# 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 1vqoZ 83 2.34e-01 1ur6B 52 2.39e-01 g.44.1.1 99812 1odhA 174 2.57e-01 d.239.1.1 86850 1kmtA 141 2.64e-01 b.1.18.8 77442 1vk6A 269 4.34e-01 d.113.1.4,d.113.1.4 100851,100852 1jm1A 204 4.42e-01 b.33.1.1 71745 2cklB 165 5.04e-01 1vd4A 62 5.79e-01 2ct7A 86 6.83e-01 1rlyA 60 8.55e-01 g.41.3.1 104988 2a8jA 420 8.78e-01 1u79A 129 9.65e-01 d.26.1.1 107714 1ww8A 439 1.11e+00 1vckA 115 1.13e+00 2fqpA 97 1.30e+00 1ptq 50 1.32e+00 1ptq g.49.1.1 45349 2aq6A 147 1.36e+00 1wd2A 60 1.43e+00 g.44.1.1 109232 1rutX 188 1.59e+00 1ee8A 266 1.75e+00 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1dgfA 497 1.84e+00 1cf9A e.5.1.1 42782 1d0qA 103 1.91e+00 1d0qA g.41.3.2 45208 1zd9A 188 2.02e+00 1qxfA 66 2.82e+00 g.41.8.4 96527 1rfs 139 2.84e+00 1rfs b.33.1.1 24434 1l1oC 181 3.04e+00 b.40.4.3 73480 2c1xA 456 3.31e+00 1r6lA 239 3.63e+00 d.14.1.4,d.101.1.1 97153,97154 2a1rA 430 3.65e+00 1ww9A 392 3.65e+00 1q35A 320 3.82e+00 c.94.1.1 95661 1w9aA 147 3.84e+00 1brfA 53 3.88e+00 1rb9 g.41.5.1 45236 1rmd 116 3.97e+00 1rmd g.37.1.1,g.44.1.1 45025,45322 1yk4A 52 4.37e+00 1mr1C 99 4.42e+00 d.217.1.2 79420 1sur 215 4.43e+00 1sur c.26.2.2 31620 1tr9A 341 4.52e+00 1rb9 53 4.57e+00 1rb9 g.41.5.1 45214 1nykA 165 4.64e+00 b.33.1.1 86408 1x75A 132 4.89e+00 1pfvA 551 5.13e+00 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1m22A 503 5.17e+00 c.117.1.1 78464 1k8kA 418 5.43e+00 c.55.1.1,c.55.1.1 68305,68306 1vphA 149 5.52e+00 1w2lA 99 5.88e+00 1vq0A 302 6.04e+00 1inp 400 6.46e+00 1inp e.7.1.1 42972 2cszA 76 6.48e+00 1upiA 225 7.00e+00 b.82.1.1 99757 1rdg 53 7.13e+00 1rb9 g.41.5.1 45221 2an1A 292 7.18e+00 1yovA 537 7.69e+00 2cx1A 187 8.20e+00 1l8dA 112 8.27e+00 h.4.12.1 73687 1ypvA 313 8.32e+00 1wfeA 86 8.40e+00 2a20A 62 8.48e+00 1u5kA 244 8.62e+00 2cklA 108 8.80e+00 1wraA 308 8.82e+00 1iro 54 8.86e+00 1rb9 g.41.5.1 45223 1kbeA 49 9.01e+00 g.49.1.1 68380 1zkkA 167 9.02e+00 2sak 121 9.24e+00 2sak d.15.5.1 37711 1qtwA 285 9.49e+00 1qumA c.1.15.1 29392 1wr8A 231 9.56e+00 2hrvA 142 9.83e+00 2hrvA b.47.1.4 26429 1l1dA 152 9.88e+00 b.88.1.3 73452 1z6uA 150 9.90e+00 1pu6A 218 1.02e+01 a.96.1.5 95123 1a7i 81 1.03e+01 1b8tA g.39.1.3,g.39.1.3 45143,45144 1wjpA 107 1.03e+01 7taa 478 1.04e+01 