# List of top-scoring protein chains for t06-100-30-str2-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 1wjxA 122 4.62e-01 2f1kA 279 5.18e-01 1vemA 516 1.49e+00 1go4A 205 3.07e+00 d.135.1.1 70292 2b5iC 199 3.41e+00 1yvhA 329 3.50e+00 2dcyA 185 3.58e+00 2cb2A 318 4.35e+00 1zbpA 273 5.02e+00 2agyA 361 6.15e+00 1mw7A 240 6.17e+00 e.39.1.1 79557 2c1iA 431 6.18e+00 2fsrA 195 6.37e+00 1iicA 422 6.83e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1pcfA 66 8.19e+00 1pcfA d.18.1.1 38142 1at0 145 9.28e+00 1at0 b.86.1.1 28374 1k0wA 231 9.44e+00 c.74.1.1 77220 2brcA 214 9.55e+00 1t8hA 277 1.26e+01 d.194.1.2 106664 1g8kA 825 1.29e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1d8hA 311 1.31e+01 1d8iA d.63.1.1 39544 1ig5A 75 1.32e+01 4icb a.39.1.1 62363 2sak 121 1.38e+01 2sak d.15.5.1 37711 1din 236 1.39e+01 1din c.69.1.9 34682 1g5bA 221 1.39e+01 1g5bA d.159.1.3 60261 2b20A 403 1.43e+01 1rypF 233 1.45e+01 1rypF d.153.1.4 41937 1f35A 162 1.48e+01 1f35A b.94.1.1 59628 1zi8A 236 1.49e+01 1m22A 503 1.49e+01 c.117.1.1 78464 1u7bA 261 1.50e+01 1q6uA 245 1.65e+01 d.26.1.1 95998 3fib 249 1.65e+01 3fib d.171.1.1 42455 1o17A 345 1.68e+01 a.46.2.1,c.27.1.1 80765,80766 1q0eA 152 1.69e+01 b.1.8.1 95504 1b35B 255 1.77e+01 1b35B b.121.4.1 23334 1mg4A 113 1.85e+01 d.15.11.1 84953 1e9pA 151 1.87e+01 1mfmA b.1.8.1 22215 1i3zA 103 1.88e+01 d.93.1.1 83667 2ey4C 82 1.90e+01 2czlA 272 1.92e+01 1gpr 162 1.92e+01 1gpr b.84.3.1 28267 1o7fA 469 2.08e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 2agaA 190 2.15e+01 1cojA 212 2.16e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1to4A 156 2.18e+01 b.1.8.1 107162 1rypJ 204 2.19e+01 d.153.1.4 41878 1whzA 70 2.19e+01 1s96A 219 2.33e+01 c.37.1.1 98740 1qy6A 274 2.34e+01 b.47.1.1 96574 1ikpA 613 2.35e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1f9zA 135 2.42e+01 1qipA d.32.1.1 38484 1yyaA 250 2.44e+01 2an9A 207 2.45e+01 1n2sA 299 2.46e+01 c.2.1.2 79857 1f3uA 118 2.55e+01 1f3uA b.65.1.1 27521 1jiwI 106 2.59e+01 1smpI b.61.2.1 63078 2gfaA 119 2.62e+01 1l5pA 93 2.63e+01 d.15.4.1 73598 1knwA 425 2.64e+01 b.49.2.3,c.1.6.1 90969,90970 2bw2A 140 2.65e+01 1rwzA 245 2.66e+01 d.131.1.2,d.131.1.2 98005,98006 1obdA 306 2.70e+01 d.143.1.1 86767 1uw4A 91 2.71e+01 d.58.7.4 100071 1m40A 263 2.86e+01 e.3.1.1 74437 1o7iA 119 2.88e+01 b.40.4.3 86642 2ch8A 201 2.97e+01 1pl4A 198 3.01e+01 a.2.11.1,d.44.1.1 94854,94855 1g291 372 3.01e+01 1g291 1wzvA 155 3.08e+01 1w2fA 276 3.09e+01 d.143.1.3 109125 1mml 265 3.17e+01 1mml e.8.1.2 43015 1q15A 503 3.17e+01 c.26.2.1,d.153.1.1 95538,95539 1r1qA 100 3.30e+01 d.93.1.1 104763 2cnqA 306 3.35e+01 1ifrA 121 3.39e+01 b.1.16.1 71203 1kveB 77 3.42e+01 1kveB 1ok7A 366 3.47e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1q6hA 224 3.47e+01 d.26.1.1 95975 1rypI 222 3.50e+01 d.153.1.4 41877 1krs 120 3.54e+01 1krs b.40.4.1 25256 