# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1zaaC 87 3.16e-01 1aayA g.37.1.1 45013 g.37.1.1 45014 g.37.1.1 45015 1aayA 90 3.20e-01 1aayA g.37.1.1 45001 g.37.1.1 45002 g.37.1.1 45003 1tc5A 194 3.36e-01 c.110.1.1 106752 1a1iA 90 5.46e-01 1aayA g.37.1.1 44998 g.37.1.1 44999 g.37.1.1 45000 1g2fC 90 7.14e-01 k.12.1.1 60222 1jnrB 150 7.49e-01 d.58.1.5 66969 1wthD 391 8.65e-01 1lldA 319 8.96e-01 3ldh c.2.1.5 30177 d.162.1.1 42144 1udh 244 1.08e+00 3eugA c.18.1.1 31015 2ashA 381 1.24e+00 2cszA 76 1.67e+00 1uyjA 296 1.93e+00 f.8.1.2 108143 1xaoA 121 2.10e+00 1plfA 72 2.20e+00 1tvxA d.9.1.1 37373 1tqnA 486 2.45e+00 a.104.1.1 107238 4rxn 54 2.56e+00 1rb9 g.41.5.1 45226 1yc61 154 3.03e+00 1llmC 88 3.43e+00 g.37.1.1 91059 g.37.1.1 91060 1hn6A 110 3.70e+00 g.61.1.1 76721 1m3sA 186 4.53e+00 c.80.1.3 78573 1dl6A 58 4.62e+00 1dl6A g.41.3.1 45207 1humA 69 4.77e+00 1b3aA d.9.1.1 37397 1oyb 400 4.98e+00 1oyc c.1.4.1 28602 1oya 400 4.99e+00 1oyc c.1.4.1 28604 1oyc 400 5.34e+00 1oyc c.1.4.1 28603 1f75A 249 6.09e+00 1f75A c.101.1.1 59662 1clc 639 6.31e+00 1clc a.102.1.2 18835 b.1.18.2 21872 1ui0A 205 6.56e+00 c.18.1.2 99411 1s48A 609 6.67e+00 e.8.1.4 98475 1qlaB 239 6.92e+00 1qlaB a.1.2.1 15679 d.15.4.2 37707 1elt 236 7.30e+00 5ptp b.47.1.2 26281 1udg 244 7.30e+00 3eugA c.18.1.1 31016 2aw4Z 70 7.41e+00 1wf9A 107 9.43e+00 2bsdA 264 9.61e+00 1rlyA 60 1.10e+01 g.41.3.1 104988 1iro 54 1.14e+01 1rb9 g.41.5.1 45223 1ff9A 450 1.20e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 1zcjA 463 1.21e+01 1t3nA 388 1.22e+01 d.240.1.1 106363 e.8.1.7 106364 1g8oA 310 1.23e+01 1g8oA c.68.1.9 60375 1xxsA 122 1.29e+01 1taq 832 1.32e+01 1taq a.60.7.1 18082 c.120.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1vajA 214 1.40e+01 1iznA 286 1.41e+01 e.43.1.1 83847 1prcC 336 1.45e+01 6prcC a.138.1.2 19674 1twdA 256 1.46e+01 c.1.30.1 107397 1fonA 240 1.50e+01 5ptp b.47.1.2 26231 1k92A 455 1.57e+01 c.26.2.1 68325 d.210.1.1 68326 1e0cA 271 1.68e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1f7tA 122 1.71e+01 1f7lA d.150.1.2 59667 1q41A 424 1.73e+01 d.144.1.7 95774 1zmbA 290 1.78e+01 1qwtA 255 1.79e+01 b.26.1.3 96501 1cus 200 1.80e+01 1cex c.69.1.30 31287 2a9mL 110 1.82e+01 2b25A 336 1.82e+01 1agy 200 1.85e+01 1cex c.69.1.30 31286 1ile 821 1.88e+01 1ile a.27.1.1 16924 b.51.1.1 26889 c.26.1.1 31591 1mtnC 97 1.92e+01 5ptp 1ffa 214 2.01e+01 1cex c.69.1.30 31289 1i7nA 309 2.03e+01 c.30.1.5 83681 d.142.1.3 83682 1lwdA 413 2.03e+01 c.77.1.1 78265 1k4gA 386 2.13e+01 c.1.20.1 72054 1de6A 426 2.13e+01 1de5A c.1.15.2 29398 1j93A 353 2.14e+01 c.1.22.1 66454 1k1gA 131 2.18e+01 d.51.1.1 68015 1g0hA 252 2.18e+01 1dk4A e.7.1.1 60171 1cqxA 403 2.21e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1de5A 426 2.22e+01 