# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 2dbbA 151 1.45e-01 2g5cA 281 1.57e-01 1wduA 245 3.67e-01 d.151.1.1 109286 1ri7A 171 4.27e-01 a.4.5.32,d.58.4.2 97504,97505 1jmtA 104 6.81e-01 d.58.7.3 63180 1x7oA 287 9.64e-01 1wqaA 455 1.03e+00 2ffuA 501 1.35e+00 2u1a 88 1.89e+00 2u1a d.58.7.1 39164 2al1A 436 1.92e+00 2al2A 436 1.92e+00 1oneA 436 2.00e+00 4enl c.1.11.1,d.54.1.1 29200,38844 1v60A 123 2.07e+00 4enl 436 2.12e+00 4enl c.1.11.1,d.54.1.1 29202,38846 2ucz 165 2.14e+00 1u9aA d.20.1.1 38330 4lbd 267 2.28e+00 2lbd a.123.1.1 19289 2lbd 267 2.40e+00 2lbd a.123.1.1 19287 1fcyA 236 2.44e+00 2lbd a.123.1.1 19282 1av6A 289 2.51e+00 3mag c.66.1.25 34218 1autL 114 2.79e+00 1hcgB g.3.11.1,g.3.11.1 44244,44245 3mag 307 3.17e+00 3mag c.66.1.25 34205 1vpt 348 3.61e+00 3mag c.66.1.25 34207 2ga9A 297 3.69e+00 1pvvA 315 4.07e+00 c.78.1.1,c.78.1.1 95190,95191 1gegA 256 4.24e+00 1ybvA c.2.1.2 29888 1a1s 314 4.59e+00 1othA c.78.1.1,c.78.1.1 35258,35259 1u7lA 392 4.90e+00 1kblA 873 5.06e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1v39 322 5.16e+00 3mag c.66.1.25 34206 1vp9 322 5.16e+00 3mag c.66.1.25 34210 2oneA 436 5.52e+00 4enl c.1.11.1,d.54.1.1 29203,38847 1df3A 162 5.52e+00 1mup b.60.1.1 27134 1bqk 124 5.66e+00 1bqk b.6.1.1 22889 1w1wA 430 6.37e+00 2c1cA 312 6.78e+00 2bcoA 350 6.83e+00 1odkA 235 7.31e+00 c.56.2.1 86863 1ahpA 797 7.93e+00 1a8i c.87.1.4 35544 2f5gA 133 8.41e+00 1xhbA 472 8.59e+00 1rgyA 360 8.78e+00 e.3.1.1 97456 2b0jA 358 9.27e+00 1uirA 314 9.52e+00 c.66.1.17 99429 2dlbA 80 9.81e+00 1vl6A 388 9.85e+00 c.2.1.7,c.58.1.3 108724,108725 2cx5A 158 9.96e+00 1l5wA 796 1.02e+01 c.87.1.4 73605 1te6A 439 1.03e+01 c.1.11.1,d.54.1.1 106797,106798 1kqfB 294 1.03e+01 d.58.1.5,f.23.22.1 75900,75901 1yb0A 159 1.05e+01 1d7kA 421 1.05e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1ymqA 261 1.13e+01 1u1hA 765 1.14e+01 c.1.22.2,c.1.22.2 107580,107581 1fsz 372 1.17e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1i35A 95 1.18e+01 d.15.1.5 66017 1i06A 180 1.19e+01 1mup b.60.1.1 27131 1jv4A 162 1.21e+01 b.60.1.1 67343 1zndA 174 1.22e+01 1i05A 180 1.23e+01 1mup b.60.1.1 27130 1qo0D 196 1.27e+01 1qo0D c.23.1.3 31125 1g0rA 293 1.28e+01 1g0rA c.68.1.6 34532 1ng4A 390 1.30e+01 c.3.1.2,d.16.1.3 85666,85667 1p8kZ 254 1.30e+01 d.95.2.1,d.95.2.1 94361,94362 1zud1 251 1.34e+01 2fqxA 318 1.35e+01 1ryiA 382 1.37e+01 1lvwA 295 1.37e+01 c.68.1.6 84723 1wcgA 464 1.39e+01 1ooeA 236 1.40e+01 c.2.1.2 87196 1eu8A 409 1.46e+01 1eu8A c.94.1.1 59502 1gm6A 