# List of top-scoring protein chains for t06-100-30-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 1dvoA 152 1.03e-19 1dvoA a.136.1.1 19623 1zx0A 236 5.74e-01 1llfA 534 5.95e-01 c.69.1.17 78094 1uj8A 77 6.82e-01 1usyA 275 9.42e-01 1apyB 141 1.32e+00 1apyB 1thg 544 1.44e+00 1thg c.69.1.17 34763 1svfB 38 1.45e+00 1svfB h.3.2.1 45764 1ve3A 227 1.57e+00 1z5hA 780 1.63e+00 1v7cA 351 1.67e+00 c.79.1.1 100446 1x8bA 289 1.74e+00 2anuA 255 1.78e+00 1z1dA 103 1.88e+00 1yr2A 741 1.91e+00 2ffsA 157 2.25e+00 1vqoC 246 2.45e+00 1mzbA 136 2.95e+00 a.4.5.42 91497 1iscA 192 2.95e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1nekD 115 3.18e+00 f.21.2.2 80432 1lcyA 325 3.35e+00 b.36.1.4,b.47.1.1 73834,73835 2gsfA 373 3.40e+00 2cxxA 190 3.50e+00 1qhtA 775 3.60e+00 1tgoA c.55.3.5,e.8.1.1 33722,43011 1ki1B 352 4.05e+00 a.87.1.1,b.55.1.1 72497,72498 2gyqA 175 4.28e+00 1ufbA 127 4.39e+00 a.24.16.3 99331 1w0mA 226 4.39e+00 c.1.1.1 109027 2erbA 125 4.65e+00 1yumA 242 4.67e+00 1w33A 181 4.75e+00 1pbjA 125 4.94e+00 d.37.1.1,d.37.1.1 94414,94415 1v3wA 173 5.05e+00 b.81.1.5 100291 2c8mA 262 5.13e+00 1f53A 84 5.25e+00 1f53A b.11.1.4 23632 1pmzA 86 5.54e+00 a.39.1.10 104195 1wraA 308 5.62e+00 1jpaA 312 5.82e+00 d.144.1.7 67011 1sgmA 191 6.28e+00 a.4.1.9,a.121.1.1 105537,105538 1efyA 350 6.44e+00 1a26 a.41.1.1,d.166.1.2 17413,42275 2flsA 132 6.49e+00 2bibA 547 6.58e+00 1zupA 315 6.62e+00 1v4xB 146 6.96e+00 a.1.1.2 108364 1bg1A 722 6.96e+00 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1eyhA 144 7.00e+00 1eduA a.118.9.1 19214 1tu5A 746 7.53e+00 2ga1A 106 7.61e+00 3pviA 157 7.66e+00 3pviA c.52.1.6 33300 2fswA 107 7.81e+00 1fgkA 310 8.32e+00 1fgkA d.144.1.7 41693 2fafA 608 8.51e+00 1vgjA 184 8.55e+00 2bk9A 153 8.58e+00 1k9uA 78 8.79e+00 a.39.1.10 84348 2es4D 332 9.08e+00 1wyuB 474 9.30e+00 1qhfA 240 9.92e+00 1qhfA c.60.1.1 33960 1q5dA 419 9.96e+00 a.104.1.1 95891 1lv7A 257 9.99e+00 c.37.1.20 78232 1pvmA 184 1.00e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1yp2A 451 1.02e+01 1ymtA 246 1.11e+01 1hlvA 131 1.17e+01 a.4.1.7,a.4.1.7 65854,65855 1x3kA 152 1.18e+01 1em9A 154 1.20e+01 1d1dA a.73.1.1 18333 2bh8A 101 1.25e+01 1ufaA 520 1.25e+01 a.8.3.3,c.6.2.4 99329,99330 1ucrA 78 1.31e+01 a.4.5.45 99188 2ghsA 326 1.32e+01 1no1A 126 1.33e+01 a.179.1.1 85913 2fneA 117 1.34e+01 2evaA 307 1.36e+01 1o50A 157 1.39e+01 d.37.1.1,d.37.1.1 92478,92479 2scpA 174 1.40e+01 2scpA a.39.1.5 17256 2au3A 407 1.40e+01 1yllA 200 1.41e+01 1yirA 408 1.43e+01 