# 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 2ct7A 86 3.54e-02 1vk6A 269 8.97e-02 d.113.1.4,d.113.1.4 100851,100852 1odhA 174 1.33e-01 d.239.1.1 86850 1vqoZ 83 2.00e-01 1vckA 115 2.10e-01 1vd4A 62 2.14e-01 1kmtA 141 2.78e-01 b.1.18.8 77442 2aq6A 147 2.92e-01 1ur6B 52 4.04e-01 g.44.1.1 99812 1w9aA 147 4.23e-01 1d0qA 103 4.52e-01 1d0qA g.41.3.2 45208 1wrvA 308 4.67e-01 1ww8A 439 4.73e-01 2cklB 165 4.75e-01 1ee8A 266 4.84e-01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1ifqA 138 5.50e-01 1ifqA d.110.4.1 62350 1jm1A 204 7.29e-01 b.33.1.1 71745 1x75A 132 9.34e-01 1qqqA 264 1.01e+00 1bkpA d.117.1.1 40931 1ypvA 313 1.08e+00 1tr9A 341 1.08e+00 2csvA 72 1.11e+00 1upiA 225 1.15e+00 b.82.1.1 99757 1g38A 393 1.33e+00 2admA c.66.1.27 60235 1rutX 188 1.34e+00 1u79A 129 1.49e+00 d.26.1.1 107714 1pfvA 551 1.57e+00 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1iyeA 309 1.80e+00 e.17.1.1 83786 1w2lA 99 1.80e+00 3daaA 277 1.80e+00 1daaA e.17.1.1 43272 1k7cA 233 1.86e+00 c.23.10.4 68267 1ji1A 637 1.89e+00 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1l8dA 112 1.97e+00 h.4.12.1 73687 1ptq 50 2.00e+00 1ptq g.49.1.1 45349 1rfs 139 2.04e+00 1rfs b.33.1.1 24434 1l1oC 181 2.08e+00 b.40.4.3 73480 1r6lA 239 2.18e+00 d.14.1.4,d.101.1.1 97153,97154 1afp 51 2.28e+00 1afp g.26.1.1 44947 1k8kA 418 2.30e+00 c.55.1.1,c.55.1.1 68305,68306 2g8oA 264 2.31e+00 2g8mA 264 2.31e+00 2fxuA 375 2.33e+00 1rmd 116 2.39e+00 1rmd g.37.1.1,g.44.1.1 45025,45322 1vekA 84 2.42e+00 1qz5A 375 2.43e+00 c.55.1.1,c.55.1.1 96614,96615 2a1rA 430 2.67e+00 1m2tB 263 2.72e+00 b.42.2.1,b.42.2.1 84762,84763 2aq4A 434 2.75e+00 1zd9A 188 2.78e+00 2a8jA 420 2.80e+00 1lm5A 214 2.88e+00 d.211.2.1 74029 1mswD 883 2.93e+00 e.8.1.3 79427 1u8bA 133 2.93e+00 1uh4A 637 2.94e+00 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1wfeA 86 2.96e+00 2cklA 108 3.03e+00 1jx4A 352 3.06e+00 d.240.1.1,e.8.1.7 90378,90379 1rb9 53 3.12e+00 1rb9 g.41.5.1 45214 1r5mA 425 3.29e+00 1mr1C 99 3.41e+00 d.217.1.2 79420 1yk4A 52 3.58e+00 2g8yA 385 3.62e+00 1o12A 376 3.75e+00 b.92.1.5,c.1.9.10 80758,80759 1inp 400 3.82e+00 1inp e.7.1.1 42972 2cszA 76 4.10e+00 1lvoA 302 4.23e+00 b.47.1.4 74284 1brfA 53 4.45e+00 1rb9 g.41.5.1 45236 1fp0A 88 4.61e+00 1fp0A g.50.1.2 45361 830cA 168 4.75e+00 1ck7A d.92.1.11 40400 1vphA 149 5.05e+00 2fqpA 97 5.11e+00 1hyeA 313 5.13e+00 2cmd c.2.1.5,d.162.1.1 61400,61401 1nv8A 284 5.42e+00 c.66.1.30 86224 2a20A 62 