175 1.54e+01 b.60.1.1 70272 1vaoA 560 1.55e+01 1qltA d.58.32.1,d.145.1.1 39461,41724 1pbn 289 1.58e+01 1b8oA c.56.2.1 33771 1phk 298 1.59e+01 1cdkA d.144.1.7 41635 1w1kA 560 1.61e+01 d.58.32.1,d.145.1.1 109059,109060 2lgsA 468 1.63e+01 1lgr d.15.9.1,d.128.1.1 37838,41168 2akzA 439 1.64e+01 1qdlB 195 1.67e+01 1qdlB c.23.16.1 31437 2fuvA 549 1.68e+01 1lgr 468 1.72e+01 1lgr d.15.9.1,d.128.1.1 37837,41167 1b7gO 340 1.80e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1qy1A 174 1.81e+01 b.60.1.1 96568 1a9s 289 1.86e+01 1b8oA c.56.2.1 33768 1w8sA 263 1.88e+01 2fliA 220 1.90e+01 1wdvA 152 1.91e+01 1fr1A 361 1.93e+01 1gceA e.3.1.1 42734 1vjeA 166 1.95e+01 d.185.1.2 100807 1icxA 155 1.97e+01 d.129.3.1 71191 3pnp 289 1.98e+01 1b8oA c.56.2.1 33763 1jobA 162 1.99e+01 1f35A b.94.1.1 63207 1a9t 284 1.99e+01 1b8oA c.56.2.1 33765 1xqaA 113 2.04e+01 1zp4A 304 2.07e+01 1wi1A 126 2.08e+01 1a4yA 460 2.10e+01 1a4yA c.10.1.1 30852 1vr5A 547 2.13e+01 1a9r 282 2.13e+01 1b8oA c.56.2.1 33767 1bwsA 321 2.14e+01 1bsvA c.2.1.2 29812 1u1jA 765 2.15e+01 c.1.22.2,c.1.22.2 107590,107591 1o69A 394 2.19e+01 c.67.1.4 92560 1qwdA 177 2.21e+01 b.60.1.1 96471 1b44D 129 2.21e+01 3chbD b.40.2.1 24960 1j1lA 290 2.22e+01 b.82.1.12 90766 1l0oA 150 2.24e+01 d.122.1.3 73403 2arhA 203 2.25e+01 1mat 264 2.28e+01 1c24A d.127.1.1 41152 4matA 278 2.29e+01 1c24A d.127.1.1 41150 1c24A 263 2.29e+01 1c24A d.127.1.1 41148 2bfwA 200 2.30e+01 1xnzA 264 2.31e+01 1un8A 552 2.32e+01 c.119.1.2,a.208.1.1 103806,99661 1aszB 490 2.32e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 7odcA 424 2.35e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1z5bA 469 2.38e+01 1e9rA 437 2.41e+01 c.37.1.11 64827 1st9A 143 2.41e+01 c.47.1.10 98987 1mup 166 2.43e+01 1mup b.60.1.1 27133 1m41A 380 2.49e+01 c.1.16.4 78595 1b5tA 275 2.50e+01 1b5tA c.1.23.1 29676 1rhs 296 2.51e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1ftrA 296 2.53e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1to3A 304 2.54e+01 c.1.10.1 107161 1w2fA 276 2.59e+01 d.143.1.3 109125 1yoeA 322 2.60e+01 1b8oA 284 2.63e+01 1b8oA c.56.2.1 33762 1ir6A 424 2.63e+01 c.107.1.2 71342 1e8gA 560 2.64e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1innA 166 2.74e+01 1j98A d.185.1.2 62608 2fiqA 420 2.75e+01 1mu5A 471 2.88e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1zsyA 357 2.88e+01 1tin 69 2.90e+01 2sniI d.40.1.1 38580 1qltA 560 2.91e+01 1qltA d.58.32.1,d.145.1.1 39457,41720 1ru3A 732 2.99e+01 e.26.1.3 97835 1f2tB 148 3.00e+01 