7taa b.71.1.1,c.1.8.1 27778,28765 2etxA 209 1.05e+01 4eugA 229 1.08e+01 3eugA c.18.1.1 31019 2bx9A 53 1.09e+01 1lv3A 68 1.09e+01 g.39.1.9 78231 6rxn 46 1.10e+01 1rb9 g.41.5.1 45222 1mea 28 1.13e+01 g.41.1.1 45176 1wrvA 308 1.13e+01 1fl2A 310 1.16e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 2csvA 72 1.20e+01 2bibA 547 1.21e+01 1xtqA 177 1.21e+01 1vetA 124 1.25e+01 d.110.7.1 108553 1ihoA 283 1.29e+01 1ihoA c.26.1.4 62390 1qz5A 375 1.33e+01 c.55.1.1,c.55.1.1 96614,96615 1twfL 70 1.35e+01 1dxgA 36 1.40e+01 1dxgA g.41.5.2 45247 1nv8A 284 1.42e+01 c.66.1.30 86224 3daaA 277 1.45e+01 1daaA e.17.1.1 43272 1twfI 122 1.46e+01 1k7cA 233 1.46e+01 c.23.10.4 68267 1r61A 207 1.48e+01 c.8.8.1 97138 1iyeA 309 1.51e+01 e.17.1.1 83786 2g8yA 385 1.52e+01 1weoA 93 1.53e+01 1woyA 500 1.58e+01 2fiyA 309 1.58e+01 1yopA 83 1.67e+01 1zin 217 1.70e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1r5mA 425 1.74e+01 1sefA 274 1.90e+01 b.82.1.11 105452 1g38A 393 1.91e+01 2admA c.66.1.27 60235 1tqnA 486 1.91e+01 a.104.1.1 107238 1o12A 376 1.92e+01 b.92.1.5,c.1.9.10 80758,80759 1wxiA 275 1.94e+01 1o7eA 276 1.94e+01 e.3.1.1 92622 1lp9E 194 1.95e+01 b.1.1.1,b.1.1.2 91086,91087 1ifqA 138 1.97e+01 1ifqA d.110.4.1 62350 1dxsA 80 2.00e+01 1cokA a.60.1.2 17944 2bt6A 108 2.02e+01 2erxA 172 2.08e+01 1jmsA 381 2.08e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1xd3A 230 2.09e+01 1t64A 377 2.16e+01 c.42.1.2 106543 1ldjB 90 2.19e+01 g.44.1.1 73850 1xkwA 665 2.20e+01 1lvoA 302 2.22e+01 b.47.1.4 74284 1qqqA 264 2.28e+01 1bkpA d.117.1.1 40931 1afp 51 2.28e+01 1afp g.26.1.1 44947 1k7hA 476 2.35e+01 c.76.1.1 72101 1o9iA 266 2.39e+01 a.25.1.3 92671 1vfyA 73 2.42e+01 1vfyA g.50.1.1 45357 1gpr 162 2.45e+01 1gpr b.84.3.1 28267 1lm5A 214 2.45e+01 d.211.2.1 74029 1m1qA 91 2.54e+01 a.138.1.3 74419 2fqaA 27 2.62e+01 1oi7A 288 2.65e+01 c.2.1.8,c.23.4.1 87049,87050 1j3mA 129 2.72e+01 d.129.7.1 103836 1nigA 152 2.75e+01 a.25.2.1 85740 1u69A 163 2.75e+01 d.32.1.7 107699 1e0eA 55 2.76e+01 1wjcA a.4.10.1 59147 1h3nA 878 2.82e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1q33A 292 2.83e+01 d.113.1.1 95657 1g0cA 364 2.86e+01 7a3hA c.1.8.3 60165 1q68B 29 2.87e+01 j.108.1.1 95963 1puc 105 2.88e+01 1puc d.97.1.1 40675 1z94A 147 2.89e+01 1a78A 