5.49e+00 1m22A 503 5.78e+00 c.117.1.1 78464 1lv3A 68 5.86e+00 g.39.1.9 78231 1x31D 99 5.88e+00 1rdg 53 5.98e+00 1rb9 g.41.5.1 45221 1z60A 59 6.06e+00 1weoA 93 6.47e+00 1mea 28 6.77e+00 g.41.1.1 45176 1z6uA 150 6.86e+00 2bx9A 53 7.02e+00 7taa 478 7.24e+00 7taa b.71.1.1,c.1.8.1 27778,28765 1wflA 74 7.70e+00 1q35A 320 7.80e+00 c.94.1.1 95661 1z90A 469 7.83e+00 1o7eA 276 7.86e+00 e.3.1.1 92622 1g6aA 271 8.19e+00 1btl e.3.1.1 42704 1qtwA 285 8.32e+00 1qumA c.1.15.1 29392 1ew4A 106 8.33e+00 1ew4A d.82.2.1 40023 1rlyA 60 8.45e+00 g.41.3.1 104988 1u5kA 244 8.47e+00 1sefA 274 8.97e+00 b.82.1.11 105452 1iro 54 9.56e+00 1rb9 g.41.5.1 45223 1twfL 70 9.79e+00 2fclA 169 9.84e+00 1zkkA 167 9.93e+00 1s1dA 331 1.02e+01 b.67.3.1 98344 1dl0A 37 1.06e+01 1dl0A g.3.6.2 44112 6rxn 46 1.07e+01 1rb9 g.41.5.1 45222 1ihoA 283 1.13e+01 1ihoA c.26.1.4 62390 1hw5A 210 1.13e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 2fiyA 309 1.14e+01 1nigA 152 1.16e+01 a.25.2.1 85740 2cx1A 187 1.19e+01 1cojA 212 1.19e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1q68B 29 1.26e+01 j.108.1.1 95963 1wxiA 275 1.26e+01 2etxA 209 1.28e+01 1nykA 165 1.33e+01 b.33.1.1 86408 1yovA 537 1.34e+01 1ywmA 200 1.39e+01 2cohA 202 1.41e+01 2gatA 66 1.43e+01 1gatA g.39.1.1 45102 1a78A 134 1.43e+01 1c1lA b.29.1.3 24212 1sur 215 1.45e+01 1sur c.26.2.2 31620 1wd2A 60 1.45e+01 g.44.1.1 109232 1twfI 122 1.45e+01 1pk6C 129 1.46e+01 b.22.1.1 94803 1h3nA 878 1.51e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1k7hA 476 1.52e+01 c.76.1.1 72101 1qd1A 325 1.55e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1o5uA 101 1.56e+01 b.82.1.8 92518 1fl2A 310 1.57e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1dxgA 36 1.58e+01 1dxgA g.41.5.2 45247 1ww9A 392 1.61e+01 1ldjB 90 1.62e+01 g.44.1.1 73850 1xtqA 177 1.63e+01 1qxfA 66 1.70e+01 g.41.8.4 96527 1vq0A 302 1.73e+01 1vrmA 325 1.77e+01 2g45A 129 1.78e+01 2bwfA 77 1.80e+01 1i76A 163 1.80e+01 1hfc d.92.1.11 61877 1guiA 155 1.82e+01 b.18.1.14 76351 2apoB 60 1.84e+01 2c1xA 456 1.87e+01 1m07A 111 1.88e+01 d.5.1.1 78328 1hl9A 449 1.89e+01 b.71.1.3,c.1.8.11 90650,90651 1cqmA 101 1.89e+01 1ris d.58.14.1 39321 1t0bA 252 1.92e+01 c.23.16.6 106199 1wjpA 107 1.95e+01 2an1A 292 2.01e+01 1e7lA 157 2.02e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1e19A 314 2.03e+01 1b7bA c.73.1.1 34967 1woyA 500 2.03e+01 1t0fA 276 2.07e+01 2ct0A 74 2.07e+01 1yhfA 115 2.09e+01 2bhvA 246 2.09e+01 1lj5A 379 2.10e+01 