1umnA 165 1.43e+01 a.25.1.1 99607 1r5lA 262 1.47e+01 a.5.3.1,c.13.1.1 97099,97100 1w61A 414 1.51e+01 1te2A 226 1.55e+01 c.108.1.6 106792 1jksA 294 1.56e+01 d.144.1.7 71710 1qj4A 257 1.57e+01 1qj4A c.69.1.20 34796 1p4cA 380 1.61e+01 c.1.4.1 94100 1knyA 253 1.67e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1vlpA 441 1.69e+01 d.41.2.2,d.41.2.3 108840,108841 1p3qQ 54 1.73e+01 a.5.2.4 87748 2b7aA 293 1.74e+01 1paqA 189 1.75e+01 a.118.1.14 94413 1quqB 121 1.79e+01 1quqB b.40.4.3 25305 1izmA 184 1.80e+01 a.199.1.1 90725 1kgnA 329 1.83e+01 a.25.1.2 68584 1wdcB 156 1.87e+01 1wdcB a.39.1.5 17302 2aa1B 146 1.89e+01 1g8iA 190 1.91e+01 1rec a.39.1.5 60363 1ta3A 274 1.92e+01 c.1.8.5 106731 2c30A 321 1.94e+01 2acvA 463 1.96e+01 1qc7A 101 2.00e+01 1qc7A a.118.14.1 18456 1r6vA 671 2.04e+01 1s4bP 674 2.04e+01 d.92.1.5 105252 1qu9A 128 2.06e+01 1qu9A d.79.1.1 39755 1kk8B 139 2.06e+01 a.39.1.5 77430 1eswA 500 2.06e+01 1cwyA c.1.8.1 59500 1gvkB 240 2.08e+01 b.47.1.2 70610 1zwwA 256 2.09e+01 2bitX 165 2.14e+01 1eluA 390 2.14e+01 1elqA c.67.1.3 34434 1n5nA 180 2.15e+01 d.167.1.1 85336 1rq6A 62 2.16e+01 1ix9A 205 2.20e+01 a.2.11.1,d.44.1.1 76899,76900 2g39A 497 2.25e+01 1qkrA 188 2.33e+01 1qkrA a.24.9.1 16628 1qczA 169 2.46e+01 1qczA c.23.8.1 31276 1yf9A 171 2.47e+01 1p94A 76 2.48e+01 a.43.1.3 94380 1gotG 73 2.51e+01 1tbgE a.137.3.1 19629 1ud0A 113 2.55e+01 a.8.4.1 99198 1odfA 290 2.55e+01 c.37.1.6 92782 1mba 147 2.60e+01 2fal a.1.1.2 15149 1z9bA 135 2.61e+01 1my6A 199 2.65e+01 a.2.11.1,d.44.1.1 85232,85233 2aq9A 262 2.66e+01 1vd6A 224 2.67e+01 1iukA 140 2.74e+01 c.2.1.8 83712 1ldfA 281 2.79e+01 f.19.1.1 73845 1y9zA 441 2.82e+01 1xuqA 212 2.85e+01 1xxqA 161 2.86e+01 2bl2A 156 2.87e+01 1qavA 90 2.91e+01 1qauA b.36.1.1 24777 1lj9A 144 2.92e+01 a.4.5.28 78035 1bf2 750 2.93e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1h6hA 143 2.96e+01 d.189.1.1 65681 1ggzA 148 2.99e+01 a.39.1.5 70176 2ae2A 260 3.01e+01 1bdb c.2.1.2 29945 2fp7B 172 3.02e+01 1r6wA 322 3.16e+01 c.1.11.2,d.54.1.1 97165,97166 1z7aA 308 3.17e+01 2ci9A 102 3.18e+01 1xknA 355 3.21e+01 1y1nA 291 3.28e+01 1sknP 92 3.29e+01 1sknP a.37.1.1 17127 1wa5C 960 3.35e+01 12asA 330 3.35e+01 12asA d.104.1.1 40783 1vjpA 394 3.39e+01 c.2.1.3,d.81.1.3 100828,100829 1odkA 235 3.45e+01 c.56.2.1 86863 2iv2X 715 3.46e+01 1a78A 134 3.49e+01 1c1lA b.29.1.3 24212 1dszB 85 3.49e+01 2nllB g.39.1.2 45108 1hw1A 239 3.50e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1tn6A 382 3.52e+01 1y0mA 61 