# 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 1nfjA 89 6.20e-07 1nh9A 87 7.69e-06 1vhwA 253 8.81e-02 1ukkA 142 9.78e-02 1bby 69 2.82e-01 2bby a.4.5.15 16149 1pmd 675 5.38e-01 1pmd d.11.1.1 37491 d.11.1.1 37492 d.175.1.1 42562 e.3.1.1 42771 1h1wA 289 5.41e-01 d.144.1.7 83460 1nbaA 264 5.91e-01 1nbaA c.33.1.1 31753 1m0kA 262 6.71e-01 f.13.1.1 78344 1dtdA 303 7.65e-01 1aye c.56.5.1 33823 1udvA 89 9.47e-01 1h4vB 421 1.02e+00 1adjA c.51.1.1 60624 d.104.1.1 60625 1bt0A 76 1.08e+00 1ubi d.15.1.1 37607 1qmeA 702 1.08e+00 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1wba 175 1.14e+00 1wba b.42.4.1 25591 1p6oA 161 1.15e+00 1kexA 155 1.30e+00 b.18.1.2 77350 1uu3A 310 1.45e+00 1n27A 96 1.57e+00 1q0bA 367 1.73e+00 1uolA 219 1.81e+00 1p3dA 475 1.91e+00 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1noyA 388 2.16e+00 1clqA c.55.3.5 33713 1g2cB 43 2.19e+00 1g2cB 1oi2A 366 3.38e+00 c.32.1.2 87039 d.79.2.2 87040 1k3tA 359 3.41e+00 c.2.1.3 72022 d.81.1.1 72023 1aky 221 3.42e+00 1zin c.37.1.1 31896 g.41.2.1 45197 1c3wA 222 3.68e+00 1c3wA f.13.1.1 43405 2gar 212 3.72e+00 2gar c.65.1.1 34161 1jdw 423 4.45e+00 1jdw d.126.1.2 41129 1nb9A 147 4.60e+00 b.43.5.1 85515 1q4uA 151 5.02e+00 1tupA 219 5.26e+00 1tupA b.2.5.2 22434 1fnoA 417 5.46e+00 c.56.5.4 75841 d.58.19.1 70145 1cqmA 101 5.64e+00 1ris d.58.14.1 39321 1ko3A 230 5.76e+00 1px5A 349 6.10e+00 1nr3A 122 6.36e+00 d.236.1.1 86092 1avqA 228 6.40e+00 1avqA c.52.1.13 33326 1qvcA 145 6.41e+00 3ullA b.40.4.3 25284 1b9uA 34 6.78e+00 1b9uA j.35.1.1 46260 1gefA 123 6.91e+00 1gefA c.52.1.18 60465 1jeyA 609 7.41e+00 1jeqA e.31.1.1 62924 1odkA 235 7.46e+00 c.56.2.1 86863 1jq5A 370 7.46e+00 e.22.1.2 67084 1jkxA 212 7.63e+00 c.65.1.1 66813 1jqeA 292 7.70e+00 c.66.1.19 71789 1bia 321 8.02e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1ddf 127 8.51e+00 1ddf a.77.1.2 18423 1i74A 309 8.56e+00 1i74A c.107.1.1 61867 1adjA 421 8.57e+00 1adjA c.51.1.1 33188 d.104.1.1 40737 1nksA 194 8.85e+00 1nksA c.37.1.1 31886 1f5jA 199 9.52e+00 1axkA b.29.1.11 24342 1flmA 122 9.61e+00 1axj b.45.1.1 25747 1nddA 76 1.00e+01 1ubi d.15.1.1 37599 1jmkC 230 1.03e+01 c.69.1.22 71747 2fokA 579 1.08e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1pvyA 227 1.10e+01 1ml8A 134 1.10e+01 d.227.1.2 85013 1dz4A 414 1.16e+01 1phd a.104.1.1 18903 1pyaB 228 1.21e+01 1pyaB 1seiA 130 1.31e+01 1seiA d.140.1.1 41463 1krhA 338 1.31e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1ub9A 100 1.32e+01 1tif 78 1.33e+01 1tif d.15.8.1 37836 1garA 212 1.36e+01 2gar c.65.1.1 34162 1dmhA 311 1.47e+01 1dmhA b.3.6.1 22633 1hzpA 335 1.48e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1b65A 375 1.52e+01 1b65A d.154.1.1 42020 1o65A 246 1.53e+01 1mwvA 714 1.55e+01 a.93.1.3 85161 a.93.1.3 85162 1bmqA 167 1.61e+01 1pauA c.17.1.1 30998 1elkA 157 1.65e+01 1dvpA a.118.9.2 19217 1iw0A 215 1.66e+01 a.132.1.1 83720 1uz5A 402 1.73e+01 1regX 122 1.84e+01 1regX d.58.27.1 39406 1ag9A 175 1.84e+01 1rcf c.23.5.1 31178 2bbkH 355 1.90e+01 2bbkH b.69.2.1 27634 1lxnA 99 1.91e+01 d.58.48.1 84737 1bvyF 191 1.93e+01 1bvyF c.23.5.1 31207 1fi2A 201 1.97e+01 1fi2A b.82.1.2 59845 1gnyA 153 2.04e+01 b.18.1.11 65404 1qmqA 414 2.16e+01 1phd a.104.1.1 18907 1oniA 137 2.19e+01 d.79.1.1 87144 1bpyA 335 2.32e+01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1qahA 136 2.56e+01 1oxcA 114 2.60e+01 1c4kA 730 2.61e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1ka8A 100 2.63e+01 a.4.5.20 72241 1or0A 160 2.64e+01 1qwiA 143 2.65e+01 1gypA 358 2.73e+01 1dssG c.2.1.3 30004 d.81.1.1 39919 1hyeA 313 2.76e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 2pii 112 2.76e+01 2pii d.58.5.1 39071 1nnwA 252 2.80e+01 d.159.1.5 80674 1mzjA 339 2.84e+01 c.95.1.1 79700 c.95.1.1 79701 1m2rA 327 2.99e+01 d.144.1.7 84760 1e58A 249 3.01e+01 1qhfA c.60.1.1 59262 1nzaA 103 3.05e+01 d.58.5.2 86444 1o8vA 134 3.08e+01 b.60.1.2 86680 1g3qA 237 3.10e+01 1hyqA c.37.1.10 60237 1rie 129 3.12e+01 1rie b.33.1.1 24427 1hq3B 126 3.16e+01 1aoiD a.22.1.1 16444 1l1lA 739 3.18e+01 c.7.1.4 73470 1v61A 132 3.19e+01 1oywA 523 3.24e+01 1t5jA 313 3.28e+01 2olbA 517 3.30e+01 1jevA c.94.1.1 35721 1hbnB 442 3.44e+01 1mroB a.89.1.1 60900 d.58.31.2 60901 1r9dA 787 3.46e+01 1oo2A 119 3.46e+01 1rg9A 383 3.48e+01 1smd 496 3.48e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1gbg 214 3.53e+01 1axkA b.29.1.2 24171 1srqA 341 3.54e+01 1clxA 347 3.65e+01 1taxA c.1.8.3 28899 1wpoA 256 3.66e+01 1lay b.57.1.1 27012 1or4A 178 3.68e+01 1mhdA 132 3.78e+01 1mhdA d.164.1.1 42175 1q1hA 110 3.84e+01 1kx5D 125 3.87e+01 a.22.1.1 77596 1j7gA 144 3.87e+01 c.110.1.1 84130 1acf 125 3.92e+01 3nul d.110.1.1 40882 1ekrA 161 3.93e+01 1ekrA d.58.21.1 39380