# List of top-scoring protein chains for t06-100-30-n_sep-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 1y8qA 346 5.63e-03 1ww9A 392 1.22e-02 1jg5A 83 2.73e-02 d.205.1.1 66666 1z02A 446 2.87e-02 2iwbA 246 3.54e-02 1q5yA 85 8.68e-02 d.58.18.4 95950 1a99A 344 1.79e-01 1pot c.94.1.1 35812 1sgvA 316 1.82e-01 b.122.1.1,d.265.1.2 98858,98859 1wojA 214 1.86e-01 1s68A 249 2.23e-01 d.142.2.4 98591 1qy1A 174 2.47e-01 b.60.1.1 96568 1zndA 174 2.47e-01 2cvlA 124 2.56e-01 1xkzA 255 2.80e-01 1yqfA 203 3.06e-01 1mjhA 162 3.23e-01 1mjhA c.26.2.4 31639 1zu0A 529 3.68e-01 1f0xA 571 4.00e-01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1r3eA 309 4.06e-01 b.122.1.1,d.265.1.2 96907,96908 2dchX 216 4.15e-01 2fb0A 94 4.32e-01 1mp9A 198 4.93e-01 d.129.1.1,d.129.1.1 91385,91386 1u20A 212 5.22e-01 1wm3A 72 5.28e-01 2bgsA 344 5.30e-01 1u7iA 136 5.36e-01 d.32.1.7 107724 1o1xA 155 5.77e-01 c.121.1.1 86553 1frb 315 5.89e-01 1frb c.1.7.1 28665 1t0fA 276 6.14e-01 1m6kA 251 6.33e-01 e.3.1.1 78695 1f1uA 323 7.05e-01 d.32.1.3,d.32.1.3 83200,83201 2bkrA 212 7.15e-01 2cybA 323 7.22e-01 1xocA 520 7.40e-01 2gtqA 867 7.76e-01 1h75A 81 8.78e-01 1h75A c.47.1.1 60716 1bf6A 291 8.84e-01 1pscA c.1.9.3 29065 2gsfA 373 8.97e-01 2a9sA 171 9.33e-01 1jg1A 235 9.54e-01 c.66.1.7 66661 2fi0A 81 9.78e-01 1k8wA 327 1.00e+00 b.122.1.1,d.265.1.2 83094,90388 1j8rA 196 1.01e+00 1j8rA b.2.3.3 62745 1ytvA 366 1.02e+00 1e25A 282 1.05e+00 1e25A e.3.1.1 42731 1fyhB 229 1.06e+00 1jrhI b.1.2.1,b.1.2.1 22055,22056 1e5dA 402 1.07e+00 1e5dA c.23.5.1,d.157.1.3 31208,42061 1whi 122 1.13e+00 1whi b.39.1.1 24810 1y60A 169 1.14e+00 1wvfA 520 1.15e+00 1yemA 179 1.18e+00 1v6tA 255 1.19e+00 3il8 72 1.20e+00 1tvxA d.9.1.1 37356 1o0xA 262 1.23e+00 d.127.1.1 80755 1fe0A 68 1.23e+00 1cc8A d.58.17.1 39345 1f1xA 322 1.27e+00 d.32.1.3,d.32.1.3 83208,83209 1k8qA 377 1.31e+00 c.69.1.6 72177 1o22A 170 1.32e+00 d.238.1.1 86557 1xc3A 302 1.33e+00 2fblA 153 1.35e+00 2f20A 240 1.39e+00 1ockA 412 1.40e+00 c.117.1.1 86802 2faoA 309 1.45e+00 1vi6A 208 1.48e+00 c.23.15.1 100736 1p1lA 102 1.52e+00 d.58.5.2 87695 1gci 269 1.54e+00 1gci c.41.1.1 32503 1k2eA 156 1.55e+00 d.113.1.1 72010 1anf 370 1.56e+00 4mbp c.94.1.1 35776 1h0hA 977 1.59e+00 b.52.2.2,c.81.1.1 76435,76436 1ktbA 405 1.70e+00 b.71.1.1,c.1.8.1 72960,72961 1qo7A 394 1.71e+00 1qo7A c.69.1.11 34697 1hf2A 210 1.75e+00 1hf2A b.80.3.1,c.102.1.1 60992,60993 1d3bA 75 1.81e+00 1d3bA b.38.1.1 24798 2bj7A 