# List of top-scoring protein chains for t2k-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 1kt8A 365 4.65e-01 e.17.1.1 77531 1vk1A 242 5.97e-01 d.268.1.2 108634 1ekfA 365 1.04e+00 1ekfA e.17.1.1 59445 2a1hA 365 1.47e+00 1sayA 361 1.51e+00 1sayA c.2.1.4,c.23.12.2 30102,31362 1pjbA 361 1.51e+00 1sayA c.2.1.4,c.23.12.2 30103,31363 1pjcA 361 1.68e+00 1sayA c.2.1.4,c.23.12.2 30101,31361 1ktaA 365 2.08e+00 e.17.1.1 77533 1gw5S 142 2.44e+00 d.110.4.2 70633 1a8s 273 2.67e+00 1brt c.69.1.12 34710 1i1dA 161 2.88e+00 1i21A d.108.1.1 61526 2coiA 386 3.69e+00 1bl3A 160 3.71e+00 1b9dA c.55.3.2 33655 2ghpA 292 3.90e+00 1oj4A 283 4.18e+00 d.14.1.5,d.58.26.5 93083,93084 1raxA 115 4.37e+00 1lfdA d.15.1.5 37626 1vybA 238 5.12e+00 d.151.1.1 108897 1m2xA 223 5.39e+00 d.157.1.1 84764 1qysA 106 5.74e+00 k.41.1.1 96603 1hyvA 166 6.27e+00 1b9dA c.55.3.2 61424 1b9dA 163 7.20e+00 1b9dA c.55.3.2 33649 1va4A 279 8.15e+00 c.69.1.12 108458 1i12A 160 8.28e+00 1i21A d.108.1.1 61515 1id1A 153 8.51e+00 1id1A c.2.1.9 62286 1fgp 70 8.84e+00 1g3p b.37.1.1 24795 1ne2A 200 9.35e+00 c.66.1.32 85586 1innA 166 9.56e+00 1j98A d.185.1.2 62608 1vjeA 166 9.56e+00 d.185.1.2 100807 1exqA 154 9.83e+00 1b9dA c.55.3.2 33646 1lssA 140 1.07e+01 c.2.1.9 74246 1vk8A 106 1.10e+01 d.58.48.1 108636 1zbfA 142 1.11e+01 1ng4A 390 1.16e+01 c.3.1.2,d.16.1.3 85666,85667 1tt7A 330 1.22e+01 1lxdA 100 1.23e+01 1lfdA d.15.1.5 37624 1ryiA 382 1.23e+01 1vhsA 175 1.28e+01 d.108.1.1 100698 1cliA 345 1.32e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1i21A 159 1.33e+01 1i21A d.108.1.1 61549 1v9sA 208 1.37e+01 1j24A 143 1.37e+01 c.52.1.20 84008 1xiyA 182 1.38e+01 2bleA 367 1.45e+01 1pz7A 204 1.48e+01 b.29.1.4 95405 1mfa 247 1.50e+01 1mfa b.1.1.1,b.1.1.1 19888,19889 1i7qB 193 1.51e+01 1qdlB c.23.16.1 61902 2avnA 260 1.59e+01 1pvgA 418 1.67e+01 d.14.1.3,d.122.1.2 95161,95162 1lx7A 253 1.67e+01 c.56.2.1 74329 1onrA 316 1.69e+01 1onrA c.1.10.1 29169 1ihcA 188 1.73e+01 1di6A c.57.1.1 62379 1jljA 189 1.75e+01 c.57.1.1 63169 1itg 166 1.77e+01 1b9dA c.55.3.2 33661 2rgf 97 1.79e+01 1lfdA d.15.1.5 37627 1k3fA 253 1.84e+01 c.56.2.1 68105 1lnqA 336 1.85e+01 c.2.1.9,f.14.1.1 74049,74050 1lw7A 365 1.87e+01 c.26.1.3,c.37.1.1 74295,74296 1ml8A 134 1.88e+01 d.227.1.2 85013 1z5oA 242 1.90e+01 1o89A 345 1.95e+01 b.35.1.2,c.2.1.1 92644,92645 2bsyA 278 1.95e+01 1ecpA 238 1.99e+01 1ecpA