# List of top-scoring protein chains for t2k-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 2f1kA 279 5.35e-01 1wjxA 122 6.03e-01 1vemA 516 1.36e+00 1yvhA 329 3.33e+00 2fsrA 195 3.81e+00 1iicA 422 4.03e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 2cb2A 318 4.08e+00 2dcyA 185 4.31e+00 1zbpA 273 4.58e+00 2b5iC 199 4.58e+00 1mw7A 240 5.09e+00 e.39.1.1 79557 2agyA 361 5.44e+00 1din 236 6.46e+00 1din c.69.1.9 34682 2c1iA 431 6.55e+00 1go4A 205 7.68e+00 d.135.1.1 70292 1pcfA 66 8.50e+00 1pcfA d.18.1.1 38142 1k0wA 231 8.63e+00 c.74.1.1 77220 1zi8A 236 8.76e+00 1g5bA 221 8.82e+00 1g5bA d.159.1.3 60261 2brcA 214 9.17e+00 1o17A 345 1.10e+01 a.46.2.1,c.27.1.1 80765,80766 1f35A 162 1.14e+01 1f35A b.94.1.1 59628 1ig5A 75 1.15e+01 4icb a.39.1.1 62363 1t8hA 277 1.16e+01 d.194.1.2 106664 1d8hA 311 1.30e+01 1d8iA d.63.1.1 39544 1q6uA 245 1.38e+01 d.26.1.1 95998 2sak 121 1.39e+01 2sak d.15.5.1 37711 1rypF 233 1.44e+01 1rypF d.153.1.4 41937 1rypJ 204 1.45e+01 d.153.1.4 41878 1g8kA 825 1.45e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1q15A 503 1.47e+01 c.26.2.1,d.153.1.1 95538,95539 2b20A 403 1.47e+01 1m22A 503 1.53e+01 c.117.1.1 78464 1whzA 70 1.54e+01 1b35B 255 1.54e+01 1b35B b.121.4.1 23334 1gpr 162 1.61e+01 1gpr b.84.3.1 28267 1q0eA 152 1.73e+01 b.1.8.1 95504 2ey4C 82 1.73e+01 2czlA 272 1.73e+01 2agaA 190 1.73e+01 1yyaA 250 1.74e+01 1l5pA 93 1.76e+01 d.15.4.1 73598 1at0 145 1.80e+01 1at0 b.86.1.1 28374 1e9pA 151 1.81e+01 1mfmA b.1.8.1 22215 1i3zA 103 1.99e+01 d.93.1.1 83667 1cojA 212 2.05e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1o7fA 469 2.12e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1mg4A 113 2.19e+01 d.15.11.1 84953 1to4A 156 2.24e+01 b.1.8.1 107162 1s96A 219 2.28e+01 c.37.1.1 98740 1ikpA 613 2.33e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1f9zA 135 2.33e+01 1qipA d.32.1.1 38484 1wzvA 155 2.34e+01 2bw2A 140 2.37e+01 1obdA 306 2.41e+01 d.143.1.1 86767 1n2sA 299 2.44e+01 c.2.1.2 79857 2an9A 207 2.46e+01 1f3uA 118 2.52e+01 1f3uA b.65.1.1 27521 1u7bA 261 2.55e+01 1rwzA 245 2.61e+01 d.131.1.2,d.131.1.2 98005,98006 2gfaA 119 2.66e+01 3fib 249 2.67e+01 3fib d.171.1.1 42455 1o7iA 119 2.79e+01 b.40.4.3 86642 1m40A 263 2.81e+01 e.3.1.1 74437 1w2fA 276 2.83e+01 d.143.1.3 109125 1uw4A 91 2.85e+01 d.58.7.4 100071 2cnqA 306 2.96e+01 1pl4A 198 3.02e+01 a.2.11.1,d.44.1.1 94854,94855 1knwA 425 3.08e+01 b.49.2.3,c.1.6.1 90969,90970 1o4rA 108 3.15e+01 d.93.1.1 92469 1rypI 222 3.20e+01 d.153.1.4 41877 1krs 120 3.23e+01 1krs b.40.4.1 25256 2bsjA 133 3.31e+01 2ch8A 201 3.35e+01 1q6hA 224 3.35e+01 d.26.1.1 95975 1r1qA 100 3.39e+01 d.93.1.1 104763 1iz5A 249 3.56e+01 d.131.1.2,d.131.1.2 83834,83835 12asA 330 3.56e+01 12asA d.104.1.1 40783 1kveB 77 3.56e+01 1kveB 1oo0A 147 3.59e+01 d.232.1.1 87182 1jiwI 106 3.60e+01 1smpI b.61.2.1 63078 1qy6A 274 3.60e+01 b.47.1.1 96574 1x8vA 455 3.61e+01 1mml 265 3.64e+01 1mml e.8.1.2 43015 