2.13e+01 1axkA b.29.1.11 24342 1ek0A 170 2.19e+01 1ctqA c.37.1.8 32076 1f9zA 135 2.28e+01 1qipA d.32.1.1 38484 1b9uA 34 2.33e+01 1b9uA j.35.1.1 46260 1fknA 391 2.34e+01 1fknA b.50.1.2 26879 1qfjA 232 2.37e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1huqA 164 2.38e+01 1byuA c.37.1.8 32020 1q8rA 120 2.46e+01 1thm 279 2.57e+01 1gci c.41.1.1 32544 1a65A 504 2.60e+01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1euvB 86 2.67e+01 1a5r d.15.1.1 37598 1or0A 160 2.67e+01 1han 297 2.70e+01 1han d.32.1.3 38506 d.32.1.3 38507 1fa8A 135 2.71e+01 1qipA d.32.1.1 38486 1c3wA 222 2.77e+01 1c3wA f.13.1.1 43405 1gsa 316 2.81e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1lqpA 135 2.81e+01 d.32.1.2 78151 1nkiA 135 2.81e+01 1a7tA 232 2.99e+01 1a7tA d.157.1.1 42041 1nr3A 122 3.00e+01 d.236.1.1 86092 1euvA 221 3.06e+01 1euvA d.3.1.7 37133 1hi2A 135 3.17e+01 7rsa d.5.1.1 61057 1kit 757 3.17e+01 1kit b.29.1.8 24272 b.29.1.8 24273 b.68.1.1 27616 1qmeA 702 3.27e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1fm2A 169 3.27e+01 1fm2A d.153.1.2 59877 1p0hA 318 3.33e+01 1qwtA 255 3.41e+01 1q4uA 151 3.42e+01 1hq3B 126 3.46e+01 1aoiD a.22.1.1 16444 1nkxA 348 3.48e+01 2gar 212 3.56e+01 2gar c.65.1.1 34161 1e4fT 419 3.65e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 2pia 321 3.67e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1jq5A 370 3.68e+01 e.22.1.2 67084 1r2qA 170 3.70e+01 1nb9A 147 3.75e+01 b.43.5.1 85515 1ryp1 222 3.81e+01 1ryp1 1c7kA 132 3.85e+01 1kuh d.92.1.1 59078 1kuh 132 3.87e+01 1kuh d.92.1.1 40258 1qu9A 128 3.94e+01 1qu9A d.79.1.1 39755