# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 2.33e-17 1h0xA 100 4.01e-16 d.68.6.1 76451 1nh9A 87 8.25e-13 1udvA 89 1.58e-06 1f4pA 147 3.91e-01 5nul c.23.5.1 59651 2fx2 147 4.62e-01 1rcf c.23.5.1 31158 1bu5A 147 5.90e-01 5nul c.23.5.1 31155 1j9eA 147 9.12e-01 c.23.5.1 62756 1cf2O 337 9.33e-01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1r7aA 504 1.09e+00 1ml8A 134 1.45e+00 d.227.1.2 85013 1fbaA 361 2.73e+00 1fbaA c.1.10.1 29120 1j5rA 371 2.83e+00 1o2dA 371 2.86e+00 e.22.1.2 86591 1akr 147 3.02e+00 1rcf c.23.5.1 31152 2pia 321 3.14e+00 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1i1gA 141 3.49e+00 a.4.5.32 65982 d.58.4.2 65983 1nzjA 298 3.92e+00 1jmkC 230 4.50e+00 c.69.1.22 71747 1bpyA 335 5.06e+00 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1i50K 120 5.73e+00 d.74.3.2 61765 1aky 221 5.75e+00 1zin c.37.1.1 31896 g.41.2.1 45197 1rlkA 117 5.95e+00 1lxnA 99 6.12e+00 d.58.48.1 84737 1nom 248 6.82e+00 1bpyA a.60.12.1 75929 d.218.1.2 75930 1nwaA 203 7.04e+00 d.58.28.1 86295 1oi7A 288 7.10e+00 c.2.1.8 87049 c.23.4.1 87050 1vhwA 253 7.30e+00 1e58A 249 8.15e+00 1qhfA c.60.1.1 59262 1xyzA 347 8.46e+00 1taxA c.1.8.3 28804 2bby 69 8.77e+00 2bby a.4.5.15 16148 1rpl 251 9.14e+00 1bpyA a.60.12.1 75933 d.218.1.2 75934 1j5xA 342 9.15e+00 c.80.1.1 71591 1draA 159 9.57e+00 1vdrA c.71.1.1 34831 1hu4A 288 9.59e+00 1hu4A 1ra9 159 9.61e+00 1vdrA c.71.1.1 34820 1n5dA 288 9.67e+00 c.2.1.2 80030 1p42A 270 1.02e+01 d.14.1.7 87754 d.14.1.7 87755 1nijA 318 1.03e+01 c.37.1.10 85741 d.237.1.1 85742 1d5wC 126 1.06e+01 1dbwA c.23.1.1 31101 6dfr 159 1.09e+01 1vdrA c.71.1.1 34874 1dbwA 126 1.15e+01 1dbwA c.23.1.1 31095 1krhA 338 1.22e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1qw9A 502 1.27e+01 1dckA 126 1.29e+01 1dbwA c.23.1.1 31097 1v1rB 342 1.39e+01 1olsB 342 1.40e+01 1gveA 327 1.43e+01 c.1.7.1 70597 1uu3A 310 1.51e+01 1qgdA 662 1.53e+01 c.36.1.6 88367 c.36.1.10 88368 c.48.1.1 88369 1t2aA 375 1.58e+01 1bby 69 1.60e+01 2bby a.4.5.15 16149 1lxjA 104 1.60e+01 d.58.48.1 84736 1h1wA 289 1.61e+01 d.144.1.7 83460 1dorA 311 1.67e+01 2dorA c.1.4.1 28595 1b7gO 340 1.72e+01 1b7gO c.2.1.3 29992 d.81.1.1 39907 1bpb 248 1.74e+01 1bpyA a.60.12.1 75811 d.218.1.2 75812 2dorA 311 1.80e+01 2dorA c.1.4.1 28593 1j1qA 261 1.80e+01 1jubA 311 1.81e+01 1gokA 303 1.82e+01 c.1.8.3 65420 1dtwB 342 1.82e+01 1qs0B c.36.1.7 31828 c.48.1.2 