e.1.1.1 73928 1g8kB 133 2.10e+01 1g8jB b.33.1.1 24435 1zu1A 127 2.11e+01 1fjgS 93 2.14e+01 1qkfA d.28.1.1 38451 2eifA 136 2.15e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1vm9A 111 2.16e+01 b.33.1.1 108886 2c31A 568 2.16e+01 2sicI 107 2.17e+01 3ssi d.84.1.1 40031 1xd3A 230 2.18e+01 2awpA 198 2.23e+01 2bwkA 121 2.24e+01 2as9A 210 2.33e+01 1pszA 303 2.34e+01 1toaA c.92.2.2 35600 1k0mA 241 2.35e+01 a.45.1.1,c.47.1.5 67949,67950 1i6pA 220 2.36e+01 1ddzA c.53.2.1 61848 1w8sA 263 2.37e+01 1gqpA 221 2.39e+01 b.18.1.9 70372 1oxdA 227 2.45e+01 d.22.1.1 93687 1o9iA 266 2.45e+01 a.25.1.3 92671 2fe5A 94 2.47e+01 1aa6 715 2.47e+01 2napA b.52.2.2,c.81.1.1 26916,35324 1o7sA 127 2.47e+01 b.1.1.1 86644 1kmqA 184 2.50e+01 c.37.1.8 84412 1am2 199 2.51e+01 1am2 b.86.1.2 28381 1m1qA 91 2.56e+01 a.138.1.3 74419 1u24A 337 2.56e+01 1y9uA 323 2.58e+01 1nepA 130 2.71e+01 b.1.18.7 80440 2awkA 228 2.71e+01 1kopA 223 2.76e+01 2cba b.74.1.1 27966 1p32A 209 2.83e+01 1p32A d.25.1.1 38379 2dg5B 190 2.85e+01 1hdlA 55 2.87e+01 g.68.1.2 65808 1utyA 187 2.87e+01 b.147.1.1 108036 1h4rA 314 2.87e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1lw7A 365 2.89e+01 c.26.1.3,c.37.1.1 74295,74296 1ia9A 280 2.97e+01 1ia9A d.144.1.5 62113 1kqfB 294 3.01e+01 d.58.1.5,f.23.22.1 75900,75901 4eugA 229 3.02e+01 3eugA c.18.1.1 31019 1yp8A 33 3.05e+01 1qwtA 255 3.07e+01 b.26.1.3 96501 1vfyA 73 3.07e+01 1vfyA g.50.1.1 45357 1pu6A 218 3.08e+01 a.96.1.5 95123 1erd 40 3.08e+01 1erd a.10.1.1 16362 1k82A 268 3.12e+01 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1rh6A 55 3.13e+01 a.6.1.7 104935 1i40A 175 3.18e+01 b.40.5.1 66024 1xk5A 204 3.21e+01 1wjvA 79 3.22e+01 1a7i 81 3.25e+01 1b8tA g.39.1.3,g.39.1.3 45143,45144 1un3A 123 3.33e+01 d.5.1.1 99646 2fgtA 417 3.33e+01 2bt6A 108 3.38e+01 1xkwA 665 3.38e+01 1v7lA 163 3.43e+01 1vq2A 193 3.45e+01 1m65A 245 3.46e+01 c.6.3.1 84847 1se7A 83 3.47e+01 1dxsA 80 3.50e+01 1cokA a.60.1.2 17944 1r61A 207 3.51e+01 c.8.8.1 97138 1nkoA 132 3.52e+01 b.1.1.1 85829 1td4A 115 3.55e+01 1latA 82 3.61e+01 2nllB g.39.1.2 45122 1i1qA 520 3.62e+01 1qdlA d.161.1.1 61543 1ubkS 267 3.63e+01 e.19.1.1 88423 1yc5A 246 3.64e+01 1htrB 329 3.65e+01 1smrA 1iqzA 81 3.65e+01 d.58.1.4 66281 1lp9E 194 3.67e+01 b.1.1.1,b.1.1.2 91086,91087 1wuiS 267 3.68e+01 2fn4A 181 3.69e+01 1g9pA 45 3.71e+01 g.3.6.2 65171 1eaxA 241 3.72e+01 b.47.1.2 64889 1pk6B 132 3.72e+01 b.22.1.1 94802 1pk6A 133 3.74e+01 b.22.1.1 94801 2au3A 