# List of top-scoring protein chains for t04-100-30-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 6.22e-01 2f1kA 279 6.95e-01 1vemA 516 1.97e+00 1itcA 516 2.40e+00 b.3.1.1,c.1.8.1 83705,83706 1xxnA 185 3.29e+00 1go4A 205 4.04e+00 d.135.1.1 70292 2b5iC 199 4.47e+00 1yvhA 329 4.59e+00 2dcyA 185 4.70e+00 2cblA 305 4.98e+00 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 2cb2A 318 5.69e+00 2c1gA 431 5.97e+00 1xnb 185 6.03e+00 1axkA b.29.1.11 24308 1zbpA 273 6.56e+00 1rpyA 114 6.61e+00 d.93.1.1 97718 2agyA 361 8.01e+00 1mw7A 240 8.03e+00 e.39.1.1 79557 2c1iA 431 8.06e+00 2fsrA 195 8.30e+00 1j1hA 144 8.65e+00 b.111.1.1 77056 1iicA 422 8.89e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1pcfA 66 1.07e+01 1pcfA d.18.1.1 38142 1ah6 220 1.13e+01 1yer d.122.1.1 41094 1at0 145 1.21e+01 1at0 b.86.1.1 28374 1k0wA 231 1.23e+01 c.74.1.1 77220 2brcA 214 1.24e+01 1aerA 205 1.30e+01 1aerA d.166.1.1 42249 2breA 219 1.43e+01 1yzbA 182 1.47e+01 1t8hA 277 1.63e+01 d.194.1.2 106664 1g8kA 825 1.67e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1d8hA 311 1.70e+01 1d8iA d.63.1.1 39544 1ig5A 75 1.71e+01 4icb a.39.1.1 62363 2sak 121 1.79e+01 2sak d.15.5.1 37711 1din 236 1.80e+01 1din c.69.1.9 34682 1g5bA 221 1.80e+01 1g5bA d.159.1.3 60261 2b20A 403 1.85e+01 1rypF 233 1.88e+01 1rypF d.153.1.4 41937 1f35A 162 1.91e+01 1f35A b.94.1.1 59628 1zi8A 236 1.93e+01 1m22A 503 1.93e+01 c.117.1.1 78464 1u7bA 261 1.93e+01 1q6uA 245 2.13e+01 d.26.1.1 95998 3fib 249 2.14e+01 3fib d.171.1.1 42455 1o17A 345 2.17e+01 a.46.2.1,c.27.1.1 80765,80766 1q0eA 152 2.19e+01 b.1.8.1 95504 1cbjA 151 2.28e+01 1mfmA b.1.8.1 22213 1b35B 255 2.29e+01 1b35B b.121.4.1 23334 1mg4A 113 2.39e+01 d.15.11.1 84953 1e9pA 151 2.41e+01 1mfmA b.1.8.1 22215 1cf2O 337 2.42e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1i3zA 103 2.42e+01 d.93.1.1 83667 2ey4C 82 2.46e+01 2fibA 269 2.46e+01 3fib d.171.1.1 42457 2czlA 272 2.48e+01 1gpr 162 2.48e+01 1gpr b.84.3.1 28267 1o7fA 469 2.68e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1y1uA 585 2.71e+01 2agaA 190 2.77e+01 1cojA 212 2.79e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1to4A 156 2.81e+01 b.1.8.1 107162 1rypJ 204 2.83e+01 d.153.1.4 41878 1whzA 70 2.83e+01 1btl 263 2.89e+01 1btl e.3.1.1 42691 1s96A 219 3.00e+01 c.37.1.1 98740 1qy6A 274 3.02e+01 b.47.1.1 96574 1ikpA 613 