# List of top-scoring protein chains for t06-100-30-alpha-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-21 1dvoA a.136.1.1 19623 1yumA 242 1.41e-01 1apyB 141 1.73e-01 1apyB 1ve3A 227 1.86e-01 1uj8A 77 3.14e-01 1vqoC 246 3.79e-01 1z5hA 780 4.58e-01 1y9zA 441 5.99e-01 1z1dA 103 6.55e-01 1w0mA 226 6.66e-01 c.1.1.1 109027 1v7cA 351 6.83e-01 c.79.1.1 100446 2gyqA 175 6.91e-01 2fneA 117 7.23e-01 1pbjA 125 8.88e-01 d.37.1.1,d.37.1.1 94414,94415 1v3wA 173 9.16e-01 b.81.1.5 100291 1ufbA 127 9.16e-01 a.24.16.3 99331 1w33A 181 9.57e-01 1nekD 115 9.89e-01 f.21.2.2 80432 1iscA 192 1.06e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1x8bA 289 1.07e+00 1zupA 315 1.27e+00 2fafA 608 1.37e+00 2ga1A 106 1.51e+00 1svfB 38 1.52e+00 1svfB h.3.2.1 45764 1r6vA 671 1.61e+00 2bk9A 153 1.68e+00 1xknA 355 1.86e+00 1usyA 275 1.87e+00 1ea7A 310 2.04e+00 c.41.1.1 70086 1hlvA 131 2.09e+00 a.4.1.7,a.4.1.7 65854,65855 1lcyA 325 2.46e+00 b.36.1.4,b.47.1.1 73834,73835 1qhtA 775 2.49e+00 1tgoA c.55.3.5,e.8.1.1 33722,43011 1bg1A 722 2.53e+00 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1pvmA 184 2.57e+00 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 2cxxA 190 2.76e+00 1no1A 126 3.15e+00 a.179.1.1 85913 1wa5C 960 3.20e+00 2c8mA 262 3.29e+00 1vlpA 441 3.52e+00 d.41.2.2,d.41.2.3 108840,108841 2fswA 107 3.55e+00 1gbs 185 3.71e+00 153l d.2.1.5 36986 1x3kA 152 3.80e+00 1o50A 157 3.82e+00 d.37.1.1,d.37.1.1 92478,92479 2es4D 332 3.83e+00 2evaA 307 4.05e+00 1hw1A 239 4.28e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1jp4A 308 4.37e+00 1jp4A e.7.1.1 63223 1ki1B 352 4.45e+00 a.87.1.1,b.55.1.1 72497,72498 1u2zA 433 4.88e+00 c.66.1.31 107626 1sgmA 191 5.09e+00 a.4.1.9,a.121.1.1 105537,105538 1p3qQ 54 5.17e+00 a.5.2.4 87748 1hyp 80 5.30e+00 1hyp a.52.1.1 17806 1wmiA 90 5.34e+00 1ohlA 342 5.58e+00 c.1.10.3 87035 1thg 544 5.60e+00 1thg c.69.1.17 34763 1wdcB 156 5.62e+00 1wdcB a.39.1.5 17302 2gsfA 373 5.67e+00 1yr2A 741 5.68e+00 1odfA 290 6.00e+00 c.37.1.6 92782 1s4bP 674 6.12e+00 d.92.1.5 105252 1pmzA 86 6.13e+00 a.39.1.10 104195 1zx0A 236 6.49e+00 1dbhA 354 6.52e+00 1awe a.87.1.1,b.55.1.1 18514,26967 1v4xB 146 6.55e+00 a.1.1.2 108364 1qhfA 240 6.64e+00 1qhfA c.60.1.1 33960 12asA 330 6.68e+00 12asA d.104.1.1 40783 1mkmA 249 6.78e+00 a.4.5.33,d.110.2.2 79242,79243 1h3nA 878 6.98e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1kk8B 139 7.00e+00 a.39.1.5 77430 2fnjC 96 7.11e+00 2flsA 132 7.13e+00 1my6A 199 7.22e+00 a.2.11.1,d.44.1.1 85232,85233 1q5dA 419 7.28e+00 a.104.1.1 95891 1p4cA 380 7.48e+00 c.1.4.1 94100 2anuA 255 7.57e+00 1qkrA 188 7.60e+00 1qkrA a.24.9.1 