2cn3A 737 3.66e+01 2fm8A 135 3.66e+01 1j55A 95 3.69e+01 a.39.1.2 77078 1v05A 96 3.71e+01 1g291 372 3.76e+01 1g291 2ftbA 125 3.85e+01 1zarA 282 3.87e+01 1ifrA 121 3.95e+01 b.1.16.1 71203 1qzgA 187 3.97e+01 b.40.4.3 96643 1rypD 241 4.12e+01 1rypD d.153.1.4 41935 1voqa 90 4.18e+01 2aj6A 159 4.27e+01 1jlyA 304 4.27e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1wl8A 189 4.30e+01 1tp9A 162 4.34e+01 1qxoA 388 4.38e+01 d.258.1.1 96539 2gnqA 336 4.39e+01 1ghpA 258 4.55e+01 1btl e.3.1.1 60520 1xs1A 193 4.60e+01 2djkA 133 4.62e+01 1crzA 403 4.63e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 2evbA 74 4.65e+01 2ex5A 207 4.72e+01 1yrtA 364 4.86e+01 1ok7A 366 4.87e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1q3lA 69 4.87e+01 1p4oA 322 4.88e+01 d.144.1.7 87775 1vjeA 166 5.12e+01 d.185.1.2 100807 3fruA 269 5.18e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1v4pA 157 5.23e+01 1x38A 602 5.35e+01 1f1gA 154 5.37e+01 b.1.8.1 76153 1r9fA 136 5.38e+01 d.255.1.1 97257 1bfg 146 5.48e+01 1bfg b.42.1.1 25485 2cr4A 126 5.51e+01 1g2iA 166 5.59e+01 1g2iA c.23.16.2 31438 1zt2B 212 5.63e+01 1rypL 212 5.70e+01 d.153.1.4 41880 1k92A 455 5.75e+01 c.26.2.1,d.210.1.1 68325,68326 1zhvA 134 5.79e+01 1wpiA 133 5.81e+01 1mg7A 417 5.85e+01 d.14.1.6,d.58.26.6 84954,84955 1f39A 101 5.89e+01 1umuA b.87.1.1 28386 2bayA 61 5.91e+01 1i52A 236 5.93e+01 1i52A c.68.1.13 61767 1a78A 134 5.98e+01 1c1lA b.29.1.3 24212 1zm8A 259 6.05e+01 1b25A 619 6.21e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1cczA 171 6.26e+01 1cczA b.1.1.1,b.1.1.3 19758,21683 2aegA 268 6.30e+01 1vqoU 66 6.31e+01 1tbxA 99 6.32e+01 a.4.5.48 106748 2bpqA 373 6.36e+01 1kl1A 419 6.39e+01 c.67.1.4 72663 1jb0E 75 6.40e+01 1pse b.34.4.2 62824 1hj9A 226 6.42e+01 b.47.1.2 65845 1r0vA 305 6.51e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 2f9zC 159 6.51e+01 1ir6A 424 6.67e+01 c.107.1.2 71342 2go8A 122 6.99e+01 1dbqA 289 7.00e+01 1qpzA c.93.1.1 35666 1iq4A 179 7.06e+01 1iq4A d.77.1.1 62641 2g2kA 170 7.15e+01 1zxfA 155 7.28e+01 1dmlA 319 7.30e+01 1dmlA d.131.1.2,d.131.1.2 41380,41381 2gauA 232 7.43e+01 1y14B 171 7.48e+01 1izcA 339 7.54e+01 c.1.12.5 83838 1sseB 86 7.56e+01 1lkkA 105 7.58e+01 1lckA d.93.1.1 40412 1k7cA 233 7.62e+01 c.23.10.4 68267 1z8gA 372 7.71e+01 1p0zA 131 7.86e+01 d.110.6.1 93882 1ufwA 95 7.92e+01 d.58.7.1 99358 1xypA 190 8.06e+01 1axkA b.29.1.11 24327 1ojqA 212 8.08e+01 d.166.1.1 93146 1wi0A 113 8.08e+01 1us5A 314 8.10e+01 c.94.1.1 99856 1w9yA 319 8.28e+01 1vajA 214 8.30e+01 1xsoA 150 8.32e+01 1mfmA b.1.8.1 22273 1tzpA 255 8.39e+01 d.65.1.3 107520 1aoeA 192 8.40e+01 1aoeA c.71.1.1 34923 2fkiA 126 8.54e+01 1zxuA 217 8.54e+01 2cx5A 158 8.57e+01 2d93A 134 8.60e+01 1jftA 340 8.69e+01 a.35.1.5,c.93.1.1 66652,66653 1y93A 159 8.69e+01 1qqrA 138 8.82e+01 1bmlC d.15.5.1 37721 1azo 232 8.83e+01 1azo c.52.1.14 33329 1vq0A 302 8.93e+01 1kgcE 242 8.95e+01 b.1.1.1,b.1.1.2 77386,77387