138 1.84e+00 1oo0B 110 1.87e+00 d.58.7.1 87183 1jidA 128 1.88e+00 d.201.1.1 66735 2gs5A 198 1.94e+00 1gmlA 178 2.05e+00 c.8.5.2 70273 1reqB 637 2.05e+00 1reqB c.1.19.1,c.23.6.1 29621,31248 2dc4A 165 2.12e+00 1wu7A 434 2.23e+00 2d1pA 140 2.26e+00 1yqzA 438 2.29e+00 1bkpA 278 2.29e+00 1bkpA d.117.1.1 41029 1brwA 433 2.30e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1w41A 101 2.37e+00 2fp7B 172 2.37e+00 2d8sA 80 2.44e+00 1kkoA 413 2.45e+00 c.1.11.2,d.54.1.1 68675,68676 1t0hB 224 2.47e+00 c.37.1.1 106208 2bt6A 108 2.50e+00 2hekA 371 2.54e+00 1v7rA 186 2.57e+00 c.51.4.1 100482 2b18A 164 2.59e+00 1e0bA 68 2.60e+00 1e0bA b.34.13.2 37476 2ez3A 302 2.64e+00 1tksA 204 2.65e+00 d.115.1.2 107114 1nd4A 264 2.72e+00 d.144.1.6 91815 1us0A 316 2.86e+00 c.1.7.1 99850 1qwgA 251 2.86e+00 c.1.27.1 96473 1o4wA 147 2.87e+00 c.120.1.1 86629 2f7fA 494 2.87e+00 1n9lA 109 2.89e+00 d.110.3.6 85468 2bgcA 238 2.93e+00 1a12A 413 2.96e+00 1a12A b.69.5.1 27663 1vqoM 195 2.97e+00 1qftA 175 2.99e+00 1qftA b.60.1.1 27151 1kr4A 125 3.02e+00 d.58.5.2 72889 1djrD 103 3.08e+00 3chbD b.40.2.1 24865 1qtoA 122 3.12e+00 1bylA d.32.1.2 38494 1wosA 364 3.13e+00 b.44.2.1,d.250.1.1 109468,109469 1j6qA 136 3.14e+00 b.40.9.1 77091 1qpcA 279 3.24e+00 1fgkA d.144.1.7 41685 1ew0A 130 3.26e+00 1drmA d.110.3.2 40905 1vqoU 66 3.28e+00 2aexA 346 3.37e+00 2g30A 258 3.38e+00 1m2oA 768 3.40e+00 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 1r89A 437 3.48e+00 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 2c6qA 351 3.49e+00 1dl5A 317 3.51e+00 1dl5A c.66.1.7,d.197.1.1 64720,64721 2ajrA 331 3.58e+00 1jpaA 312 3.64e+00 d.144.1.7 67011 1thm 279 3.67e+00 1gci c.41.1.1 32544 1vjeA 166 3.69e+00 d.185.1.2 100807 1l7mA 211 3.71e+00 c.108.1.4 73664 1pjxA 314 3.75e+00 b.68.6.1 104167 1obbA 480 3.76e+00 c.2.1.5,d.162.1.2 86760,86761 1l8bA 190 3.76e+00 d.86.1.1 73683 1k38A 254 3.84e+00 e.3.1.1 84303 1xf1A 926 3.86e+00 1v4pA 157 3.87e+00 1qwdA 177 3.90e+00 b.60.1.1 96471 2c4wA 176 3.95e+00 1jetA 517 3.95e+00 1jevA c.94.1.1 35718 1mzbA 136 4.02e+00 a.4.5.42 91497 1nrwA 288 4.15e+00 c.108.1.10 86128 2gi9A 56 4.18e+00 1opjA 293 4.25e+00 d.144.1.7 87230 1m5wA 243 4.30e+00 c.1.24.1 84836 1mbmA 198 4.32e+00 b.47.1.3 78916 1v25A 541 4.34e+00 e.23.1.1 108275 2mhr 118 4.35e+00 2mhr a.24.4.1 16581 2f06A 144 4.38e+00 1othA 321 4.40e+00 1othA c.78.1.1,c.78.1.1 35260,35261 1dzkA 157 4.40e+00 1obpA b.60.1.1 27096 1q1rA 431 4.48e+00 