16628 2fkbA 180 7.60e+00 1yirA 408 7.67e+00 1j55A 95 7.70e+00 a.39.1.2 77078 2aq9A 262 8.09e+00 1v84A 253 8.12e+00 c.68.1.7 108419 1v4vA 376 8.25e+00 c.87.1.3 100313 1xkpA 246 8.35e+00 1m4lA 307 8.51e+00 c.56.5.1 78604 1mba 147 8.63e+00 2fal a.1.1.2 15149 1llfA 534 8.80e+00 c.69.1.17 78094 1to2E 281 8.86e+00 1q77A 138 8.96e+00 c.26.2.4 96023 2ffsA 157 9.30e+00 1hleA 345 9.52e+00 1ovaA e.1.1.1 42618 1yllA 200 9.53e+00 1qhxA 178 9.68e+00 1qhsA c.37.1.3 31936 1yp2A 451 9.82e+00 1r3eA 309 9.85e+00 b.122.1.1,d.265.1.2 96907,96908 1qavA 90 1.04e+01 1qauA b.36.1.1 24777 1mzbA 136 1.04e+01 a.4.5.42 91497 1j24A 143 1.07e+01 c.52.1.20 84008 2g39A 497 1.10e+01 2bl2A 156 1.15e+01 1dqaA 467 1.17e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1kq6A 141 1.19e+01 d.189.1.1 91020 1mveA 243 1.19e+01 b.29.1.2 85140 1lv7A 257 1.20e+01 c.37.1.20 78232 1quqB 121 1.21e+01 1quqB b.40.4.3 25305 2awpA 198 1.22e+01 1gnxA 479 1.28e+01 c.1.8.4 76241 2h88D 103 1.29e+01 1wn5A 130 1.30e+01 1r5lA 262 1.33e+01 a.5.3.1,c.13.1.1 97099,97100 2bitX 165 1.34e+01 1wsrA 375 1.37e+01 1tp5A 119 1.38e+01 1eg3A 261 1.40e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 2gl5A 410 1.45e+01 1yymG 313 1.45e+01 1p94A 76 1.47e+01 a.43.1.3 94380 1y1nA 291 1.48e+01 1kgdA 180 1.49e+01 c.37.1.1 68582 1ypfA 336 1.54e+01 1ucrA 78 1.59e+01 a.4.5.45 99188 1yf3A 259 1.60e+01 1yyqA 374 1.61e+01 1jpaA 312 1.61e+01 d.144.1.7 67011 1ta3A 274 1.66e+01 c.1.8.5 106731 1pzxA 289 1.67e+01 c.119.1.1 95484 1ko3A 230 1.67e+01 d.157.1.1 90974 1k8uA 90 1.68e+01 a.39.1.2 72181 1lm8C 96 1.76e+01 d.42.1.1 74034 1k9uA 78 1.77e+01 a.39.1.10 84348 1ornA 226 1.78e+01 a.96.1.1 87342 1mp1A 111 1.79e+01 a.188.1.1 91382 2bjqA 345 1.79e+01 1q3oA 109 1.81e+01 b.36.1.1 95700 1jl0A 334 1.85e+01 1jenA d.156.1.1 63155 2fazA 78 1.85e+01 2fbwD 103 1.85e+01 1te2A 226 1.87e+01 c.108.1.6 106792 1zsqA 528 1.87e+01 2scpA 174 1.89e+01 2scpA a.39.1.5 17256 1udh 244 1.95e+01 3eugA c.18.1.1 31015 1fgkA 310 1.95e+01 1fgkA d.144.1.7 41693 1gcvB 136 1.97e+01 1cg5B a.1.1.2 15589 2b7aA 293 1.98e+01 1egpA 45 1.98e+01 1egpA d.40.1.1 38561 2ci9A 102 2.01e+01 1zybA 232 2.01e+01 1eyhA 144 2.06e+01 1eduA a.118.9.1 19214 1b67A 68 2.09e+01 1a7w a.22.1.2 16474 2fcfA 103 2.10e+01 1jksA 294 2.10e+01 d.144.1.7 71710 1tz9A 367 2.11e+01 c.1.15.6 107466 1a78A 134 2.11e+01 1c1lA b.29.1.3 24212 1auiB 169 2.12e+01 1auiB a.39.1.5 17325 1ituA 369 2.13e+01 c.1.9.7 71423 1twfB 1224 2.15e+01 1vjpA 394 2.20e+01 c.2.1.3,d.81.1.3 100828,100829 2f4pA 147 2.21e+01 1k1vA 41 2.22e+01 a.37.1.1 71999 1vkpA 383 2.24e+01 d.126.1.6 108686 1thfD 253 2.27e+01 1thfD c.1.2.1 28535 