# List of top-scoring protein chains for t04-100-30-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 2.24e-15 1dvoA a.136.1.1 19623 2bk9A 153 1.08e+00 1uj8A 77 1.30e+00 1kk8B 139 2.03e+00 a.39.1.5 77430 1zupA 315 2.64e+00 1x8bA 289 3.00e+00 1efyA 350 3.11e+00 1a26 a.41.1.1,d.166.1.2 17413,42275 1yumA 242 3.17e+00 1bzpA 153 3.26e+00 1a6m a.1.1.2 15020 1mlo 154 3.50e+00 1a6m a.1.1.2 15085 1apyB 141 3.71e+00 1apyB 1mll 154 4.17e+00 1a6m a.1.1.2 15057 2gyqA 175 4.20e+00 1svfB 38 4.35e+00 1svfB h.3.2.1 45764 1iscA 192 4.92e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 2spl 154 5.05e+00 1a6m a.1.1.2 15047 1dpuA 99 5.09e+00 1dpuA a.4.5.16 16150 1vl8A 267 5.29e+00 c.2.1.2 108733 1gvnA 90 5.58e+00 a.8.2.1 76353 1mlg 154 5.66e+00 1a6m a.1.1.2 15104 1sgmA 191 5.73e+00 a.4.1.9,a.121.1.1 105537,105538 1wdcB 156 5.82e+00 1wdcB a.39.1.5 17302 1tdpA 111 6.07e+00 a.29.8.1 106781 2mgg 154 6.13e+00 1a6m a.1.1.2 15069 1mod 154 6.20e+00 1a6m a.1.1.2 15107 1mzbA 136 6.38e+00 a.4.5.42 91497 1cleA 534 6.62e+00 1thg c.69.1.17 34771 103m 154 6.67e+00 1a6m a.1.1.2 15124 1mym 154 6.76e+00 1a6m a.1.1.2 15054 1v7cA 351 6.89e+00 c.79.1.1 100446 1llfA 534 6.90e+00 c.69.1.17 78094 2c8mA 262 7.12e+00 2mgb 154 7.13e+00 1a6m a.1.1.2 15102 2arsA 262 8.05e+00 1jksA 294 8.22e+00 d.144.1.7 71710 2frfA 153 8.57e+00 1gjnA 153 8.71e+00 a.1.1.2 70191 1ki1B 352 8.77e+00 a.87.1.1,b.55.1.1 72497,72498 1z1dA 103 8.79e+00 1u35C 120 9.20e+00 1ve3A 227 9.43e+00 1w33A 181 9.92e+00 2aaoA 166 9.92e+00 1usyA 275 1.01e+01 1ywnA 316 1.22e+01 1z2cB 383 1.23e+01 1kgnA 329 1.25e+01 a.25.1.2 68584 1mba 147 1.27e+01 2fal a.1.1.2 15149 1xwiA 322 1.30e+01 1hwxA 501 1.39e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1xteA 154 1.59e+01 2ga1A 106 1.61e+01 1xk4C 113 1.62e+01 1w0mA 226 1.76e+01 c.1.1.1 109027 1dbhA 354 1.77e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1ljoA 77 1.77e+01 b.38.1.1 73941 2es4D 332 1.78e+01 1gcvB 136 1.79e+01 1cg5B a.1.1.2 15589 1t6sA 162 1.84e+01 1zsqA 528 1.87e+01 1z5hA 780 1.89e+01 1bc8C 93 1.91e+01 1awcA a.4.5.21 16168 1fo1A 271 1.91e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 1ydiA 263 1.91e+01 2fu4A 83 1.91e+01 4icb 76 1.92e+01 4icb a.39.1.1 17145 1us5A 314 1.95e+01 c.94.1.1 99856 2tmnE 316 2.00e+01 1hyt d.92.1.2 59055 1yyvA 131 2.14e+01 1wyuB 474 2.19e+01 1uby 367 2.20e+01 1uby a.128.1.1 19435 1v3wA 173 2.20e+01 b.81.1.5 100291 2bnxA 386 2.22e+01 1s1eA 224 2.24e+01 2ae2A 260 2.26e+01 1bdb c.2.1.2 29945 1zvzA 279 2.32e+01 1zoyC 140 2.33e+01 2fokA 579 2.34e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1va6A 518 2.37e+01 1f53A 84 2.37e+01 1f53A b.11.1.4 23632 1r5lA 262 2.38e+01 a.5.3.1,c.13.1.1 97099,97100 1pmzA 86 2.43e+01 a.39.1.10 104195 1wchA 315 2.52e+01 2gsfA 373 2.62e+01 1p3qQ 54 2.64e+01 a.5.2.4 87748 1z8sA 146 2.67e+01 2iv2X 715 2.70e+01 1nekD 115 2.71e+01 f.21.2.2 80432 1vp7A 100 2.71e+01 1xtnA 