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 3chbD 104 4.68e+00 3chbD b.40.2.1 24970 1yp1A 202 4.69e+00 2d5cA 263 4.72e+00 1nrjA 158 4.74e+00 d.110.4.4 86124 1zo2A 129 4.83e+00 2f5gA 133 4.84e+00 1e42A 258 4.87e+00 1e42A b.1.10.1,d.105.1.1 22316,40792 2fhzA 109 4.95e+00 1kq6A 141 4.95e+00 d.189.1.1 91020 1p4fA 293 4.99e+00 d.144.1.7 104063 2b8tA 223 4.99e+00 1gt1A 159 5.16e+00 b.60.1.1 90515 1tkeA 224 5.17e+00 1nzjA 298 5.24e+00 c.26.1.1 92377 1iukA 140 5.24e+00 c.2.1.8 83712 1vp8A 201 5.37e+00 1tvxA 75 5.38e+00 1tvxA d.9.1.1 37441 1wj9A 211 5.46e+00 1a3aA 148 5.53e+00 1a3aA d.112.1.1 40917 2essA 248 5.54e+00 3tss 194 5.54e+00 1aw7A b.40.2.2,d.15.6.1 25160,37749 1v5iB 76 5.58e+00 1vetB 125 5.76e+00 d.110.7.1 108554 1wurA 220 5.79e+00 1nytA 271 5.79e+00 c.2.1.7,c.58.1.5 86417,86418 1vq3A 94 5.87e+00 1yovA 537 6.01e+00 1jnrB 150 6.16e+00 d.58.1.5 66969 2igd 61 6.18e+00 2igd d.15.7.1 37821 1b0uA 262 6.20e+00 1b0uA c.37.1.12 32370 1r0rE 274 6.21e+00 c.41.1.1 96735 1a0tP 413 6.22e+00 1a0tP f.4.3.2 43794 2cdqA 510 6.26e+00 2apoA 357 6.30e+00 1vkyA 347 6.31e+00 e.53.1.1 108696 8abp 306 6.32e+00 8abp c.93.1.1 35647 2a14A 263 6.39e+00 1vh5A 148 6.39e+00 d.38.1.5 100642 2cwkA 160 6.50e+00 2d4pA 141 6.60e+00 1p3dA 475 6.65e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1aop 497 6.82e+00 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1j3mA 129 6.82e+00 d.129.7.1 103836 1ju3A 583 6.92e+00 b.18.1.13,c.69.1.21 67300,67301 1mrg 263 6.97e+00 1mrj d.165.1.1 42183 1zejA 293 6.98e+00 2cxhA 217 6.98e+00 1mkiA 330 6.99e+00 e.3.1.2 84994 1ldjA 760 7.04e+00 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1xb4A 202 7.04e+00 1yj1A 76 7.05e+00 2gwgA 350 7.07e+00 1amf 233 7.09e+00 1wod c.94.1.1 35833 1c7nA 399 7.15e+00 1d2fA c.67.1.3 34413 2ivyA 101 7.20e+00 1qhtA 775 7.20e+00 1tgoA c.55.3.5,e.8.1.1 33722,43011 2bolA 314 7.23e+00 1lkoA 191 7.26e+00 a.25.1.1,g.41.5.1 78063,78064 2fomB 185 7.33e+00 1zljA 78 7.33e+00 1qe5A 266 7.38e+00 1b8oA c.56.2.1 33784 2ex2A 458 7.41e+00 1kngA 156 7.42e+00 c.47.1.10 72777 1uu3A 310 7.42e+00 d.144.1.7 99999 1j79A 347 7.42e+00 1j79A c.1.9.4 62675 1ohpA 125 7.45e+00 1y81A 138 7.47e+00 1y7rA 133 7.52e+00 1w85I 49 7.53e+00 1q4uA 151 7.58e+00 d.38.1.5 95828 1h7zA 194 7.66e+00 1qhvA b.21.1.1 60733 1l7dA 384 7.74e+00 c.2.1.4,c.23.12.2 77774,77775 1kafA 108 7.74e+00 d.199.1.1 68372 1juvA 193 7.83e+00 c.71.1.1 90912 1ynfA 458 7.86e+00 2b3hA 329 8.16e+00 2gu3A 136 