1h32B 138 2.28e+01 a.3.1.1 76620 1r64A 481 2.29e+01 b.18.1.20,c.41.1.1 97140,97141 1mun 225 2.32e+01 1mun a.96.1.2 18744 2ghsA 326 2.35e+01 1xxqA 161 2.37e+01 2g76A 335 2.40e+01 2bo9A 308 2.42e+01 1gjwA 637 2.45e+01 b.71.1.1,c.1.8.1 60582,60583 1m93A 55 2.48e+01 e.1.1.1 91235 1cseI 71 2.50e+01 1egpA d.40.1.1 38559 1u55A 188 2.52e+01 d.278.1.1 107677 1efyA 350 2.52e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1pa7A 130 2.52e+01 a.40.1.1 94410 1mkaA 171 2.60e+01 1mkaA d.38.1.2 38543 1q60A 99 2.60e+01 1ockA 412 2.63e+01 c.117.1.1 86802 2afaA 425 2.64e+01 2cyjA 118 2.64e+01 2bh8A 101 2.66e+01 8tlnE 316 2.68e+01 1hyt d.92.1.2 59075 1php 394 2.71e+01 16pk c.86.1.1 35452 2au3A 407 2.72e+01 1mtpA 323 2.73e+01 e.1.1.1 85107 1wvgA 359 2.77e+01 1s68A 249 2.93e+01 d.142.2.4 98591 1gvnA 90 2.93e+01 a.8.2.1 76353 1gvnB 287 2.95e+01 c.37.1.21 76354 1jpyA 137 2.97e+01 g.17.1.6 67065 1uedA 406 3.00e+01 a.104.1.1 99256 1yndA 165 3.01e+01 1hbwA 57 3.02e+01 1hbwA h.1.3.1 60928 7fd1A 106 3.04e+01 1a6l d.58.1.2 38953 1iq8A 582 3.06e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 2b5hA 200 3.06e+01 1g8mA 593 3.08e+01 1g8mA c.24.1.3,c.97.2.1 60371,60372 1q8cA 151 3.10e+01 a.79.1.2 96202 1bkb 136 3.12e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1v71A 323 3.14e+01 1v4xA 144 3.41e+01 a.1.1.2 108363 2ae2A 260 3.42e+01 1bdb c.2.1.2 29945 1wmuB 146 3.42e+01 a.1.1.2 109417 1ymtA 246 3.63e+01 1xizA 159 3.67e+01 1kaeA 434 3.70e+01 c.82.1.2 72247 1ig5A 75 3.72e+01 4icb a.39.1.1 62363 1x0lA 333 3.72e+01 2fu4A 83 3.74e+01 1ef8A 261 3.74e+01 1ef8A c.14.1.3 30921 1bd3A 243 3.76e+01 1bd3A c.61.1.1 34098 1zfjA 491 3.78e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 2be4A 272 3.81e+01 1aa6 715 3.83e+01 2napA b.52.2.2,c.81.1.1 26916,35324 1em9A 154 3.85e+01 1d1dA a.73.1.1 18333 1dmgA 225 3.86e+01 1dmgA c.22.1.1 31036 1ri5A 298 3.88e+01 c.66.1.34 97502 1woqA 267 3.88e+01 c.55.1.10,c.55.1.10 109462,109463 2fp7B 172 3.92e+01 1ed1A 135 4.02e+01 1hiwA a.61.1.1 18130 1umnA 165 4.08e+01 a.25.1.1 99607 1wmuA 141 4.08e+01 a.1.1.2 109416 1ov9A 50 4.10e+01 a.155.1.1 93591 1nf2A 268 4.13e+01 c.108.1.10 91849 1u2mA 143 4.14e+01 f.48.1.1 107612 1j75A 67 4.19e+01 a.4.5.19 62673 1a7tA 232 4.21e+01 1a7tA d.157.1.1 42041 1ufkA 254 4.22e+01 c.66.1.39 99340 2a72A 146 4.22e+01 1iyhA 198 4.24e+01 a.45.1.1,c.47.1.5 83790,83791 1eokA 290 4.25e+01 1eokA c.1.8.5 28991 1cruA 454 4.25e+01 1c9uA b.68.2.1 27617 1x1iA 752 4.25e+01 1tu5A 746 4.30e+01 1a7w 69 4.34e+01 1a7w a.22.1.2 16477 1gotG 73 4.36e+01 1tbgE a.137.3.1 19629 1m1hA 248 4.41e+01 b.114.1.1,d.58.42.1 78415,78416 1vehA 92 4.42e+01 