c.56.2.1 33775 1z5nA 242 2.02e+01 1rxyA 253 2.03e+01 c.56.2.1 98065 1a0k 131 2.04e+01 3nul d.110.1.1 40892 2fg9A 178 2.08e+01 2d4pA 141 2.15e+01 2fz4A 237 2.17e+01 3nul 130 2.25e+01 3nul d.110.1.1 40891 1okjA 251 2.26e+01 c.55.1.9,c.55.1.9 103998,103999 1kyhA 276 2.26e+01 c.72.1.4 73222 1q1gA 276 2.28e+01 c.56.2.1 95574 1y1uA 585 2.32e+01 1x9zA 188 2.43e+01 1i2oA 316 2.44e+01 1onrA c.1.10.1 61574 2a1iA 146 2.44e+01 1wrvA 308 2.47e+01 2bmfA 451 2.51e+01 1cqa 133 2.52e+01 3nul d.110.1.1 40890 1ki9A 192 2.57e+01 c.37.1.1 84404 1hnuA 280 2.59e+01 1hnoA c.14.1.3 61096 2bsxA 253 2.67e+01 1jysA 242 2.69e+01 c.56.2.1 77216 1yvkA 163 2.77e+01 1vhmA 195 2.78e+01 d.110.2.1 100691 1vc1A 110 2.79e+01 c.13.2.1 108493 2c3zA 222 2.83e+01 1wduA 245 2.90e+01 d.151.1.1 109286 1hnoA 280 2.91e+01 1hnoA c.14.1.3 61095 1q67A 231 2.92e+01 b.55.1.7 95960 1ypfA 336 2.95e+01 1ebuA 358 2.99e+01 1ebuA c.2.1.3,d.81.1.2 30035,39950 1v37A 177 3.01e+01 1pkp 150 3.04e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1mgtA 174 3.08e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1sviA 195 3.13e+01 c.37.1.8 106048 2c6qA 351 3.19e+01 1xo7A 166 3.25e+01 2cx5A 158 3.27e+01 1obs 267 3.27e+01 1mrj d.165.1.1 42213 1i1qB 192 3.30e+01 1qdlB c.23.16.1 61544 2d1yA 256 3.32e+01 2bl1A 172 3.33e+01 1a41 234 3.36e+01 1a41 d.163.1.2 42174 1h2bA 359 3.38e+01 b.35.1.2,c.2.1.1 90543,90544 1juk 248 3.40e+01 1a53 c.1.2.4 28567 1wyzA 242 3.40e+01 1b3jA 274 3.45e+01 1agdA b.1.1.2,d.19.1.1 20855,38319 1r7lA 110 3.47e+01 d.277.1.1 104837 1tz9A 367 3.51e+01 c.1.15.6 107466 1yvoA 172 3.52e+01 1g4uS 383 3.59e+01 1g4uS a.24.11.1,c.45.1.2 16643,32691 1yqhA 109 3.62e+01 1othA 321 3.70e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1nksA 194 3.71e+01 1nksA c.37.1.1 31886 1pjhA 280 3.72e+01 c.14.1.3 94761 1ktgA 138 3.76e+01 d.113.1.1 72972 1c4oA 664 3.78e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1khyA 148 3.80e+01 a.174.1.1 77410 1khtA 192 3.91e+01 c.37.1.1 84401 1qo7A 394 3.92e+01 1qo7A c.69.1.11 34697 1x8gA 227 3.97e+01 1x8hA 228 4.01e+01 1ebfA 358 4.04e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1uq5A 263 4.05e+01 d.165.1.1 99778 1gym 298 4.08e+01 2plc c.1.18.2 29606 1jkeA 145 4.14e+01 c.110.1.1 66791 2ptd 298 4.18e+01 2plc c.1.18.2 29605 1lsuA 147 4.21e+01 c.2.1.9 74250 2fp8A 322 4.29e+01 1bqg 451 4.32e+01 1bqg c.1.11.2,d.54.1.1 29217,38861 