8.25e+00 1dqpA 230 8.30e+00 1dqnA c.61.1.1 34069 1vgjA 184 8.34e+00 1ey4A 149 8.35e+00 1snc b.40.1.1 24815 2ggcA 263 8.38e+00 1wohA 305 8.39e+00 c.42.1.1 109446 1vl5A 260 8.39e+00 c.66.1.41 108720 1ta3B 303 8.42e+00 c.1.8.3 106732 1mbyA 88 8.46e+00 d.223.1.1 78931 1oh0A 131 8.47e+00 d.17.4.3 87004 1ogwA 76 8.55e+00 d.15.1.1 87001 1npk 154 8.60e+00 1npk d.58.6.1 39099 1j27A 102 8.60e+00 d.58.50.1 90778 2cglA 489 8.61e+00 1u7lA 392 8.64e+00 2f1kA 279 8.66e+00 1ukuA 102 8.70e+00 d.58.5.2 99533 1nr4A 71 8.70e+00 d.9.1.1 92077 1nddA 76 8.74e+00 1ubi d.15.1.1 37599 1zmoA 244 8.82e+00 1e5pA 151 8.88e+00 1bj7 b.60.1.1 59272 1y0hA 105 8.93e+00 2b0cA 206 8.95e+00 1aisA 182 8.98e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1jnyA 435 8.99e+00 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1gdeA 389 9.04e+00 c.67.1.1 60456 1i8oA 114 9.05e+00 1ycc a.3.1.1 61979 1zlqA 502 9.08e+00 1xgsA 295 9.18e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1h70A 255 9.27e+00 1h70A d.126.1.3 60711 1vkdA 338 9.28e+00 b.67.2.4 108644 1zbfA 142 9.43e+00 2bvcA 486 9.56e+00 1dcfA 136 9.63e+00 1dcfA c.23.1.2 31124 1mpxA 615 9.89e+00 b.18.1.13,c.69.1.21 85041,85042 1qd9A 124 9.92e+00 1qu9A d.79.1.1 39758 1im5A 180 9.96e+00 c.33.1.3 66211 1zd3A 555 9.97e+00 1fg7A 356 9.98e+00 1gewA c.67.1.1 59819 2ac3A 316 1.00e+01 1ea7A 310 1.02e+01 c.41.1.1 70086 1jbeA 128 1.03e+01 3chy c.23.1.1 62845 2ctoA 93 1.03e+01 1z57A 339 1.05e+01 2go8A 122 1.06e+01 1k55A 246 1.08e+01 e.3.1.1 68156 1cqyA 99 1.08e+01 1b9zA b.3.1.1 22527 2gzxA 265 1.10e+01 1bj7 156 1.10e+01 1bj7 b.60.1.1 27113 1yt8A 539 1.11e+01 1pn0A 665 1.11e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1jayA 212 1.11e+01 c.2.1.6 66478 1u5mA 73 1.12e+01 1n8jA 186 1.12e+01 c.47.1.10 85401 1vmjA 151 1.13e+01 1vd4A 62 1.13e+01 3seb 238 1.14e+01 3seb b.40.2.2,d.15.6.1 25184,37773 2gaeA 346 1.14e+01 2fulA 178 1.14e+01 1ia8A 289 1.14e+01 1ia8A d.144.1.7 62112 1wa3A 205 1.16e+01 1sqiA 393 1.17e+01 d.32.1.3,d.32.1.3 105914,105915 2fexA 188 1.17e+01 1kb9B 352 1.17e+01 d.185.1.1,d.185.1.1 77313,77314 1xnzA 264 1.18e+01 1i4uA 181 1.19e+01 b.60.1.1 61732 1s1pA 331 1.20e+01 c.1.7.1 98350 1vzyA 291 1.20e+01 2bsxA 253 1.22e+01 2fl4A 149 1.22e+01 1x89A 178 1.22e+01 1s2oA 244 1.23e+01 1y8aA 332 1.23e+01 1vd6A 224 1.23e+01 1np6A 174 1.24e+01 c.37.1.10 85954 1naqA 112 1.24e+01 d.58.5.2 91761 1gy8A 397 1.24e+01 c.2.1.2 83376 1t6t1 118 1.24e+01 1srb 21 1.24e+01 j.28.1.1 