# List of top-scoring protein chains for t06-100-30-stride-ebghtl-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 4.20e-15 1dvoA a.136.1.1 19623 1sgmA 191 4.37e-01 a.4.1.9,a.121.1.1 105537,105538 2bk9A 153 4.59e-01 1usyA 275 1.60e+00 1efyA 350 1.67e+00 1a26 a.41.1.1,d.166.1.2 17413,42275 2gyqA 175 1.85e+00 1zupA 315 1.99e+00 1uj8A 77 2.26e+00 1iscA 192 2.28e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1kk8B 139 2.31e+00 a.39.1.5 77430 1mzbA 136 2.80e+00 a.4.5.42 91497 1ki1B 352 3.12e+00 a.87.1.1,b.55.1.1 72497,72498 1w33A 181 3.20e+00 1svfB 38 3.69e+00 1svfB h.3.2.1 45764 1v7cA 351 3.77e+00 c.79.1.1 100446 1v3wA 173 4.31e+00 b.81.1.5 100291 1nekD 115 4.41e+00 f.21.2.2 80432 1wdcB 156 4.56e+00 1wdcB a.39.1.5 17302 2fokA 579 4.58e+00 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1yumA 242 4.75e+00 1z1dA 103 4.79e+00 2gsfA 373 4.88e+00 1apyB 141 4.90e+00 1apyB 1mba 147 5.45e+00 2fal a.1.1.2 15149 1wyuB 474 5.56e+00 2es4D 332 6.07e+00 2c8mA 262 6.60e+00 8tlnE 316 6.86e+00 1hyt d.92.1.2 59075 1x8bA 289 7.91e+00 1ufbA 127 8.08e+00 a.24.16.3 99331 1my6A 199 8.35e+00 a.2.11.1,d.44.1.1 85232,85233 1ix9A 205 8.92e+00 a.2.11.1,d.44.1.1 76899,76900 2bnxA 386 9.33e+00 1qhtA 775 9.60e+00 1tgoA c.55.3.5,e.8.1.1 33722,43011 1d9cA 121 1.01e+01 1d9cA a.26.1.3 16901 2aaoA 166 1.02e+01 1dbhA 354 1.06e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1gcvB 136 1.08e+01 1cg5B a.1.1.2 15589 1s8nA 205 1.14e+01 c.23.1.1 105374 1paqA 189 1.15e+01 a.118.1.14 94413 1jksA 294 1.15e+01 d.144.1.7 71710 1jadA 251 1.19e+01 h.4.10.1 66461 1va6A 518 1.20e+01 1jpaA 312 1.33e+01 d.144.1.7 67011 1z8sA 146 1.34e+01 1hlvA 131 1.36e+01 a.4.1.7,a.4.1.7 65854,65855 2ga1A 106 1.37e+01 1w0mA 226 1.52e+01 c.1.1.1 109027 1wu3I 161 1.60e+01 1kgnA 329 1.62e+01 a.25.1.2 68584 1r6vA 671 1.67e+01 2fswA 107 1.72e+01 1eyhA 144 1.73e+01 1eduA a.118.9.1 19214 1tdpA 111 1.73e+01 a.29.8.1 106781 1ve3A 227 1.73e+01 1zsqA 528 1.99e+01 1uujA 88 2.03e+01 a.221.1.1 108046 1lv7A 257 2.03e+01 c.37.1.20 78232 1v02A 565 2.06e+01 c.1.8.4 108194 1qczA 169 2.11e+01 1qczA c.23.8.1 31276 1f53A 84 2.22e+01 1f53A b.11.1.4 23632 1eswA 500 2.22e+01 1cwyA c.1.8.1 59500 2ffsA 157 2.23e+01 1qkrA 188 2.26e+01 1qkrA a.24.9.1 16628 1ucrA 78 2.27e+01 a.4.5.45 99188 2fu4A 83 2.34e+01 1ljoA 77 2.36e+01 b.38.1.1 73941 1pmzA 86 2.37e+01 a.39.1.10 104195 2b7aA 293 2.43e+01 1me8A 503 2.47e+01 c.1.5.1 79028 1z5hA 780 2.54e+01 1cg5B 141 2.58e+01 1cg5B a.1.1.2 15585 2acvA 463 2.65e+01 1txdA 