120 2.74e+01 1bg1A 722 2.74e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1zq4A 693 2.76e+01 1tkiA 321 2.82e+01 1tkiA d.144.1.7 41638 1t01A 255 2.83e+01 a.24.9.1,a.24.9.1 106188,106189 1alvA 173 2.87e+01 1alvA a.39.1.8 17370 1n3hA 207 2.90e+01 b.55.1.2 91564 1f66C 128 2.90e+01 1aoiC a.22.1.1 16442 1np8A 159 2.91e+01 a.39.1.8 92022 1uujA 88 2.92e+01 a.221.1.1 108046 1yirA 408 2.94e+01 1jpaA 312 2.99e+01 d.144.1.7 67011 1ldfA 281 3.03e+01 f.19.1.1 73845 1rkeA 262 3.03e+01 a.24.9.1,a.24.9.1 97608,97609 1eqfA 280 3.05e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1d9cA 121 3.15e+01 1d9cA a.26.1.3 16901 1j55A 95 3.24e+01 a.39.1.2 77078 1k9uA 78 3.26e+01 a.39.1.10 84348 2db9A 149 3.28e+01 1i0hA 205 3.28e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1ix9A 205 3.28e+01 a.2.11.1,d.44.1.1 76899,76900 1omiA 248 3.32e+01 b.82.3.3,a.4.5.4 87079,87080 1aa6 715 3.34e+01 2napA b.52.2.2,c.81.1.1 26916,35324 1z9bA 135 3.36e+01 2bh7A 261 3.36e+01 1hlvA 131 3.37e+01 a.4.1.7,a.4.1.7 65854,65855 2awpA 198 3.39e+01 1ucrA 78 3.46e+01 a.4.5.45 99188 2atfA 200 3.49e+01 2b5hA 200 3.49e+01 1h3nA 878 3.55e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1no1A 126 3.55e+01 a.179.1.1 85913 2cblA 305 3.55e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1thg 544 3.55e+01 1thg c.69.1.17 34763 2c07A 285 3.56e+01 1x6vA 630 3.59e+01 1my6A 199 3.66e+01 a.2.11.1,d.44.1.1 85232,85233 1t1uA 639 3.70e+01 1k8tA 510 3.71e+01 e.41.1.1 68316 1hq3B 126 3.74e+01 1aoiD a.22.1.1 16444 1tzyB 126 3.74e+01 a.22.1.1 107531 1qhtA 775 3.75e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1pgvA 197 3.80e+01 c.10.1.1 88073 8tlnE 316 3.83e+01 1hyt d.92.1.2 59075 1lv7A 257 3.88e+01 c.37.1.20 78232 1fnoA 417 3.88e+01 d.58.19.1,c.56.5.4 70145,75841 1u35D 126 3.89e+01 1wu3I 161 3.92e+01 1y9zA 441 4.04e+01 1v6cA 441 4.06e+01 1oyjA 231 4.07e+01 a.45.1.1,c.47.1.5 87597,87598 1tu5A 746 4.19e+01 1bolA 222 4.26e+01 1bolA d.124.1.1 41120 1r2fA 319 4.31e+01 1r2fA a.25.1.2 16800 1iakB 185 4.36e+01 1iakB b.1.1.2,d.19.1.1 21626,38200 2fywA 267 4.36e+01 5cytR 104 4.36e+01 1ycc a.3.1.1 15878 2go7A 207 4.37e+01 2be4A 272 4.48e+01 1i3dA 146 4.61e+01 a.1.1.2 61587 1txdA 385 4.71e+01 a.87.1.1,b.55.1.1 107422,107423 1qqcA 773 4.72e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1a78A 134 4.73e+01 1c1lA b.29.1.3 24212 1iqqA 200 4.75e+01 d.124.1.1 66274 1ufbA 127 4.76e+01 a.24.16.3 99331 1ji8A 111 4.84e+01 d.203.1.1 66733 1a6m 151 4.87e+01 1a6m a.1.1.2 15018 1cg5B 141 4.90e+01 1cg5B a.1.1.2 15585 1ig5A 75 4.91e+01 4icb a.39.1.1 62363 1j5sA 463 5.03e+01 c.1.9.8 71580 1qi7A 253 5.04e+01 1qi7A d.165.1.1 42210 1qkrA 188 5.06e+01 1qkrA a.24.9.1 16628 1s8nA 205 5.09e+01 c.23.1.1 105374 1jadA 251 5.10e+01 h.4.10.1 66461 2d9iA 96 5.11e+01 2anuA 255 5.12e+01 1iwhB 146 5.15e+01 a.1.1.2 76883 1v02A 565 5.17e+01 c.1.8.4 108194 1me8A 503 5.21e+01 c.1.5.1 79028 1hbwA 57 