3.03e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1f9zA 135 3.12e+01 1qipA d.32.1.1 38484 1yyaA 250 3.15e+01 2an9A 207 3.15e+01 1n2sA 299 3.17e+01 c.2.1.2 79857 1f3uA 118 3.28e+01 1f3uA b.65.1.1 27521 4icb 76 3.31e+01 4icb a.39.1.1 17145 1jiwI 106 3.34e+01 1smpI b.61.2.1 63078 1tidB 119 3.37e+01 c.13.2.1 107000 2gfaA 119 3.38e+01 1l5pA 93 3.39e+01 d.15.4.1 73598 1knwA 425 3.40e+01 b.49.2.3,c.1.6.1 90969,90970 2bw2A 140 3.42e+01 1qvbA 481 3.42e+01 1qvbA c.1.8.4 28983 1rwzA 245 3.43e+01 d.131.1.2,d.131.1.2 98005,98006 1obdA 306 3.47e+01 d.143.1.1 86767 1uw4A 91 3.50e+01 d.58.7.4 100071 1m40A 263 3.69e+01 e.3.1.1 74437 1a48 306 3.69e+01 1a48 d.143.1.1 41590 1o7iA 119 3.71e+01 b.40.4.3 86642 1ermA 263 3.74e+01 1btl e.3.1.1 42690 2ch8A 201 3.82e+01 1pl4A 198 3.88e+01 a.2.11.1,d.44.1.1 94854,94855 1g291 372 3.88e+01 1g291 1ap6A 198 3.90e+01 1avmA a.2.11.1,d.44.1.1 15746,38705 1n0nA 199 3.92e+01 a.2.11.1,d.44.1.1 79750,79751 1wzvA 155 3.96e+01 1w2fA 276 3.98e+01 d.143.1.3 109125 1ih8A 271 4.05e+01 2nsyA c.26.2.1 62377 1mml 265 4.07e+01 1mml e.8.1.2 43015 1q15A 503 4.07e+01 c.26.2.1,d.153.1.1 95538,95539 1r1qA 100 4.25e+01 d.93.1.1 104763 2cnqA 306 4.30e+01 1ifrA 121 4.36e+01 b.1.16.1 71203 1kveB 77 4.40e+01 1kveB 1fa8A 135 4.44e+01 1qipA d.32.1.1 38486 1zotA 358 4.44e+01 1ok7A 366 4.46e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1q6hA 224 4.46e+01 d.26.1.1 95975 1rypI 222 4.50e+01 d.153.1.4 41877 1krs 120 4.55e+01 1krs b.40.4.1 25256 1x8vA 455 4.59e+01 1iz5A 249 4.70e+01 d.131.1.2,d.131.1.2 83834,83835 1shbA 104 4.72e+01 1fmk d.93.1.1 40425 1v05A 96 4.75e+01 1q3lA 69 4.76e+01 1h5zA 455 4.77e+01 a.104.1.1 90622 2cn3A 737 4.81e+01 12asA 330 4.82e+01 12asA d.104.1.1 40783 1qxoA 388 4.87e+01 d.258.1.1 96539 1tw4A 125 4.92e+01 1o4rA 108 4.98e+01 d.93.1.1 92469 2d93A 134 5.04e+01 1k0sA 151 5.07e+01 b.40.7.1 67969 2bsjA 133 5.08e+01 1sy6A 204 5.15e+01 b.1.1.4,b.1.1.4 106111,106112 2ex5A 207 5.15e+01 1th8A 145 5.16e+01 d.122.1.3 106908 1n3gA 113 5.21e+01 d.204.1.1 79962 1kl1A 419 5.23e+01 c.67.1.4 72663 1rypD 241 5.25e+01 1rypD d.153.1.4 41935 1j55A 95 5.26e+01 a.39.1.2 77078 1yrtA 364 5.27e+01 2aj6A 159 5.28e+01 1jj2T 66 5.41e+01 1ffkR g.39.1.6 63105 1s72U 66 5.41e+01 g.39.1.6 105340 1nbfA 353 5.42e+01 d.3.1.9 80387 1omiA 248 5.47e+01 b.82.3.3,a.4.5.4 87079,87080 1sseB 86 5.53e+01 1qzgA 187 5.54e+01 b.40.4.3 96643 2polA 366 