134 2.90e+01 1c1lA b.29.1.3 24212 1hq0A 295 2.94e+01 1hzgA d.194.1.1 61122 1l8bA 190 2.94e+01 d.86.1.1 73683 1ywmA 200 3.05e+01 1ew4A 106 3.06e+01 1ew4A d.82.2.1 40023 1zu1A 127 3.15e+01 2sicI 107 3.21e+01 3ssi d.84.1.1 40031 1jbwA 428 3.28e+01 c.59.1.2,c.72.2.2 62860,62861 1z52A 470 3.29e+01 1yp8A 33 3.32e+01 1zud1 251 3.33e+01 1dekA 241 3.36e+01 1dekA c.37.1.1 31842 1am2 199 3.37e+01 1am2 b.86.1.2 28381 1t0fA 276 3.37e+01 1wjvA 79 3.39e+01 1uc8A 280 3.43e+01 c.30.1.6,d.142.1.7 99165,99166 1vd6A 224 3.46e+01 1zx5A 300 3.46e+01 1oi6A 205 3.49e+01 b.82.1.1 103940 2b9dA 52 3.51e+01 1z02A 446 3.57e+01 1ti6B 274 3.61e+01 b.3.5.1,d.58.1.5 106976,106977 1oqjA 97 3.69e+01 d.217.1.1 93417 1y9uA 323 3.73e+01 1yuiA 54 3.73e+01 1yuiA g.37.1.1 45073 1d4oA 184 3.78e+01 1d4oA c.31.1.4 31748 1njqA 39 3.80e+01 g.37.1.3 85822 1zxuA 217 3.80e+01 1n6zA 105 3.83e+01 d.263.1.1 85369 2gatA 66 3.86e+01 1gatA g.39.1.1 45102 1kdj 102 3.86e+01 1plc b.6.1.1 22864 1ovxA 67 3.98e+01 g.39.1.11 93622 1zsqA 528 4.02e+01 1vhqA 232 4.13e+01 c.23.16.2 100696 1neeA 138 4.14e+01 d.241.1.1,g.59.1.1 91841,91842 1lw7A 365 4.16e+01 c.26.1.3,c.37.1.1 74295,74296 1zyoA 191 4.18e+01 1x31D 99 4.19e+01 1mswD 883 4.21e+01 e.8.1.3 79427 1f0kA 364 4.25e+01 1f0kA c.87.1.2 35465 1p5tA 127 4.26e+01 b.55.1.2 94148 1m2tB 263 4.27e+01 b.42.2.1,b.42.2.1 84762,84763 1oxdA 227 4.35e+01 d.22.1.1 93687 2apoB 60 4.40e+01 1uslA 170 4.41e+01 c.121.1.1 99871 1clvI 32 4.58e+01 1qfdA g.3.2.1 44075 1u24A 337 4.58e+01 1wimA 94 4.63e+01 1ep0A 185 4.71e+01 1dzrA b.82.1.1 28080 1jovA 270 4.75e+01 b.30.5.7 84192 1v8fA 276 4.83e+01 c.26.1.4 100503 1fvkA 189 4.83e+01 1fvkA c.47.1.13 90351 1kkeA 210 4.89e+01 b.21.1.2,b.83.1.2 68669,68670 1guiA 155 4.89e+01 b.18.1.14 76351 1m5wA 243 4.97e+01 c.1.24.1 84836 1v0jA 399 5.00e+01 1iugA 352 5.03e+01 c.67.1.3 90699 1t0bA 252 5.08e+01 c.23.16.6 106199 1yc5A 246 5.10e+01 1lj5A 379 5.13e+01 e.1.1.1 73928 2ahuA 531 5.15e+01 1s5aA 150 5.16e+01 d.17.4.10 98525 2g09A 297 5.24e+01 1wv8A 73 5.25e+01 1zzpA 130 5.27e+01 1eyeA 280 5.28e+01 1aj2 c.1.21.1 29672 1gp6A 356 5.42e+01 b.82.2.1 65441 2g8oA 264 5.42e+01 1k0mA 241 5.49e+01 a.45.1.1,c.47.1.5 67949,67950 1g5aA 628 5.57e+01 b.71.1.1,c.1.8.1 65152,65153 1g8aA 227 5.63e+01 c.66.1.3 90506 1jx4A 