1f2tB 1irxA 523 3.01e+01 a.97.1.2,c.26.1.1 71378,71379 1uroA 367 3.06e+01 1uroA c.1.22.1 29675 2glfA 450 3.08e+01 1uekA 275 3.15e+01 d.14.1.5,d.58.26.5 88483,88484 1r3sA 367 3.16e+01 c.1.22.1 96963 1m1hA 248 3.27e+01 b.114.1.1,d.58.42.1 78415,78416 2matA 264 3.30e+01 1c24A d.127.1.1 41146 2ax3A 502 3.32e+01 2a5dA 175 3.33e+01 1pieA 419 3.35e+01 d.14.1.5,d.58.26.7 94706,94707 1i9gA 280 3.36e+01 c.66.1.13 62090 1gefA 123 3.38e+01 1gefA c.52.1.18 60465 2bj7A 138 3.38e+01 1h70A 255 3.40e+01 1h70A d.126.1.3 60711 1e8cA 498 3.47e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1b6g 310 3.49e+01 1b6g c.69.1.8 34661 1yseA 141 3.49e+01 1pzxA 289 3.49e+01 c.119.1.1 95484 1k8kE 178 3.54e+01 a.148.1.1 68311 1urnA 97 3.59e+01 1urnA d.58.7.1 39153 1a3yA 149 3.63e+01 1obpA b.60.1.1 27110 1konA 249 3.68e+01 e.39.1.1 72823 1fxoA 293 3.68e+01 1g0rA c.68.1.6 34524 1cx0A 95 3.68e+01 1urnA d.58.7.1 39158 1c3yA 108 3.73e+01 1c3yA a.39.2.1 17387 1hynP 379 3.77e+01 1hynP d.112.1.2 61408 2cviA 83 3.77e+01 1asyA 490 3.78e+01 1b8aA b.40.4.1,d.104.1.1 25242,40763 1tdj 514 3.79e+01 1tdj c.79.1.1,d.58.18.2,d.58.18.2 35297,39356,39357 1kt6A 183 3.79e+01 b.60.1.1 84466 1xewY 172 3.81e+01 1a9nB 96 3.85e+01 1urnA d.58.7.1 39165 2f9sA 151 3.90e+01 1xkiA 162 3.91e+01 1jndA 420 3.94e+01 c.1.8.5,d.26.3.1 71757,71758 1mit 69 3.95e+01 1hymA d.40.1.1 38582 2cu1A 103 3.96e+01 1dzkA 157 3.96e+01 1obpA b.60.1.1 27096 1ve5A 311 4.03e+01 1dik 874 4.03e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1efuB 282 4.03e+01 1efuB d.43.1.1,a.5.2.2,d.43.1.1 38677,58975,58976 1mylA 53 4.14e+01 1bazA a.43.1.1 17427 1f52A 468 4.15e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1zavA 180 4.15e+01 1h6zA 913 4.16e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1iz7A 295 4.17e+01 c.69.1.8 76982 1v4pA 157 4.18e+01 1cv2A 296 4.21e+01 1bn6A c.69.1.8 34680 1wvfA 520 4.22e+01 2faoA 309 4.26e+01 1v7oA 165 4.28e+01 d.67.1.2 100480 1zu4A 320 4.28e+01 1mzbA 136 4.29e+01 a.4.5.42 91497 1pc6A 146 4.34e+01 d.262.1.1 94430 1eqtA 68 4.37e+01 1b3aA d.9.1.1 37412 1dj0A 264 4.39e+01 1dj0A d.265.1.1 90337 1c0pA 363 4.40e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1sg4A 260 4.46e+01 1j5yA 187 4.58e+01 a.4.5.1,d.94.2.1 71592,71593 1ojxA 263 4.59e+01 c.1.10.1 93164 1r5lA 262 4.61e+01 a.5.3.1,c.13.1.1 97099,97100 1b3aA 67 4.61e+01 1b3aA d.9.1.1 37410 1rz2A 254 4.67e+01 b.100.1.1 105130 1b01A 45 4.67e+01 2cpgA a.43.1.3 17458 1yc5A 246 4.70e+01 1w6uA 302 4.72e+01 1fcdA 401 