1nm8A 616 4.42e+01 c.43.1.3,c.43.1.3 85872,85873 2d5xB 146 4.44e+01 1v8cA 168 4.46e+01 d.15.3.1,d.129.5.1 100495,100496 1im8A 244 4.47e+01 c.66.1.14 66212 1wchA 315 4.47e+01 1um0A 365 4.50e+01 d.258.1.1 107942 2f31A 233 4.51e+01 1hbkA 94 4.56e+01 1aca a.11.1.1 60887 1je8A 82 4.57e+01 a.4.6.2 77108 2iv2X 715 4.63e+01 1knyA 253 4.66e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1f53A 84 4.69e+01 1f53A b.11.1.4 23632 2bl0C 142 4.70e+01 1omrA 201 4.70e+01 a.39.1.5 93349 2erbA 125 4.71e+01 1zxfA 155 4.71e+01 1cg5B 141 4.74e+01 1cg5B a.1.1.2 15585 2fomB 185 4.75e+01 2db9A 149 4.75e+01 1jljA 189 4.79e+01 c.57.1.1 63169 1ug3A 339 4.80e+01 1nigA 152 4.81e+01 a.25.2.1 85740 1otrA 49 4.81e+01 a.5.2.4 87413 1ex7A 186 4.81e+01 1gky c.37.1.1 59537 1whsA 255 4.82e+01 1ivyA c.69.1.5 34649 1o5zA 442 4.84e+01 c.59.1.2,c.72.2.2 92530,92531 1v54L 47 4.86e+01 f.23.6.1 100333 1dxrH 258 4.87e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1kjwA 295 4.95e+01 b.34.2.1,c.37.1.1 68643,68644 2fokA 579 4.99e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1k94A 165 5.03e+01 a.39.1.8 68333 1wdcC 156 5.04e+01 1wdcC a.39.1.5 17317 1g2yA 32 5.04e+01 a.34.2.1 17003 2ffcA 353 5.07e+01 1wrrA 301 5.08e+01 1w9gA 104 5.09e+01 1odoA 408 5.11e+01 a.104.1.1 92783 1hgxA 183 5.14e+01 1tc1A c.61.1.1 34027 1uhgA 385 5.14e+01 e.1.1.1 88491 1wyuB 474 5.17e+01 1n00A 321 5.20e+01 a.65.1.1 85241 1z96A 40 5.21e+01 2dafA 118 5.21e+01 2essA 248 5.27e+01 1evlA 401 5.28e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 2gujA 155 5.29e+01 1xg8A 111 5.33e+01 1jsuC 84 5.33e+01 1jsuC j.55.1.1 46339 2eifA 136 5.33e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1ulyA 192 5.37e+01 1h6hA 143 5.37e+01 d.189.1.1 65681 1zwwA 256 5.42e+01 1nz0A 118 5.43e+01 d.14.1.2 86433 1bqfA 25 5.44e+01 j.8.1.1 46113 1kq3A 376 5.46e+01 e.22.1.2 68790 2aa1A 144 5.50e+01 1hf8A 289 5.51e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1wmmA 145 5.55e+01 2b0lA 102 5.62e+01 1nu4A 97 5.63e+01 d.58.7.1 80731 1u7gA 385 5.63e+01 f.44.1.1 107723 2fnoA 248 5.65e+01 1j09A 468 5.77e+01 a.97.1.1,c.26.1.1 77025,77026 1regX 122 5.81e+01 1regX d.58.27.1 39406 1rkxA 357 5.85e+01 c.2.1.2 97631 1i6lA 328 5.87e+01 c.26.1.1 66041 1px5A 349 5.87e+01 a.160.1.2,d.218.1.6 95277,95278 1vqoX 92 5.91e+01 1paqA 189 5.94e+01 a.118.1.14 94413 1shuX 182 6.02e+01 c.62.1.1 98882 1zelA 298 6.04e+01 2gmqA 118 6.05e+01 2cxhA 217 6.05e+01 2aa1B 146 6.06e+01 1pbyA 489 6.08e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1gcvA 140 6.18e+01 1cg5B a.1.1.2 15410 1spgA 144 6.19e+01 1abwA a.1.1.2 15409 2ct9A 208 6.19e+01 1tdpA 111 6.22e+01 a.29.8.1 