407 3.74e+01 1x4sA 59 3.75e+01 1uv4A 293 3.77e+01 1qjpA 171 3.80e+01 1bxwA f.4.1.1 43742 1wraA 308 3.81e+01 1xebA 150 3.84e+01 1exqA 154 3.86e+01 1b9dA c.55.3.2 33646 1n6zA 105 3.87e+01 d.263.1.1 85369 1wr8A 231 3.90e+01 1zin 217 3.91e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2cs3A 93 3.93e+01 2fqaA 27 3.95e+01 1r2zA 274 3.99e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2erxA 172 4.02e+01 2c43A 323 4.07e+01 2cxkA 95 4.11e+01 1z4rA 168 4.16e+01 1uq5A 263 4.18e+01 d.165.1.1 99778 1dgwA 178 4.23e+01 1dgwA b.82.1.2 28090 1sr8A 298 4.24e+01 e.54.1.1 105959 2sak 121 4.28e+01 2sak d.15.5.1 37711 2a5sA 284 4.32e+01 1fvkA 189 4.37e+01 1fvkA c.47.1.13 90351 1zxuA 217 4.38e+01 1ovxA 67 4.40e+01 g.39.1.11 93622 2ctdA 96 4.51e+01 2g1lA 104 4.58e+01 2bvcA 486 4.62e+01 1zud1 251 4.75e+01 1vl2A 421 4.76e+01 c.26.2.1,d.210.1.1 108708,108709 1l8bA 190 4.77e+01 d.86.1.1 73683 1mldA 314 4.79e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1yuiA 54 4.80e+01 1yuiA g.37.1.1 45073 1jbwA 428 4.82e+01 c.59.1.2,c.72.2.2 62860,62861 1iugA 352 4.83e+01 c.67.1.3 90699 1m2kA 249 4.84e+01 c.31.1.5 84754 1bs0A 384 4.90e+01 1bs0A c.67.1.4 34490 1erjA 393 4.90e+01 1erjA b.69.4.1 27660 1fn9A 365 4.93e+01 1fn9A d.196.1.1 59894 1e8rA 50 4.94e+01 1e8rA g.29.1.1 44960 1rsy 152 4.98e+01 1rsy b.7.1.2 23192 1cr1A 296 5.00e+01 1cr1A c.37.1.11 32286 1dekA 241 5.01e+01 1dekA c.37.1.1 31842 1u00A 227 5.02e+01 1f0kA 364 5.02e+01 1f0kA c.87.1.2 35465 1v54F 98 5.02e+01 g.41.5.3 100327 1o7iA 119 5.02e+01 b.40.4.3 86642 1w6sB 74 5.05e+01 1v6pA 62 5.05e+01 2bibA 547 5.05e+01 1ayoA 130 5.09e+01 1ayoA b.2.4.1 22431 1ti6B 274 5.10e+01 b.3.5.1,d.58.1.5 106976,106977 1xakA 83 5.13e+01 1vd6A 224 5.13e+01 1eyeA 280 5.16e+01 1aj2 c.1.21.1 29672 1rfeA 162 5.18e+01 1gpr 162 5.18e+01 1gpr b.84.3.1 28267 1g8aA 227 5.20e+01 c.66.1.3 90506 2avuE 192 5.22e+01 1wimA 94 5.23e+01 1xmxA 385 5.24e+01 1p4cA 380 5.30e+01 c.1.4.1 94100 1ukkA 142 5.32e+01 d.227.1.1 99491 1c9kA 180 5.35e+01 1c9kB c.37.1.11 32363 1gvzA 237 5.43e+01 b.47.1.2 76360 1qmyA 167 5.43e+01 1qmyA d.3.1.2 37094 1dvpA 220 5.47e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 1i6aA 219 5.50e+01 c.94.1.1 61827 1p9bA 442 5.51e+01 c.37.1.10 94385 2bngA 149 5.51e+01 1qhfA 240 5.52e+01 1qhfA c.60.1.1 33960 1j1nA 492 5.54e+01 c.94.1.1 83978 1sviA 195 5.57e+01 c.37.1.8 106048 1vk9A 151 5.57e+01 c.139.1.1 108640 1dgfA 497 5.61e+01 1cf9A e.5.1.1 42782 2hrvA 142 5.61e+01 