1l6wA 220 4.32e+01 c.1.10.1 73632 2aefA 234 4.37e+01 2arzA 247 4.41e+01 1yt3A 375 4.43e+01 1wy7A 207 4.46e+01 1kt9A 138 4.52e+01 d.113.1.1 72959 1hi9A 274 4.63e+01 1hi9A c.99.1.1 61063 1kllA 130 4.64e+01 d.32.1.2 72720 1y7pA 223 4.65e+01 1l6rA 227 4.74e+01 c.108.1.10 77768 1efuB 282 4.75e+01 1efuB d.43.1.1,a.5.2.2,d.43.1.1 38677,58975,58976 1dd6A 228 4.76e+01 1a7tA d.157.1.1 42054 1e5dA 402 4.76e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1ujmA 342 4.78e+01 2a6tA 271 4.84e+01 1vmaA 306 4.84e+01 a.24.13.1,c.37.1.10 108887,108888 1sbp 310 4.85e+01 1sbp c.94.1.1 35760 1y1pA 342 4.87e+01 1gzqA 300 4.89e+01 b.1.1.2,d.19.1.1 70818,70819 1bu8A 452 4.90e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1fwkA 296 4.90e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1ovqA 138 4.98e+01 c.55.3.8 93607 2f46A 156 5.02e+01 1igs 248 5.05e+01 1a53 c.1.2.4 28565 1k9sA 237 5.17e+01 c.56.2.1 68359 1i7fA 292 5.20e+01 1i7fA d.193.1.1 61888 1eb0A 147 5.21e+01 b.107.1.1,d.58.38.1 64890,64891 1k8rB 110 5.26e+01 d.15.1.5 72180 1cuj 214 5.27e+01 1cex c.69.1.30 31294 1tp9A 162 5.33e+01 2es7A 142 5.51e+01 1r5jA 337 5.51e+01 c.77.1.5 97097 1zvdA 380 5.60e+01 1rd5A 262 5.66e+01 1ufkA 254 5.67e+01 c.66.1.39 99340 1yzvA 204 5.69e+01 1n6zA 105 5.71e+01 d.263.1.1 85369 1ift 263 5.72e+01 1mrj d.165.1.1 42211 6tmnE 316 5.79e+01 1hyt d.92.1.2 59071 1j98A 157 5.81e+01 1j98A d.185.1.2 62755 1w6vA 141 5.83e+01 1vp8A 201 5.85e+01 1pk9A 237 5.88e+01 c.56.2.1 94823 1jvbA 347 5.91e+01 b.35.1.2,c.2.1.1 77181,77182 1v77A 212 5.94e+01 c.6.3.2 108402 1iqoA 88 6.04e+01 d.214.1.1 71277 1ukfA 188 6.05e+01 d.3.1.10 99488 1tqzA 133 6.05e+01 1on0A 158 6.07e+01 d.108.1.1 87095 1ugpB 226 6.14e+01 b.34.4.4 107832 2a2nA 176 6.14e+01 1vhzA 198 6.15e+01 d.113.1.1 100718 1q0sA 259 6.22e+01 c.66.1.28 95509 1vjnA 220 6.31e+01 d.157.1.4 100825 2f6eA 127 6.31e+01 1ireB 228 6.33e+01 b.34.4.4 76770 1hw7A 255 6.44e+01 1i7fA d.193.1.1 61297 1eexB 224 6.45e+01 1dioB c.51.3.1 33213 1ffa 214 6.45e+01 1cex c.69.1.30 31289 1y5eA 169 6.47e+01 1jj7A 260 6.49e+01 c.37.1.12 63114 1cex 214 6.53e+01 1cex c.69.1.30 31285 1a53 247 6.59e+01 1a53 c.1.2.4 28564 1nv8A 284 6.60e+01 c.66.1.30 86224 1j6wA 175 6.60e+01 1j98A d.185.1.2 62663 1khiA 176 6.63e+01 b.34.5.2,b.40.4.5 77408,77409 1cus 200 6.64e+01 1cex c.69.1.30 31287 1w0mA 226 6.65e+01 c.1.1.1 109027 2bh1X 96 6.65e+01 1agy 