33102 1pwhA 327 1.83e+01 1d1gA 168 1.84e+01 1d1gA c.71.1.1 34889 1px5A 349 1.86e+01 1qs0B 338 1.86e+01 1qs0B c.36.1.7 31830 c.48.1.2 33103 1seiA 130 1.88e+01 1seiA d.140.1.1 41463 1cz3A 168 1.90e+01 1d1gA c.71.1.1 34891 1k4nA 192 1.91e+01 d.32.1.5 72059 1io2A 213 1.96e+01 1ekeA c.55.3.1 62612 1k6aA 303 1.98e+01 c.1.8.3 72081 1fxmA 302 1.99e+01 1taxA 1gikA 261 1.99e+01 1aye 401 2.08e+01 1aye c.56.5.1 33824 d.58.3.1 39065 1jem 87 2.09e+01 1ptf d.94.1.1 40548 1sphA 88 2.09e+01 1ptf d.94.1.1 40544 1m5yA 408 2.14e+01 a.167.1.1 78664 d.26.1.1 78665 d.26.1.1 78666 1j09A 468 2.16e+01 a.97.1.1 77025 c.26.1.1 77026 1b31A 302 2.21e+01 1taxA c.1.8.3 28892 1vk6A 269 2.25e+01 1a8s 273 2.25e+01 1brt c.69.1.12 34710 1bg4 302 2.26e+01 1taxA c.1.8.3 28806 1b3aA 67 2.27e+01 1b3aA d.9.1.1 37410 1eqtA 68 2.28e+01 1b3aA d.9.1.1 37412 1iciA 256 2.34e+01 1iciA c.31.1.5 62266 1dtdA 303 2.36e+01 1aye c.56.5.1 33823 1o89A 345 2.38e+01 1m8aA 70 2.40e+01 d.9.1.1 74579 1o65A 246 2.41e+01 3grx 82 2.45e+01 1aba c.47.1.1 32769 1aoeA 192 2.46e+01 1aoeA c.71.1.1 34923 1cb6A 691 2.46e+01 1cb6A c.94.1.2 35840 c.94.1.2 35841 1lct 333 2.47e+01 1cb6A c.94.1.2 35836 1hyeA 313 2.53e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1j9lA 247 2.58e+01 c.106.1.1 62762 1qm4A 396 2.61e+01 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1vgyA 393 2.67e+01 1gvnB 287 2.69e+01 c.37.1.21 76354 1oxkB 134 2.74e+01 1jo0A 98 2.79e+01 d.68.4.1 77140 1avqA 228 2.80e+01 1avqA c.52.1.13 33326 1bq3B 246 2.86e+01 1qhfA c.60.1.1 33979 1g59A 468 3.03e+01 a.97.1.1 60257 c.26.1.1 60258 1h0cA 392 3.03e+01 c.67.1.3 83424 1gz6A 319 3.04e+01 c.2.1.2 76410 1luaA 287 3.06e+01 c.2.1.7 78216 c.58.1.4 78217 1i1wA 303 3.06e+01 c.1.8.3 76732 1kamA 194 3.11e+01 c.26.1.3 72254 1dbdA 100 3.13e+01 2bopA d.58.8.1 39218 1f3iA 481 3.18e+01 1b7eA 1ln4A 104 3.21e+01 d.68.4.1 74043 1muhA 481 3.22e+01 c.55.3.4 79485 2pgd 482 3.35e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1ede 310 3.44e+01 1b6g c.69.1.8 34662 1j9jA 247 3.46e+01 c.106.1.1 62758 1wba 175 3.52e+01 1wba b.42.4.1 25591 5cpp 414 3.64e+01 1phd a.104.1.1 18935 1b6g 310 3.65e+01 1b6g c.69.1.8 34661 1v61A 132 3.65e+01 1kvdB 77 3.74e+01 1kveB 1bn7A 294 3.82e+01 1bn6A c.69.1.8 34677 1bxsA 501 3.86e+01 1bpwA c.82.1.1 35357 1hqkA 154 3.86e+01 c.16.1.1 65902 1cqwA 295 3.90e+01 1b6g c.69.1.8 34679 1gxjA 186 3.94e+01 d.215.1.1 70707