385 2.69e+01 a.87.1.1,b.55.1.1 107422,107423 2awpA 198 2.71e+01 2ae2A 260 2.71e+01 1bdb c.2.1.2 29945 1llfA 534 2.78e+01 c.69.1.17 78094 1fgkA 310 2.82e+01 1fgkA d.144.1.7 41693 2g39A 497 2.86e+01 1wa5C 960 2.87e+01 1ta3A 274 2.94e+01 c.1.8.5 106731 1y9zA 441 2.95e+01 1k9uA 78 2.99e+01 a.39.1.10 84348 1n93X 375 3.00e+01 a.206.1.1 91707 1bg1A 722 3.03e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1zx0A 236 3.18e+01 1p94A 76 3.21e+01 a.43.1.3 94380 1tca 317 3.25e+01 1tca c.69.1.17 34726 1u55A 188 3.38e+01 d.278.1.1 107677 1mp1A 111 3.41e+01 a.188.1.1 91382 1eluA 390 3.41e+01 1elqA c.67.1.3 34434 1k94A 165 3.43e+01 a.39.1.8 68333 1p3qQ 54 3.43e+01 a.5.2.4 87748 1tu5A 746 3.47e+01 2d5xB 146 3.47e+01 2bdwA 362 3.48e+01 1tkiA 321 3.52e+01 1tkiA d.144.1.7 41638 1ldfA 281 3.56e+01 f.19.1.1 73845 1xkpC 143 3.57e+01 1ig5A 75 3.57e+01 4icb a.39.1.1 62363 1vp7A 100 3.59e+01 1evsA 187 3.66e+01 1evsA a.26.1.1 16845 1x6vA 630 3.67e+01 1bf2 750 3.87e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1pgvA 197 3.89e+01 c.10.1.1 88073 2go7A 207 3.91e+01 1k3rA 268 3.95e+01 b.40.4.10,c.116.1.2 72018,72019 1jpyA 137 3.99e+01 g.17.1.6 67065 1h3nA 878 4.03e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1i6lA 328 4.06e+01 c.26.1.1 66041 1kgdA 180 4.07e+01 c.37.1.1 68582 1j55A 95 4.12e+01 a.39.1.2 77078 1z9bA 135 4.16e+01 2iv2X 715 4.17e+01 1xfiA 367 4.21e+01 e.50.1.1 109584 1a78A 134 4.22e+01 1c1lA b.29.1.3 24212 12asA 330 4.36e+01 12asA d.104.1.1 40783 1odfA 290 4.42e+01 c.37.1.6 92782 1gvnA 90 4.50e+01 a.8.2.1 76353 1x3kA 152 4.60e+01 1mngA 203 4.66e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1zwwA 256 4.78e+01 1xk4C 113 4.80e+01 1alvA 173 4.87e+01 1alvA a.39.1.8 17370 2fnjC 96 4.91e+01 1lvfA 110 4.95e+01 a.47.2.1 74280 1wchA 315 4.95e+01 1fi2A 201 4.97e+01 1fi2A b.82.1.2 59845 2et1A 201 4.99e+01 1eqfA 280 5.00e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1yirA 408 5.13e+01 1yf9A 171 5.15e+01 1wbeA 209 5.16e+01 1n2aA 201 5.20e+01 a.45.1.1,c.47.1.5 91553,91554 1quqB 121 5.25e+01 1quqB b.40.4.3 25305 1tzyB 126 5.25e+01 a.22.1.1 107531 2aq9A 262 5.26e+01 1a4pA 96 5.35e+01 1b4cA a.39.1.2 17176 2b5hA 200 5.44e+01 1wixA 164 5.54e+01 1ta9A 450 5.57e+01 1bolA 222 5.58e+01 1bolA d.124.1.1 41120 1xahA 354 5.58e+01 1cpcB 172 5.60e+01 1qgwC a.1.1.3 15644 1q8cA 151 5.72e+01 a.79.1.2 96202 1iqqA 200 5.75e+01 d.124.1.1 66274 1nm8A 616 5.87e+01 c.43.1.3,c.43.1.3 85872,85873 1b67A 68 5.88e+01 1a7w a.22.1.2 16474 1v9mA 323 