200 6.69e+01 1cex c.69.1.30 31286 1rf6A 427 6.70e+01 d.68.2.2 97366 1skyE 473 6.83e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18314,26479,32359 1iloA 77 6.84e+01 c.47.1.1 66205 1bif 469 6.88e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1hsbB 99 6.99e+01 1agdB b.1.1.2 20737 1kdj 102 7.06e+01 1plc b.6.1.1 22864 1u94A 356 7.07e+01 c.37.1.11,d.48.1.1 107743,107744 1agdB 99 7.11e+01 1agdB b.1.1.2 20742 2reb 352 7.15e+01 2reb c.37.1.11,d.48.1.1 32282,38767 1fyhA 258 7.15e+01 1d9cA a.26.1.3,a.26.1.3 16907,16908 2bifA 469 7.15e+01 1bif c.37.1.7,c.60.1.4 31963,34009 1yqbA 100 7.20e+01 1g3p 217 7.21e+01 1g3p b.37.1.1,b.37.1.1 24788,24789 2itg 163 7.23e+01 1b9dA c.55.3.2 33669 1q8iA 783 7.33e+01 c.55.3.5,e.8.1.1 96208,96209 1ng1 294 7.37e+01 1ng1 a.24.13.1,c.37.1.10 16961,32272 1a6vH 120 7.45e+01 1mfa b.1.1.1 20257 1oaqH 121 7.45e+01 b.1.1.1 92707 3bifA 468 7.48e+01 1bif c.37.1.7,c.60.1.4 31962,34008 1z5rA 306 7.49e+01 1p5tA 127 7.56e+01 b.55.1.2 94148 1yx0A 159 7.66e+01 1s57A 153 7.68e+01 2hvm 273 7.71e+01 1cnv c.1.8.5 28985 1jf8A 131 7.73e+01 c.44.1.1 66621 1pqsA 77 7.78e+01 d.15.2.2 88277 1iy8A 267 7.80e+01 c.2.1.2 83774 1xfjA 261 7.81e+01 d.194.1.2 109585 1vkbA 161 7.91e+01 d.269.1.1 108643 1914 232 7.95e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1dioB 224 7.97e+01 1dioB c.51.3.1 33219 1lopA 164 7.98e+01 2cpl b.62.1.1 27510 2vil 126 8.02e+01 2vil d.109.1.1 40830 1zu4A 320 8.05e+01 1hmvA 560 8.07e+01 1rthA c.55.3.1,e.8.1.2 33587,43046 1i4fB 100 8.11e+01 1agdB b.1.1.2 61689 1k5nB 100 8.11e+01 b.1.1.2 77268 1b76A 442 8.13e+01 1atiA c.51.1.1,d.104.1.1 33198,40747 2ng1 293 8.27e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1sjdA 368 8.33e+01 c.1.11.2,d.54.1.1 105632,105633 1ls1A 295 8.43e+01 a.24.13.1,c.37.1.10 78170,78171 1mwpA 96 8.45e+01 1mwpA d.170.2.1 42453 1ffh 294 8.50e+01 1ng1 a.24.13.1,c.37.1.10 16960,32271 2bhuA 602 8.61e+01 1y80A 210 8.69e+01 1a3lH 218 8.69e+01 1mfa b.1.1.1,b.1.1.2 20241,21253 1jpnA 296 8.76e+01 a.24.13.1,c.37.1.10 67039,67040 1v6tA 255 8.76e+01 2gd9A 189 8.78e+01 1atiA 505 8.80e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1vmeA 410 8.81e+01 c.23.5.1,d.157.1.3 108893,108894 1xq6A 253 8.84e+01 1lfdA 87 8.86e+01 1lfdA d.15.1.5 37622 1vjhA 122 8.90e+01 d.129.3.1 100811 1gqyA 475 8.92e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1yksA 440 8.96e+01