5.22e+01 1hbwA h.1.3.1 60928 1lox 662 5.25e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1k94A 165 5.27e+01 a.39.1.8 68333 2d5xB 146 5.29e+01 1g0oA 283 5.32e+01 1ybvA c.2.1.2 60181 1ybhA 590 5.33e+01 1qvbA 481 5.36e+01 1qvbA c.1.8.4 28983 1lw3A 657 5.50e+01 b.55.1.8,c.45.1.3 91152,91153 1nm8A 616 5.54e+01 c.43.1.3,c.43.1.3 85872,85873 1h4lD 147 5.68e+01 a.74.1.1 70873 1p5hA 428 5.69e+01 c.123.1.1 87802 1yqdA 366 5.72e+01 1ignA 246 5.72e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 2flsA 132 5.73e+01 1fioA 196 5.74e+01 1fioA a.47.2.1 17773 1ulyA 192 5.95e+01 1eluA 390 5.98e+01 1elqA c.67.1.3 34434 2aq9A 262 6.00e+01 1nhyA 219 6.05e+01 a.45.1.1,c.47.1.5 80520,80521 1x6iA 91 6.10e+01 1qczA 169 6.11e+01 1qczA c.23.8.1 31276 1rec 201 6.26e+01 1rec a.39.1.5 17326 1vqoC 246 6.33e+01 1elqA 390 6.49e+01 1elqA c.67.1.3 34436 2c30A 321 6.51e+01 2ct9A 208 6.51e+01 1evsA 187 6.66e+01 1evsA a.26.1.1 16845 1v4xB 146 6.70e+01 a.1.1.2 108364 1t9bA 677 6.74e+01 1paqA 189 6.74e+01 a.118.1.14 94413 1p94A 76 6.77e+01 a.43.1.3 94380 1cpcB 172 6.79e+01 1qgwC a.1.1.3 15644 1yp2A 451 6.83e+01 2fswA 107 6.87e+01 2ccmA 191 6.98e+01 1e2tA 284 7.03e+01 1e2tA d.3.1.5 37121 1g5gA 481 7.10e+01 f.12.1.1,h.3.2.1 65155,65156 1b67A 68 7.13e+01 1a7w a.22.1.2 16474 2bdwA 362 7.14e+01 1vixA 420 7.17e+01 c.56.5.4,d.58.19.1 100777,100778 1ykhB 132 7.20e+01 1eca 136 7.23e+01 1flp a.1.1.2 15209 1rl0A 255 7.37e+01 1lp8A 254 7.41e+01 d.165.1.1 91082 1it2A 146 7.46e+01 a.1.1.2 66365 1fgkA 310 7.47e+01 1fgkA d.144.1.7 41693 2ffsA 157 7.48e+01 1y1xA 191 7.53e+01 1gewA 356 7.58e+01 1gewA c.67.1.1 60470 1xahA 354 7.61e+01 1gv3A 248 7.75e+01 a.2.11.1,d.44.1.1 70585,70586 1xfxA 777 7.88e+01 1ji0A 240 7.89e+01 c.37.1.12 71665 1wkyA 464 7.95e+01 1gz6A 319 8.04e+01 c.2.1.2 76410 1jpyA 137 8.09e+01 g.17.1.6 67065 1a0i 348 8.10e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1wmuA 141 8.14e+01 a.1.1.2 109416 2cq8A 110 8.14e+01 2g39A 497 8.21e+01 1vl6A 388 8.22e+01 c.2.1.7,c.58.1.3 108724,108725 1otsA 465 8.24e+01 f.20.1.1 87415 2c1vA 338 8.26e+01 1k3rA 268 8.28e+01 b.40.4.10,c.116.1.2 72018,72019 1f3aA 222 8.29e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1sqzA 121 8.44e+01 a.133.1.2 98975 1tj9A 121 8.44e+01 a.133.1.2 107015 1tk4A 121 8.44e+01 a.133.1.2 107073 1zwpA 121 8.44e+01 2g58A 121 8.44e+01 1vf1A 229 8.45e+01 1fx8A 281 8.46e+01 f.19.1.1 43651 1tn6A 382 8.51e+01 7fd1A 106 8.52e+01 1a6l d.58.1.2 38953 1xkpC 143 8.58e+01 1n82A 331 8.66e+01 c.1.8.3 91703 1v63A 101 8.67e+01 a.21.1.1 108391 1ru0A 105 8.79e+01 1f4qA 165 8.80e+01 1alvA a.39.1.8 17360 1kx5D 125 8.87e+01 a.22.1.1 77596 1vjpA 394 8.89e+01 c.2.1.3,d.81.1.3 100828,100829 1bcfA 158 8.89e+01 1bcfA a.25.1.1 16648 2g0wA 296 8.89e+01 1rq6A 62 8.92e+01 1zx0A 236 8.92e+01 1kgdA 180 8.93e+01 c.37.1.1 68582 1v9mA 323 8.95e+01 f.40.1.1 100543 1yxmA 303 8.98e+01 1i6lA 328 8.99e+01 c.26.1.1 66041