46201 1wwhA 119 1.24e+01 1vpqA 273 1.26e+01 2ew8A 249 1.26e+01 2ewcA 126 1.27e+01 1rxyA 253 1.28e+01 c.56.2.1 98065 1jmuB 666 1.29e+01 2cwrA 103 1.29e+01 1ne9A 335 1.29e+01 d.108.1.4,d.108.1.4 91839,91840 1umdB 324 1.29e+01 c.36.1.7,c.48.1.2 99600,99601 2iw0A 254 1.30e+01 1o1zA 234 1.30e+01 c.1.18.3 86555 1uasA 362 1.31e+01 b.71.1.1,c.1.8.1 88388,88389 1cuk 203 1.32e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1xvxA 312 1.33e+01 1q9uA 130 1.33e+01 d.129.7.1 96314 1y80A 210 1.34e+01 1pq1A 196 1.35e+01 f.1.4.1 94986 1x74A 360 1.35e+01 1h16A 759 1.36e+01 c.7.1.1 76462 1bd3A 243 1.39e+01 1bd3A c.61.1.1 34098 1ej8A 140 1.39e+01 1qupA b.1.8.1 22300 1ycoA 279 1.41e+01 1g8sA 230 1.43e+01 c.66.1.3 90507 2czrA 226 1.43e+01 2c1lA 358 1.44e+01 2aqjA 538 1.44e+01 2gfgA 193 1.47e+01 2fvhA 120 1.47e+01 1z1zA 131 1.48e+01 1hh1A 143 1.48e+01 1gefA c.52.1.18 61036 1q77A 138 1.49e+01 c.26.2.4 96023 1kufA 203 1.50e+01 d.92.1.9 73007 1pvmA 184 1.51e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1vyrA 364 1.51e+01 c.1.4.1 108906 1stfI 98 1.52e+01 1stfI d.17.1.2 38006 1tqhA 247 1.52e+01 c.69.1.29 107225 1m22A 503 1.53e+01 c.117.1.1 78464 2biqA 219 1.53e+01 1jmsA 381 1.53e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1whzA 70 1.54e+01 1vkiA 181 1.54e+01 d.116.1.1 108664 2acy 98 1.55e+01 2acy d.58.10.1 39298 1o4vA 183 1.56e+01 c.23.8.1 86628 1k4iA 233 1.56e+01 d.115.1.2 72056 1who 96 1.56e+01 1who b.7.3.1 23215 1epfA 191 1.56e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1sauA 115 1.58e+01 1vqzA 341 1.58e+01 1vq2A 193 1.59e+01 2cvbA 188 1.60e+01 1up8A 598 1.61e+01 a.111.1.2 99710 1ksiA 642 1.61e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1f5mA 180 1.61e+01 1f5mB d.110.2.1 40895 1fm0E 150 1.62e+01 1fmaE d.41.5.1 38629 1apyA 162 1.62e+01 1apyA d.153.1.5 42004 1xrkA 124 1.63e+01 1yxmA 303 1.65e+01 1x9iA 302 1.65e+01 1gmxA 108 1.65e+01 c.46.1.3 65355 1t6nA 220 1.66e+01 c.37.1.19 106576 1vlyA 338 1.67e+01 b.44.2.1,d.250.1.1 108871,108872 2f9sA 151 1.67e+01 1jfrA 262 1.68e+01 1jfrA c.69.1.16 34724 1bif 469 1.68e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1nzaA 103 1.69e+01 d.58.5.2 86444 1btn 106 1.69e+01 1btn b.55.1.1 26952 1yrrA 382 1.70e+01 1edn 21 1.70e+01 j.28.1.1 46197 2flsA 132 1.70e+01 1yzhA 214 1.71e+01 1vchA 175 1.73e+01 1w6uA 302 1.74e+01 2g3aA 152 1.74e+01 1t1uA 639 1.74e+01 1dxeA 256 1.74e+01 1dxeA 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