2hrvA b.47.1.4 26429 1se0A 116 5.62e+01 g.52.1.1 98814 1jmsA 381 5.69e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 2ctoA 93 5.69e+01 1s9rA 410 5.69e+01 d.126.1.4 98758 1pvmA 184 5.73e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1ywzA 175 5.77e+01 1xhcA 367 5.90e+01 1q33A 292 5.90e+01 d.113.1.1 95657 1z0wA 207 5.98e+01 1kk1A 410 5.99e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2cwsA 237 6.02e+01 2cy5A 140 6.03e+01 1gvjA 146 6.08e+01 a.4.5.21 90525 2f6eA 127 6.09e+01 1vziA 126 6.13e+01 b.1.13.1,g.41.5.2 108967,108968 4sgbI 51 6.15e+01 4sgbI g.69.1.1 44724 1t71A 281 6.16e+01 1g7sA 594 6.18e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1ua4A 455 6.28e+01 c.72.1.3 99128 1cv8 174 6.30e+01 1cv8 d.3.1.1 37089 1ys4A 354 6.31e+01 1m2tA 254 6.31e+01 d.165.1.1 84761 2bmoA 447 6.31e+01 1s5aA 150 6.31e+01 d.17.4.10 98525 2fbwA 621 6.38e+01 1yd0A 96 6.40e+01 1v8fA 276 6.44e+01 c.26.1.4 100503 1njqA 39 6.46e+01 g.37.1.3 85822 1kb0A 677 6.47e+01 a.3.1.6,b.70.1.1 68378,68379 1puc 105 6.51e+01 1puc d.97.1.1 40675 2bhuA 602 6.55e+01 1zxxA 319 6.57e+01 1t6lA 290 6.58e+01 d.131.1.2,d.131.1.2 106574,106575 1e0nA 27 6.60e+01 b.72.1.1 27807 1yfbA 59 6.62e+01 1gpc 218 6.62e+01 1gpc b.40.4.7 25393 2cw8A 537 6.63e+01 1d4oA 184 6.64e+01 1d4oA c.31.1.4 31748 2axcA 264 6.66e+01 2fs3A 282 6.68e+01 1zyoA 191 6.70e+01 1qmgA 524 6.71e+01 1qmgA a.100.1.2,c.2.1.6 18785,30182 1llmC 88 6.74e+01 g.37.1.1,g.37.1.1 91059,91060 1u8zA 168 6.76e+01 1kdj 102 6.76e+01 1plc b.6.1.1 22864 1q7lB 88 6.77e+01 2cxvA 219 6.83e+01 1uwcA 261 6.85e+01 c.69.1.17 100101 2a6sA 84 6.92e+01 1vqoU 66 6.97e+01 1q2yA 140 6.99e+01 d.108.1.1 95655 2b9dA 52 7.04e+01 1rro 108 7.05e+01 1a75A a.39.1.4 17195 1w44A 331 7.09e+01 1rrmA 386 7.18e+01 e.22.1.2 105081 1g0cA 364 7.19e+01 7a3hA c.1.8.3 60165 2cfuA 658 7.19e+01 1cl4A 60 7.28e+01 1cl4A g.40.1.1 45171 1ri6A 343 7.31e+01 b.69.11.1 97503 2a6hC 1119 7.33e+01 1t64A 377 7.35e+01 c.42.1.2 106543 1r85A 379 7.35e+01 c.1.8.3 104839 1rz2A 254 7.43e+01 b.100.1.1 105130 1du9A 28 7.44e+01 g.3.7.2 44148 1t2jA 116 7.49e+01 1pz7A 204 7.50e+01 b.29.1.4 95405 1ym0A 238 7.51e+01 2frnA 278 7.51e+01 1vefA 395 7.53e+01 1u3eM 174 7.53e+01 d.4.1.3,d.285.1.1 107640,107641 1uk8A 282 7.53e+01 c.69.1.10 107907 1xgsA 295 7.65e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1suuA 312 7.67e+01 b.68.10.1 99006 1p5vA 235 7.70e+01 b.1.11.1,b.7.2.1 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