4.72e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1oz9A 150 4.77e+01 d.92.1.15 93808 1nrfA 262 4.84e+01 e.3.1.1 92086 2sttA 96 4.85e+01 1awcA a.4.5.21 16163 1yr0A 175 4.91e+01 1hbq 183 4.94e+01 1aqb b.60.1.1 27078 1lngA 87 5.02e+01 d.201.1.1 74045 1lbu 213 5.07e+01 1lbu a.20.1.1,d.65.1.1 16416,39549 1xc3A 302 5.09e+01 1g2rA 100 5.11e+01 1g2rA d.192.1.1 60231 1oiaA 95 5.11e+01 d.58.7.1 87051 1fzyA 149 5.15e+01 d.20.1.1 65072 1s3zA 165 5.17e+01 d.108.1.1 105250 1ede 310 5.18e+01 1b6g c.69.1.8 34662 2ca6A 386 5.18e+01 1ew3A 159 5.22e+01 1mup b.60.1.1 27114 1czfA 362 5.23e+01 1czfA b.80.1.3 28031 1o7nA 449 5.24e+01 b.33.1.2,d.129.3.3 81162,81163 1th8A 145 5.25e+01 d.122.1.3 106908 1reqB 637 5.26e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1epxA 370 5.27e+01 1fbaA c.1.10.1 29150 1eg9A 449 5.29e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 2ggcA 263 5.29e+01 1ja9A 274 5.30e+01 c.2.1.2 62817 1f9zA 135 5.30e+01 1qipA d.32.1.1 38484 1vkhA 273 5.30e+01 c.69.1.32 108662 1bj7 156 5.31e+01 1bj7 b.60.1.1 27113 1fggA 261 5.39e+01 1fggA c.68.1.7 34576 2fckA 181 5.39e+01 1ghsA 306 5.39e+01 1aq0A c.1.8.3 28840 1hbp 183 5.42e+01 1aqb b.60.1.1 27079 1aqb 183 5.44e+01 1aqb b.60.1.1 27084 1y8qA 346 5.50e+01 1t5iA 172 5.51e+01 c.37.1.19 106450 1mj5A 302 5.61e+01 c.69.1.8 91285 1qysA 106 5.63e+01 k.41.1.1 96603 1hfc 169 5.66e+01 1hfc d.92.1.11 40335 2freA 200 5.68e+01 1kwsA 261 5.69e+01 c.68.1.7 73083 1fi4A 416 5.70e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 1em8A 147 5.72e+01 c.128.1.1 90457 1yp2A 451 5.74e+01 1ii7A 333 5.79e+01 1ii7A d.159.1.4 62415 1v86A 95 5.83e+01 d.15.1.1 108421 2b1xA 470 5.87e+01 1gfsA 321 5.89e+01 c.2.1.2 29811 1nu4A 97 5.96e+01 d.58.7.1 80731 1ml8A 134 5.98e+01 d.227.1.2 85013 1ap8 213 6.01e+01 1ap8 d.86.1.1 40151 2atxA 194 6.04e+01 1n3bA 216 6.08e+01 c.37.1.1 79959 1ipiA 123 6.10e+01 c.52.1.18 66255 1bqg 451 6.11e+01 1bqg c.1.11.2,d.54.1.1 29217,38861 1qu9A 128 6.14e+01 1qu9A d.79.1.1 39755 1qu9C 128 6.14e+01 1qu9A d.79.1.1 39757 1h1nA 305 6.22e+01 c.1.8.3 70855 1tljA 213 6.26e+01 d.282.1.1 107126 1ws0A 156 6.28e+01 1mh1 186 6.32e+01 1eesA c.37.1.8 32002 1fiuA 286 6.34e+01 1fiuA c.52.1.10 33317 1m5oC 100 6.42e+01 d.58.7.1 78654 1wstA 417 6.45e+01 1yrgB 385 6.45e+01 1yrgA c.10.1.2 30855 1zpvA 91 6.55e+01 1sdjA 310 6.60e+01 d.21.1.2,d.21.1.2 98807,98808 1i1gA 141 6.74e+01 a.4.5.32,d.58.4.2 65982,65983 7reqB 637 6.74e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1xyzA 347 6.75e+01 1taxA c.1.8.3 28804 1ndoA 449 