1x8vA 455 3.57e+01 1iz5A 249 3.66e+01 d.131.1.2,d.131.1.2 83834,83835 1v05A 96 3.69e+01 1q3lA 69 3.70e+01 2cn3A 737 3.74e+01 12asA 330 3.75e+01 12asA d.104.1.1 40783 1qxoA 388 3.79e+01 d.258.1.1 96539 1o4rA 108 3.88e+01 d.93.1.1 92469 2d93A 134 3.92e+01 2bsjA 133 3.96e+01 2ex5A 207 4.01e+01 1kl1A 419 4.07e+01 c.67.1.4 72663 1rypD 241 4.09e+01 1rypD d.153.1.4 41935 1j55A 95 4.10e+01 a.39.1.2 77078 1yrtA 364 4.11e+01 2aj6A 159 4.11e+01 1sseB 86 4.31e+01 1qzgA 187 4.32e+01 b.40.4.3 96643 2ftbA 125 4.38e+01 1xs1A 193 4.49e+01 1dmlA 319 4.49e+01 1dmlA d.131.1.2,d.131.1.2 41380,41381 1oo0A 147 4.54e+01 d.232.1.1 87182 1zarA 282 4.60e+01 1crzA 403 4.66e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1k7cA 233 4.68e+01 c.23.10.4 68267 1w9yA 319 4.68e+01 1r9fA 136 4.71e+01 d.255.1.1 97257 1i52A 236 4.73e+01 1i52A c.68.1.13 61767 1f1gA 154 4.81e+01 b.1.8.1 76153 1vq0A 302 5.01e+01 2gnqA 336 5.04e+01 1v4pA 157 5.16e+01 2fm8A 135 5.19e+01 1x38A 602 5.23e+01 1mg7A 417 5.25e+01 d.14.1.6,d.58.26.6 84954,84955 1tp9A 162 5.27e+01 2evbA 74 5.27e+01 1ghpA 258 5.38e+01 1btl e.3.1.1 60520 2bayA 61 5.44e+01 3fruA 269 5.53e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1cczA 171 5.63e+01 1cczA b.1.1.1,b.1.1.3 19758,21683 1zt2B 212 5.63e+01 1bfg 146 5.65e+01 1bfg b.42.1.1 25485 1p4oA 322 5.73e+01 d.144.1.7 87775 1rypL 212 5.87e+01 d.153.1.4 41880 1vqoU 66 5.94e+01 2cr4A 126 5.94e+01 2aegA 268 5.98e+01 2bpqA 373 6.05e+01 1wl8A 189 6.10e+01 1wpiA 133 6.13e+01 1jb0E 75 6.17e+01 1pse b.34.4.2 62824 1zm8A 259 6.19e+01 1tbxA 99 6.24e+01 a.4.5.48 106748 1zxfA 155 6.26e+01 1vajA 214 6.41e+01 2g2kA 170 6.47e+01 1hj9A 226 6.55e+01 b.47.1.2 65845 1cmcA 104 6.61e+01 1cmbA a.43.1.5 17462 1voqa 90 6.62e+01 2bgcA 238 6.63e+01 2f9zC 159 6.83e+01 2djkA 133 6.86e+01 2gauA 232 6.87e+01 1k92A 455 6.96e+01 c.26.2.1,d.210.1.1 68325,68326 1a78A 134 7.03e+01 1c1lA b.29.1.3 24212 1jlyA 304 7.04e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1y14B 171 7.33e+01 1iq4A 179 7.35e+01 1iq4A d.77.1.1 62641 1izcA 339 7.40e+01 c.1.12.5 83838 1xypA 190 7.45e+01 1axkA b.29.1.11 24327 1f39A 101 7.52e+01 1umuA b.87.1.1 28386 1nlnA 204 7.52e+01 d.3.1.7 91962 1zxuA 217 7.63e+01 1em2A 229 7.66e+01 1em2A d.129.3.2 41321 1y93A 159 7.74e+01 1tzpA 255 7.79e+01 d.65.1.3 107520 1lkkA 105 7.84e+01 1lckA d.93.1.1 40412 2go8A 122 7.85e+01 1khoA 370 8.17e+01 a.124.1.1,b.12.1.3 72489,72490 1vjeA 166 8.34e+01 d.185.1.2 100807 1b77A 228 8.36e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1aoeA 192 8.36e+01 1aoeA c.71.1.1 34923 1b25A 619 8.39e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1ve2A 235 8.39e+01 1x75A 132 8.42e+01 1us5A 314 8.64e+01 c.94.1.1 99856 1ufwA 95 8.73e+01 d.58.7.1 99358 1dbqA 289 8.87e+01 1qpzA c.93.1.1 35666 1z8gA 372 8.88e+01 1ir6A 424 8.92e+01 c.107.1.2 71342 1lq8B 31 8.98e+01 1p0zA 131 8.99e+01 d.110.6.1 93882