1de5A c.1.15.2 29402 1r5yA 386 2.23e+01 c.1.20.1 97134 2f4lA 297 2.27e+01 1y4lA 121 2.27e+01 1qw2A 102 2.29e+01 d.249.1.1 96456 1a0hA 159 2.32e+01 1a0hA b.47.1.2 26229 g.14.1.1 44655 1nbcA 155 2.36e+01 1nbcA b.2.2.2 22390 1cex 214 2.41e+01 1cex c.69.1.30 31285 1i81A 83 2.46e+01 1d3bB b.38.1.1 61930 1b8sA 504 2.49e+01 1b8sA c.3.1.2 30335 d.16.1.1 37866 1j1bA 420 2.49e+01 d.144.1.7 90758 1ny6A 267 2.55e+01 c.37.1.20 92321 1niyA 36 2.59e+01 g.3.6.2 80542 1k28D 391 2.61e+01 b.106.1.1 68052 b.106.1.1 68053 1ddgA 374 2.66e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1ab9C 97 2.72e+01 5ptp 2eveA 157 2.75e+01 1ijhA 504 2.78e+01 c.3.1.2 66161 d.16.1.1 66162 1k4tA 592 2.79e+01 a.2.8.1 77263 d.163.1.2 77264 e.15.1.1 77265 1lylA 504 2.80e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1gg6C 97 2.80e+01 5ptp 1eq9A 222 2.80e+01 5ptp b.47.1.2 26068 1a7tA 232 2.81e+01 1a7tA d.157.1.1 42041 1cot 129 2.83e+01 1ycc a.3.1.1 15899 1mgqA 83 2.84e+01 b.38.1.1 79099 1mxtA 504 2.84e+01 c.3.1.2 79671 d.16.1.1 79672 1uehA 253 2.88e+01 c.101.1.1 99259 1b4vA 504 2.91e+01 1b8sA c.3.1.2 30334 d.16.1.1 37865 1c2rA 116 2.93e+01 1ycc a.3.1.1 15887 1zroA 602 2.94e+01 2anwA 241 2.97e+01 1jp3A 253 2.98e+01 1f75A c.101.1.1 63221 1pud 386 2.98e+01 1pud c.1.20.1 29658 1cm9A 74 2.99e+01 1b3aA d.9.1.1 37405 1n1pA 504 3.00e+01 c.3.1.2 91546 d.16.1.1 91547 1n4wA 504 3.00e+01 c.3.1.2 91676 d.16.1.1 91677 1cuj 214 3.00e+01 1cex c.69.1.30 31294 1vydA 116 3.05e+01 a.3.1.1 108900 1ujnA 348 3.08e+01 e.22.1.1 99460 1uxtA 501 3.09e+01 c.82.1.1 108125 1co4A 42 3.13e+01 1co4A g.47.1.1 45347 1tx4B 178 3.13e+01 1ctqA c.37.1.8 32045 2a3nA 355 3.16e+01 1mnnA 340 3.16e+01 b.2.5.7 79324 1kmqA 184 3.17e+01 c.37.1.8 84412 1ox0A 430 3.20e+01 c.95.1.1 87495 c.95.1.1 87496 1kewA 361 3.27e+01 c.2.1.2 68544 1ko3A 230 3.30e+01 d.157.1.1 90974 1jndA 420 3.40e+01 c.1.8.5 71757 d.26.3.1 71758 2bl5A 140 3.45e+01 2eiaB 206 3.53e+01 1eia a.28.3.1 16950 a.73.1.1 18330 1pxgA 382 3.54e+01 c.1.20.1 95287 1eia 207 3.58e+01 1eia a.28.3.1 16951 a.73.1.1 18331 1e1oA 504 3.63e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 2a8nA 144 3.65e+01 1jh3A 107 3.70e+01 d.66.1.4 71661 1jpdX 324 3.70e+01 c.1.11.2 67014 d.54.1.1 67015 1smrA 335 3.73e+01 1smrA b.50.1.2 26878 1jlyA 304 3.77e+01 1jlyA b.42.3.1 25587 b.42.3.1 25588 1a36A 592 3.79e+01 1a36A a.2.8.1 15715 d.163.1.2 42173 e.15.1.1 43266 2a4hA 126 3.80e+01 1lam 484 3.80e+01 1lam c.56.5.3 33829 c.50.1.1 33166 1jlxA 304 3.82e+01 1jlyA b.42.3.1 25583 b.42.3.1 25584 1wjgA 137 3.85e+01 1dxrC 336 3.86e+01 6prcC a.138.1.2 19670 1kyhA 276 3.91e+01 c.72.1.4 73222 1pmnA 364 3.92e+01 d.144.1.7 94907 1lap 488 3.95e+01 1lam c.56.5.3 33834 c.50.1.1 33171 1bllE 488 3.99e+01 1lam c.56.5.3 33833 c.50.1.1 33170