352 5.71e+01 d.240.1.1,e.8.1.7 90378,90379 2au3A 407 5.73e+01 1hyeA 313 5.76e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1cxqA 162 5.82e+01 1cxqA c.55.3.2 33621 2f8aA 208 5.86e+01 1v54F 98 5.88e+01 g.41.5.3 100327 1dl0A 37 5.88e+01 1dl0A g.3.6.2 44112 2avuE 192 5.91e+01 2airB 153 5.92e+01 830cA 168 5.93e+01 1ck7A d.92.1.11 40400 1erd 40 5.97e+01 1erd a.10.1.1 16362 1e8rA 50 6.02e+01 1e8rA g.29.1.1 44960 1qjtA 99 6.05e+01 1eh2 a.39.1.6 17335 2gf6A 135 6.14e+01 1ji1A 637 6.21e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1z60A 59 6.32e+01 1yt5A 258 6.33e+01 2fg1A 158 6.36e+01 1iqzA 81 6.40e+01 d.58.1.4 66281 1llmC 88 6.44e+01 g.37.1.1,g.37.1.1 91059,91060 1eajA 126 6.48e+01 1f5wA b.1.1.1 59401 1r8oB 71 6.49e+01 1nox 205 6.81e+01 1nox d.90.1.1 40242 1fp0A 88 6.81e+01 1fp0A g.50.1.2 45361 1vqoC 246 6.83e+01 1xviA 275 6.89e+01 2fn4A 181 6.89e+01 2g8mA 264 6.95e+01 1h2wA 710 7.09e+01 b.69.7.1,c.69.1.4 76596,76597 1l6wA 220 7.11e+01 c.1.10.1 73632 2czcA 334 7.16e+01 1c7qA 445 7.20e+01 2pgi c.80.1.2 35307 1ht6A 405 7.34e+01 b.71.1.1,c.1.8.1 83629,83630 2blnA 305 7.38e+01 2ccvA 101 7.42e+01 1g2rA 100 7.46e+01 1g2rA d.192.1.1 60231 1m2oA 768 7.52e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1cv8 174 7.55e+01 1cv8 d.3.1.1 37089 2pspA 106 7.56e+01 2pspA g.16.1.1,g.16.1.1 44730,44731 2booA 247 7.56e+01 1uh4A 637 7.60e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1vm9A 111 7.75e+01 b.33.1.1 108886 1n12A 138 7.84e+01 b.2.3.2 79779 1ty9A 222 7.90e+01 2fxuA 375 7.91e+01 1ryqA 69 7.94e+01 g.41.9.3 105126 1vq2A 193 7.94e+01 2g9iA 249 7.94e+01 1xqoA 256 7.96e+01 1uq5A 263 8.00e+01 d.165.1.1 99778 1w9yA 319 8.01e+01 2c4nA 250 8.14e+01 1vqoA 240 8.15e+01 1dvpA 220 8.27e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 2ct0A 74 8.28e+01 1e19A 314 8.30e+01 1b7bA c.73.1.1 34967 1v7lA 163 8.44e+01 1qd1A 325 8.52e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1pk6A 133 8.54e+01 b.22.1.1 94801 1qxoA 388 8.59e+01 d.258.1.1 96539 1i76A 163 8.63e+01 1hfc d.92.1.11 61877 1rie 129 8.66e+01 1rie b.33.1.1 24427 1uv4A 293 8.70e+01 1jnrA 643 8.74e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1gqpA 221 8.79e+01 b.18.1.9 70372 1nkoA 132 8.92e+01 b.1.1.1 85829 2ctdA 96 8.98e+01 1v6pA 62 8.99e+01