3.56e+01 1yndA 165 3.59e+01 1r3eA 309 3.65e+01 b.122.1.1,d.265.1.2 96907,96908 1gvnA 90 3.68e+01 a.8.2.1 76353 1nz0A 118 3.76e+01 d.14.1.2 86433 1wrrA 301 3.77e+01 1aa6 715 3.85e+01 2napA b.52.2.2,c.81.1.1 26916,35324 1dqaA 467 3.89e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1jpyA 137 3.92e+01 g.17.1.6 67065 1mveA 243 3.93e+01 b.29.1.2 85140 1zkrA 153 4.07e+01 2g09A 297 4.08e+01 2b5hA 200 4.11e+01 1vloA 381 4.12e+01 b.44.2.1,d.250.1.1 108838,108839 1q0gA 117 4.16e+01 a.24.22.1 104428 1g8mA 593 4.16e+01 1g8mA c.24.1.3,c.97.2.1 60371,60372 1o9gA 250 4.16e+01 c.66.1.29 86692 1bolA 222 4.25e+01 1bolA d.124.1.1 41120 1mkmA 249 4.25e+01 a.4.5.33,d.110.2.2 79242,79243 1oywA 523 4.27e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 2fnjC 96 4.28e+01 1iznB 277 4.32e+01 e.43.1.2 83848 1kq6A 141 4.34e+01 d.189.1.1 91020 1wmiA 90 4.37e+01 2bo3A 94 4.39e+01 2a72A 146 4.40e+01 1jp4A 308 4.45e+01 1jp4A e.7.1.1 63223 1u55A 188 4.50e+01 d.278.1.1 107677 1ohlA 342 4.50e+01 c.1.10.3 87035 2gujA 155 4.62e+01 2essA 248 4.63e+01 2mcm 112 4.65e+01 2mcm b.1.7.1 22207 1f1uA 323 4.65e+01 d.32.1.3,d.32.1.3 83200,83201 1oxwA 373 4.67e+01 c.19.1.3 87539 1zb1A 392 4.68e+01 1p4fA 293 4.71e+01 d.144.1.7 104063 1wmmA 145 4.74e+01 1m4lA 307 4.78e+01 c.56.5.1 78604 1k94A 165 4.90e+01 a.39.1.8 68333 1xbbA 291 5.05e+01 1tueA 212 5.05e+01 c.37.1.20 107323 1lm8C 96 5.06e+01 d.42.1.1 74034 2a74B 188 5.19e+01 1ig5A 75 5.20e+01 4icb a.39.1.1 62363 1wwiA 148 5.23e+01 1ockA 412 5.28e+01 c.117.1.1 86802 2aaxA 275 5.29e+01 1ursA 402 5.30e+01 c.94.1.1 99833 2awpA 198 5.30e+01 2fokA 579 5.41e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1yyqA 374 5.43e+01 1ys1X 320 5.45e+01 1udh 244 5.47e+01 3eugA c.18.1.1 31015 1cruA 454 5.50e+01 1c9uA b.68.2.1 27617 2gwdA 449 5.51e+01 1qhxA 178 5.51e+01 1qhsA c.37.1.3 31936 1wn5A 130 5.55e+01 1vdwA 254 5.57e+01 e.7.1.1 100569 1zy9A 564 5.60e+01 1dbhA 354 5.72e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1um0A 365 5.72e+01 d.258.1.1 107942 1f6yA 262 5.74e+01 1f6yA c.1.21.2 29673 1s3aA 102 5.77e+01 2bjqA 345 5.79e+01 1tdpA 111 5.81e+01 a.29.8.1 106781 2fazA 78 5.84e+01 1zs4A 83 5.85e+01 1yydA 357 5.85e+01 1v4vA 376 5.93e+01 c.87.1.3 100313 1n97A 389 5.96e+01 a.104.1.1 80335 1zw8A 64 5.98e+01 1zfjA 491 6.05e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 2fp7A 54 6.06e+01 1q3oA 109 6.08e+01 b.36.1.1 95700 1f1xA 322 6.10e+01 d.32.1.3,d.32.1.3 83208,83209 1sz2A 332 6.14e+01 2bdwA 362 6.15e+01 1tp5A 119 