# List of top-scoring protein chains for t2k-100-30-bys-scores 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 1ggvA 232 1.49e-01 1din c.69.1.9 34683 1din 236 2.13e-01 1din c.69.1.9 34682 1zi8A 236 2.23e-01 1kshA 186 3.95e-01 c.37.1.8 72914 1g8yA 279 3.30e+00 1g8yA c.37.1.11 32302 1nlfA 279 3.32e+00 c.37.1.11 85850 1qfxA 460 3.55e+00 1qfxA c.60.1.2 33994 1agx 331 3.95e+00 4pgaA c.88.1.1 35564 1q15A 503 4.06e+00 c.26.2.1,d.153.1.1 95538,95539 1tfzA 424 4.11e+00 d.32.1.3,d.32.1.3 106886,106887 1o17A 345 4.21e+00 a.46.2.1,c.27.1.1 80765,80766 1voqa 90 4.48e+00 1l4sA 112 4.48e+00 d.204.1.1 77693 1yyaA 250 7.02e+00 1itcA 516 7.98e+00 b.3.1.1,c.1.8.1 83705,83706 2cblA 305 9.44e+00 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1jlxA 304 9.64e+00 1jlyA b.42.3.1,b.42.3.1 25583,25584 5bcaA 516 1.03e+01 1b9zA b.3.1.1,c.1.8.1 22529,28799 1n3gA 113 1.11e+01 d.204.1.1 79962 2cb2A 318 1.18e+01 1sqsA 242 1.27e+01 c.23.5.5 98968 1uurA 473 1.36e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 2f1kA 279 1.38e+01 1bb8 71 1.43e+01 2bb8 d.10.1.1 37478 1nmtA 392 1.45e+01 1nmtA d.108.1.2,d.108.1.2 40823,40824 1jlyA 304 1.47e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1b47A 304 1.51e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 1vemA 516 1.63e+01 1xcbA 211 1.80e+01 a.4.5.38,c.2.1.12 109552,109553 1b9zA 516 1.81e+01 1b9zA b.3.1.1,c.1.8.1 22528,28798 2a5dA 175 2.04e+01 2agyA 361 2.08e+01 1z8gA 372 2.11e+01 1cpzA 68 2.12e+01 1aw0 d.58.17.1 39351 1jmcA 246 2.18e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1f9zA 135 2.21e+01 1qipA d.32.1.1 38484 1h49A 512 2.22e+01 c.1.8.4 83477 1o50A 157 2.36e+01 d.37.1.1,d.37.1.1 92478,92479 2bb8 71 2.43e+01 2bb8 d.10.1.1 37480 2ew0A 192 2.43e+01 1e55A 512 2.57e+01 1e70M c.1.8.4 28934 1zd9A 188 2.60e+01 1zyiA 171 2.64e+01 1f6bA 198 2.66e+01 c.37.1.8 64986 1b1gA 75 2.71e+01 1psrA a.39.1.1 17151 1y80A 210 2.77e+01 1g2iA 166 2.84e+01 1g2iA c.23.16.2 31438 1yvhA 329 2.90e+01 1nmoA 247 2.94e+01 c.135.1.1 91980 1nnsA 326 2.96e+01 c.88.1.1 85910 1t2jA 116 3.01e+01 3icb 75 3.06e+01 4icb a.39.1.1 17147 1bmtA 246 3.11e+01 1bmtA a.46.1.1,c.23.6.1 17757,31235 2b6hA 192 3.23e+01 2cbuA 468 3.40e+01 1bylA 125 3.43e+01 1bylA d.32.1.2 38495 8dfr 189 3.49e+01 1aoeA c.71.1.1 34895 1xrkA 124 3.50e+01 1zy4A 303 3.59e+01 1rpyA 114 3.60e+01 d.93.1.1 97718 1y1uA 585 3.65e+01 4icb 76 3.81e+01 4icb a.39.1.1 17145 1u0mA 382 3.86e+01 c.95.1.2,c.95.1.2 107557,107558 1b35B 255 3.97e+01 1b35B b.121.4.1 23334 1wzvA 155 3.98e+01 1rcqA 357 4.01e+01 b.49.2.2,c.1.6.1 104882,104883 1t3qB 788 4.13e+01 d.41.1.1,d.133.1.1 106369,106370 1r8sA 164 4.19e+01 c.37.1.8 97247 1mr3F 181 4.21e+01 c.37.1.8 79422 1t5bA 201 4.30e+01 c.23.5.3 106433 2ucz 165 4.30e+01 1u9aA d.20.1.1 38330 2bh8A 101 4.40e+01 1q0xH 221 4.45e+01 b.1.1.1,b.1.1.2 95517,95518 1uv4A 293 4.45e+01 1avgL 41 4.50e+01 1ppbL b.47.1.2 26216 1fa8A 135 4.62e+01 1qipA d.32.1.1 38486 2b30A 301 4.68e+01 1axwA 265 4.70e+01 1bkpA d.117.1.1 40938 1r7lA 110 4.76e+01 d.277.1.1 104837 1hurA 180 4.93e+01 1hurA c.37.1.8 32052 2gdzA 267 5.04e+01 1awd 94 