5.58e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1hskA 326 5.60e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1mmiA 366 5.60e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 2ftbA 125 5.63e+01 1hdmB 193 5.66e+01 1hdmB b.1.1.2,d.19.1.1 21584,38158 1ex1A 605 5.75e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1xs1A 193 5.77e+01 1dmlA 319 5.77e+01 1dmlA d.131.1.2,d.131.1.2 41380,41381 1oo0A 147 5.83e+01 d.232.1.1 87182 1tqmA 282 5.89e+01 a.4.5.56,d.144.1.9 107236,107237 1zarA 282 5.91e+01 1crzA 403 5.98e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1yruA 364 6.00e+01 1k7cA 233 6.00e+01 c.23.10.4 68267 1w9yA 319 6.01e+01 1r9fA 136 6.04e+01 d.255.1.1 97257 1i52A 236 6.07e+01 1i52A c.68.1.13 61767 1f1gA 154 6.17e+01 b.1.8.1 76153 1vq0A 302 6.43e+01 2gnqA 336 6.47e+01 1jcv 153 6.58e+01 1mfmA b.1.8.1 22279 1v4pA 157 6.63e+01 2fm8A 135 6.66e+01 1x38A 602 6.71e+01 1mg7A 417 6.74e+01 d.14.1.6,d.58.26.6 84954,84955 1tp9A 162 6.76e+01 2evbA 74 6.77e+01 1u13A 455 6.87e+01 a.104.1.1 107578 1ghpA 258 6.91e+01 1btl e.3.1.1 60520 2bayA 61 6.98e+01 1e9xA 455 7.03e+01 1ea1A a.104.1.1 18969 1jgjA 217 7.04e+01 1c3wA f.13.1.1 62952 3fruA 269 7.09e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1cczA 171 7.22e+01 1cczA b.1.1.1,b.1.1.3 19758,21683 1zt2B 212 7.22e+01 1bfg 146 7.25e+01 1bfg b.42.1.1 25485 1p4oA 322 7.35e+01 d.144.1.7 87775 1deoA 233 7.51e+01 1deoA c.23.10.4 31345 1nciA 110 7.52e+01 1edhA b.1.6.1 22191 1rypL 212 7.53e+01 d.153.1.4 41880 1k8tA 510 7.55e+01 e.41.1.1 68316 1vqoU 66 7.62e+01 2cr4A 126 7.62e+01 2aegA 268 7.67e+01 2bpqA 373 7.75e+01 1wl8A 189 7.82e+01 1oyeA 1049 7.83e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1vkjA 285 7.86e+01 c.37.1.5 108666 1wpiA 133 7.86e+01 1jb0E 75 7.91e+01 1pse b.34.4.2 62824 1zm8A 259 7.94e+01 1o51A 114 7.97e+01 d.58.5.4 92480 1tbxA 99 8.00e+01 a.4.5.48 106748 1zxfA 155 8.02e+01 1uurA 473 8.17e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1vajA 214 8.22e+01 4fgf 146 8.22e+01 1bfg b.42.1.1 25486 2g2kA 170 8.30e+01 1hj9A 226 8.40e+01 b.47.1.2 65845 1cmcA 104 8.48e+01 1cmbA a.43.1.5 17462 1voqa 90 8.49e+01 2bgcA 238 8.50e+01 1g8yA 279 8.52e+01 1g8yA c.37.1.11 32302 2agcA 162 8.66e+01 2f9zC 159 8.75e+01 2djkA 133 8.79e+01 2gauA 232 8.81e+01 1y71A 130 8.83e+01 1hleB 31 8.85e+01 1hleB 1k92A 455 8.92e+01 c.26.2.1,d.210.1.1 68325,68326