6.24e+01 2f94F 350 6.29e+01 2f57A 317 6.32e+01 1php 394 6.46e+01 16pk c.86.1.1 35452 1vdnA 162 6.51e+01 1mwpA 96 6.57e+01 1mwpA d.170.2.1 42453 1vp7A 100 6.65e+01 1px5A 349 6.65e+01 a.160.1.2,d.218.1.6 95277,95278 1ko3A 230 6.68e+01 d.157.1.1 90974 1a4pA 96 6.71e+01 1b4cA a.39.1.2 17176 1bkb 136 6.72e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1rkuA 206 6.73e+01 c.108.1.11 97627 1kaeA 434 6.77e+01 c.82.1.2 72247 2bo9A 308 6.88e+01 1ugxA 133 6.89e+01 1vpbA 451 6.89e+01 2cklA 108 6.93e+01 1s68A 249 6.94e+01 d.142.2.4 98591 1q6uA 245 6.96e+01 d.26.1.1 95998 1j24A 143 7.03e+01 c.52.1.20 84008 2fhqA 141 7.07e+01 1ydiA 263 7.15e+01 2cybA 323 7.17e+01 2d5xB 146 7.23e+01 1pufB 73 7.26e+01 a.4.1.1 95132 1ugpB 226 7.27e+01 b.34.4.4 107832 1h0pA 182 7.27e+01 b.62.1.1 76450 1yueA 427 7.29e+01 1evlA 401 7.31e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1wmuB 146 7.33e+01 a.1.1.2 109417 1oalA 151 7.34e+01 b.1.8.1 86739 1gbs 185 7.45e+01 153l d.2.1.5 36986 2d37A 176 7.50e+01 1je8A 82 7.50e+01 a.4.6.2 77108 1yf3A 259 7.51e+01 1twfB 1224 7.52e+01 1hyp 80 7.57e+01 1hyp a.52.1.1 17806 1b67A 68 7.64e+01 1a7w a.22.1.2 16474 1yymG 313 7.67e+01 1d9cA 121 7.67e+01 1d9cA a.26.1.3 16901 2bhwA 232 7.68e+01 1wsrA 375 7.71e+01 1j75A 67 7.87e+01 a.4.5.19 62673 1zzmA 259 7.90e+01 1h97A 147 7.93e+01 1h97A a.1.1.2 60812 7fd1A 106 7.95e+01 1a6l d.58.1.2 38953 1whsA 255 7.95e+01 1ivyA c.69.1.5 34649 1m1hA 248 7.97e+01 b.114.1.1,d.58.42.1 78415,78416 1ov9A 50 8.00e+01 a.155.1.1 93591 1rxyA 253 8.01e+01 c.56.2.1 98065 1dmgA 225 8.03e+01 1dmgA c.22.1.1 31036 1u2zA 433 8.03e+01 c.66.1.31 107626 1qo7A 394 8.04e+01 1qo7A c.69.1.11 34697 2d9iA 96 8.04e+01 2fomB 185 8.16e+01 1q6hA 224 8.18e+01 d.26.1.1 95975 1vhqA 232 8.22e+01 c.23.16.2 100696 1vqoX 92 8.23e+01 1uwcA 261 8.23e+01 c.69.1.17 100101 2ciaA 102 8.28e+01 1kblA 873 8.29e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1pa7A 130 8.30e+01 a.40.1.1 94410 1erd 40 8.34e+01 1erd a.10.1.1 16362 2gl5A 410 8.36e+01 1syyA 346 8.43e+01 a.25.1.2 106126 1g2yA 32 8.45e+01 a.34.2.1 17003 1otrA 49 8.47e+01 a.5.2.4 87413 1rkbA 173 8.53e+01 2dc3A 193 8.55e+01 1o5zA 442 8.59e+01 c.59.1.2,c.72.2.2 92530,92531 1g0oA 283 8.59e+01 1ybvA c.2.1.2 60181 2bo4A 397 8.65e+01 2eifA 136 8.67e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1wyzA 242 8.75e+01 1gp6A 356 8.78e+01 b.82.2.1 65441 1t6uA 117 8.82e+01 a.24.22.1 106584 1wu3I 161 8.85e+01 2go7A 207 8.86e+01 1kjwA 295 8.94e+01 b.34.2.1,c.37.1.1 68643,68644