5.89e+01 f.40.1.1 100543 1yp2A 451 5.92e+01 1t6sA 162 5.92e+01 5cytR 104 5.97e+01 1ycc a.3.1.1 15878 1qc7A 101 5.99e+01 1qc7A a.118.14.1 18456 1kaeA 434 6.01e+01 c.82.1.2 72247 1auiB 169 6.05e+01 1auiB a.39.1.5 17325 1t9bA 677 6.05e+01 1vqoC 246 6.07e+01 2fywA 267 6.16e+01 2gl5A 410 6.20e+01 1wmuB 146 6.23e+01 a.1.1.2 109417 2crbA 97 6.24e+01 2ci9A 102 6.27e+01 2bo4A 397 6.27e+01 1yge 839 6.38e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1jfzA 154 6.41e+01 a.149.1.1 66655 1w27A 714 6.44e+01 2c1vA 338 6.48e+01 1r5lA 262 6.49e+01 a.5.3.1,c.13.1.1 97099,97100 1vixA 420 6.54e+01 c.56.5.4,d.58.19.1 100777,100778 1no1A 126 6.57e+01 a.179.1.1 85913 3pviA 157 6.65e+01 3pviA c.52.1.6 33300 2afaA 425 6.67e+01 1hlb 158 6.71e+01 1hlb a.1.1.2 15625 1aisB 200 6.73e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1egpA 45 6.77e+01 1egpA d.40.1.1 38561 2cxxA 190 6.78e+01 1jp4A 308 6.92e+01 1jp4A e.7.1.1 63223 1lc5A 364 6.94e+01 c.67.1.1 73827 1qddA 144 7.08e+01 1qddA d.169.1.1 42324 2scpA 174 7.09e+01 2scpA a.39.1.5 17256 2bo3A 94 7.12e+01 1tueA 212 7.21e+01 c.37.1.20 107323 1vjpA 394 7.21e+01 c.2.1.3,d.81.1.3 100828,100829 1aa6 715 7.23e+01 2napA b.52.2.2,c.81.1.1 26916,35324 2ct9A 208 7.26e+01 1wmhA 89 7.28e+01 2anuA 255 7.30e+01 1x6iA 91 7.31e+01 2h88C 140 7.31e+01 1ea7A 310 7.38e+01 c.41.1.1 70086 1hf8A 289 7.42e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1mtpA 323 7.47e+01 e.1.1.1 85107 1t1uA 639 7.49e+01 1swxA 209 7.52e+01 a.224.1.1 106075 2fkzA 155 7.55e+01 1v4xB 146 7.61e+01 a.1.1.2 108364 2bl0C 142 7.65e+01 1vgjA 184 7.68e+01 1lm8C 96 7.71e+01 d.42.1.1 74034 1lshA 1056 7.91e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1nigA 152 7.94e+01 a.25.2.1 85740 1i3dA 146 8.00e+01 a.1.1.2 61587 1vlpA 441 8.01e+01 d.41.2.2,d.41.2.3 108840,108841 1q6hA 224 8.05e+01 d.26.1.1 95975 1q6uA 245 8.07e+01 d.26.1.1 95998 1qhxA 178 8.09e+01 1qhsA c.37.1.3 31936 2f5uA 447 8.12e+01 1pufB 73 8.14e+01 a.4.1.1 95132 2be4A 272 8.25e+01 1xuqA 212 8.33e+01 2bs3C 256 8.33e+01 2h88A 621 8.42e+01 1bhdA 118 8.46e+01 1bkrA a.40.1.1 17398 2fbwC 141 8.46e+01 1qmeA 702 8.55e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2ez6A 221 8.60e+01 1q3oA 109 8.61e+01 b.36.1.1 95700 1n5nA 180 8.69e+01 d.167.1.1 85336 1xjjA 644 8.71e+01 1umnA 165 8.72e+01 a.25.1.1 99607 2flsA 132 8.76e+01 1k8uA 90 8.76e+01 a.39.1.2 72181 2db9A 149 8.79e+01 1ykhB 132 8.84e+01 1q5dA 419 8.85e+01 a.104.1.1 95891 1vqoX 92 8.87e+01 2fneA 117 8.88e+01 2fbwA 621 8.97e+01