5.06e+01 1awd d.15.4.1 37673 1bf5A 545 5.08e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1v72A 356 5.16e+01 1x6vA 630 5.17e+01 1o4rA 108 5.18e+01 d.93.1.1 92469 1g0uE 234 5.22e+01 d.153.1.4 41950 1xahA 354 5.37e+01 1apyA 162 5.52e+01 1apyA d.153.1.5 42004 1kolA 398 5.58e+01 b.35.1.2,c.2.1.1 77474,77475 1byqA 228 5.60e+01 1yer d.122.1.1 41100 1r9fA 136 5.60e+01 d.255.1.1 97257 1jm7B 117 5.62e+01 g.44.1.1 66881 1ht9A 76 5.65e+01 4icb a.39.1.1 61252 1el6A 219 5.68e+01 1el6B d.182.1.1 42606 1pbgA 468 5.71e+01 1e70M c.1.8.4 28946 2f9dA 125 5.76e+01 1uw4A 91 5.77e+01 d.58.7.4 100071 1evfA 264 5.85e+01 1bkpA d.117.1.1 40932 1fbnA 230 5.93e+01 1fbnA c.66.1.3 34181 1fy7A 278 5.97e+01 1fy7A d.108.1.1 40817 1i3zA 103 6.37e+01 d.93.1.1 83667 1k8tA 510 6.39e+01 e.41.1.1 68316 1zt2B 212 6.40e+01 1dryA 324 6.41e+01 1drtA b.82.2.2 28128 1k52A 72 6.42e+01 d.15.7.1 68148 2cxxA 190 6.59e+01 1azo 232 6.62e+01 1azo c.52.1.14 33329 1ig5A 75 6.64e+01 4icb a.39.1.1 62363 1xniA 118 6.66e+01 1fdr 248 6.67e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1k7yA 577 6.75e+01 a.46.1.1,c.23.6.1,d.173.1.1 68272,68273,68274 1qzgA 187 6.92e+01 b.40.4.3 96643 1m22A 503 6.92e+01 c.117.1.1 78464 1as0 353 7.03e+01 1cipA a.66.1.1,c.37.1.8 18212,32095 1qqqA 264 7.03e+01 1bkpA d.117.1.1 40931 2gqrA 237 7.03e+01 2chnA 716 7.05e+01 1shbA 104 7.09e+01 1fmk d.93.1.1 40425 1aotF 106 7.10e+01 1lckA d.93.1.1 40458 2fp7B 172 7.12e+01 1w3jA 468 7.14e+01 c.1.8.4 109156 1qvbA 481 7.20e+01 1qvbA c.1.8.4 28983 1v02A 565 7.33e+01 c.1.8.4 108194 1cqa 133 7.33e+01 3nul d.110.1.1 40890 1m1sA 116 7.33e+01 b.1.11.2 84747 1k51A 72 7.35e+01 d.15.7.1 68147 1ntvA 152 7.46e+01 b.55.1.2 86168 1hz6A 72 7.50e+01 2ptl d.15.7.1 61429 1ju5A 109 7.55e+01 d.93.1.1 77173 2acaA 189 7.56e+01 2g8mA 264 7.60e+01 1r1qA 100 7.61e+01 d.93.1.1 104763 1dkuA 317 7.61e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1iexA 605 7.70e+01 c.1.8.7,c.23.11.1 66127,66128 1yf5L 254 7.75e+01 1iicA 422 7.76e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1krs 120 7.82e+01 1krs b.40.4.1 25256 1a0k 131 7.88e+01 3nul d.110.1.1 40892 1mo9A 523 7.91e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1seiA 130 7.91e+01 1seiA d.140.1.1 41463 1aiqA 264 7.95e+01 1bkpA d.117.1.1 40967 1uteA 313 7.96e+01 1uteA d.159.1.1 42078 1t92A 116 7.98e+01 1oo0A 147 8.06e+01 d.232.1.1 87182 1y3tA 337 8.13e+01 1shaA 104 8.17e+01 1fmk d.93.1.1 40424 1ab2 109 8.20e+01 1lckA d.93.1.1 40506 1de5A 426 8.24e+01 1de5A c.1.15.2 29402 1gycA 499 8.27e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1pixA 587 8.28e+01 c.14.1.4 94708 1f2fA 104 8.36e+01 1fmk d.93.1.1 40455 1lci 550 8.47e+01 1lci e.23.1.1 43349 1rypF 233 8.49e+01 1rypF d.153.1.4 41937 1ywnA 316 8.52e+01 3fib 249 8.65e+01 3fib d.171.1.1 42455 3nul 130 8.66e+01 3nul d.110.1.1 40891 1dgmA 363 8.67e+01 1bx4A c.72.1.1 34936 1nteA 82 8.73e+01 b.36.1.1 86163 1i6uA 130 8.80e+01 d.140.1.1 61850 1rypL 212 8.85e+01 d.153.1.4 41880 2d2jA 329 8.86e+01 2bw2A 140 8.86e+01 1g8sA 230 8.95e+01 c.66.1.3 90507 1cipA 353 8.97e+01 1cipA a.66.1.1,c.37.1.8 18210,32093