106781 2ah5A 210 6.24e+01 1vgjA 184 6.27e+01 1iu8A 206 6.32e+01 c.56.4.1 71436 1ppjA 446 6.34e+01 d.185.1.1,d.185.1.1 104252,104253 1pgvA 197 6.34e+01 c.10.1.1 88073 1tca 317 6.39e+01 1tca c.69.1.17 34726 1ka1A 357 6.42e+01 e.7.1.1 68369 1ggzA 148 6.43e+01 a.39.1.5 70176 1bhdA 118 6.53e+01 1bkrA a.40.1.1 17398 1nnvA 110 6.56e+01 d.17.7.1 92012 2bnxA 386 6.61e+01 1d9cA 121 6.61e+01 1d9cA a.26.1.3 16901 1w6kA 732 6.65e+01 1vraB 215 6.70e+01 1rwhA 757 6.75e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1sknP 92 6.78e+01 1sknP a.37.1.1 17127 1z7aA 308 6.83e+01 1xuqA 212 6.87e+01 1yxyA 234 6.89e+01 1mwpA 96 6.93e+01 1mwpA d.170.2.1 42453 1ugxA 133 6.93e+01 1x6iA 91 6.94e+01 1vp7A 100 6.95e+01 1ub9A 100 6.97e+01 a.4.5.28 99159 1yydA 357 7.00e+01 1rkuA 206 7.01e+01 c.108.1.11 97627 1sauA 115 7.02e+01 1zkrA 153 7.04e+01 1q6uA 245 7.05e+01 d.26.1.1 95998 2a6sA 84 7.07e+01 1wh2A 78 7.09e+01 1khbA 625 7.11e+01 c.91.1.1,c.109.1.1 68606,68607 1zy9A 564 7.12e+01 3pviA 157 7.13e+01 3pviA c.52.1.6 33300 1f45B 197 7.13e+01 1f45B a.26.1.1 59642 1x2iA 75 7.15e+01 2aeuA 374 7.17e+01 1vp8A 201 7.17e+01 1xhdA 173 7.23e+01 1j7gA 144 7.28e+01 c.110.1.1 84130 1qj4A 257 7.30e+01 1qj4A c.69.1.20 34796 2mcm 112 7.33e+01 2mcm b.1.7.1 22207 1vk9A 151 7.34e+01 c.139.1.1 108640 1kblA 873 7.42e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1xbbA 291 7.49e+01 1xkpC 143 7.62e+01 2a07F 93 7.64e+01 1vdnA 162 7.65e+01 1ivyA 452 7.71e+01 1ivyA c.69.1.5 34654 1fjgI 128 7.72e+01 1fjfI d.14.1.1 37559 1h8eG 272 7.75e+01 1e79G c.49.2.1 60756 1tueA 212 7.78e+01 c.37.1.20 107323 1r12A 258 7.80e+01 e.4.1.1 96780 1dciA 275 7.83e+01 1dciA c.14.1.3 30918 1f7cA 231 7.91e+01 1f7cA a.116.1.1 19107 1pcxA 810 7.96e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1q6hA 224 7.99e+01 d.26.1.1 95975 2bo4A 397 8.01e+01 1ywwA 85 8.08e+01 1zosA 230 8.09e+01 1u2pA 163 8.19e+01 1h6kZ 98 8.21e+01 d.58.7.1 60686 2h88A 621 8.25e+01 2czlA 272 8.30e+01 1rm6C 161 8.36e+01 1a0p 290 8.37e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1m0kA 262 8.38e+01 f.13.1.1 78344 1kamA 194 8.38e+01 c.26.1.3 72254 1oq1A 223 8.41e+01 b.29.1.17 93408 1xneA 113 8.53e+01 1lmb3 92 8.55e+01 1lmb3 2a9uA 144 8.59e+01 2aeeA 211 8.62e+01 3cox 507 8.64e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1kgnA 329 8.68e+01 a.25.1.2 68584 1gky 187 8.75e+01 1gky c.37.1.1 31839 1h0pA 182 8.76e+01 b.62.1.1 76450 1rxqA 178 8.81e+01 a.213.1.1 105118 1ri6A 343 8.86e+01 b.69.11.1 97503 2fbwA 621 8.86e+01 1ayl 541 8.91e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 2cybA 323 8.92e+01 1eluA 390 8.95e+01 1elqA c.67.1.3 34434