6.77e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 1de6A 426 6.84e+01 1de5A c.1.15.2 29398 1z7xW 461 6.85e+01 1yxmA 303 6.86e+01 1zd9A 188 6.88e+01 1ob8A 135 6.93e+01 2a0jA 149 6.99e+01 2g7zA 282 7.04e+01 1yrgA 385 7.05e+01 1yrgA c.10.1.2 30854 1z0sA 278 7.07e+01 1fht 116 7.08e+01 1urnA d.58.7.1 39157 1vp4A 425 7.08e+01 1n5nA 180 7.09e+01 d.167.1.1 85336 1o0xA 262 7.10e+01 d.127.1.1 80755 1vggA 161 7.15e+01 1fo8A 343 7.16e+01 1foaA c.68.1.10 59927 2fmr 65 7.19e+01 2fmr d.51.1.1 38808 1adwA 123 7.20e+01 1bqk b.6.1.1 22893 1gqwA 283 7.22e+01 b.82.2.5 70377 1ws6A 171 7.25e+01 1ffkB 338 7.27e+01 1ffkB b.43.3.2 25719 1ijyA 130 7.28e+01 1ijxA a.141.1.1 62517 2gcfA 73 7.30e+01 1fa8A 135 7.35e+01 1qipA d.32.1.1 38486 2cxcA 144 7.38e+01 1a0i 348 7.39e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1imuA 107 7.44e+01 d.204.1.1 66218 3tgl 269 7.45e+01 3tgl c.69.1.17 34733 1jdfA 447 7.47e+01 c.1.11.2,d.54.1.1 62897,62898 2a5jA 191 7.50e+01 2d09A 407 7.51e+01 2d0eA 407 7.52e+01 2fu0A 160 7.54e+01 1fo9A 348 7.60e+01 1foaA c.68.1.10 59928 1e69B 322 7.61e+01 1e69B c.37.1.12 32377 1r5tA 142 7.66e+01 c.97.1.1 104812 1zjcA 418 7.66e+01 2b4vA 468 7.70e+01 1e7rA 321 7.71e+01 1bsvA c.2.1.2 29808 1x6mA 196 7.72e+01 1reqD 637 7.72e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 1a4iA 301 7.75e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1mp9A 198 7.76e+01 d.129.1.1,d.129.1.1 91385,91386 1hyqA 263 7.78e+01 1hyqA c.37.1.10 61412 1xrjA 261 7.81e+01 1p0iA 529 7.82e+01 c.69.1.1 93867 1d8wA 426 7.84e+01 1de5A c.1.15.2 29394 1jztA 246 7.84e+01 c.104.1.1 63319 1y5eA 169 7.85e+01 1f2rI 100 7.86e+01 1c9fA d.15.2.1 37641 2a5yB 549 7.87e+01 1ryp1 222 7.97e+01 1ryp1 1s1fA 406 8.00e+01 2aa1A 144 8.05e+01 1l0gA 358 8.12e+01 e.3.1.1 73400 1k5dC 386 8.15e+01 c.10.1.2 68170 1oj4A 283 8.15e+01 d.14.1.5,d.58.26.5 93083,93084 1de5A 426 8.18e+01 1de5A c.1.15.2 29402 1fjgP 88 8.22e+01 1emwA d.27.1.1 38444 2e2c 156 8.28e+01 1u9aA d.20.1.1 38336 1bsvA 321 8.29e+01 1bsvA c.2.1.2 29809 1nqkA 381 8.29e+01 c.1.16.4 92050 1t9mA 214 8.38e+01 1v9jA 113 8.43e+01 d.52.6.1 100542 1bsjA 168 8.44e+01 1bs4A d.167.1.1 42302 2b43A 526 8.48e+01 3sxlA 184 8.61e+01 1b7fA d.58.7.1,d.58.7.1 39173,39174 2cglA 489 8.63e+01 1g9oA 91 8.68e+01 1pdr b.36.1.1 60400 2ab0A 205 8.70e+01 1r9cA 139 8.75e+01 d.32.1.2 97255 1ec7A 446 8.78e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1lki 180 8.82e+01 1lki a.26.1.1 16829 1diaA 306 8.87e+01 1a4iA c.2.1.7,c.58.1.2 30280,33928 2esrA 177 8.88e+01 2fsrA 195 8.98e+01