# 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 1sumB 235 2.60e-05 a.7.12.1 106025 1xwmA 217 1.74e-03 1wkbA 810 2.02e-01 1vctA 205 2.02e-01 1xqrA 296 2.11e-01 1xqsA 280 2.55e-01 1n81A 186 3.18e-01 a.185.1.1 85388 2dc3A 193 4.80e-01 1urvA 190 6.50e-01 1ut0A 190 6.50e-01 a.1.1.2 108012 1jk0A 419 1.10e+00 a.25.1.2 63142 2ligA 164 1.14e+00 1vls a.24.2.1 16530 2c6cA 707 1.19e+00 1z72A 225 1.36e+00 2b05A 246 1.42e+00 1a8h 500 1.48e+00 1a8h a.27.1.1,c.26.1.1 16922,31589 2ah6A 208 1.78e+00 1ithA 141 1.86e+00 1ithA a.1.1.2 15623 2br9A 234 2.02e+00 1oq9A 363 2.10e+00 a.25.1.2 87257 1twfA 1733 2.15e+00 1i50A 1733 2.30e+00 e.29.1.2 61754 1tffA 234 3.43e+00 d.3.1.11 106854 1aep 161 3.75e+00 1aep a.63.1.1 18139 1ee4A 423 3.79e+00 1ee4A a.118.1.1 19128 1afrA 345 4.19e+00 1afrA a.25.1.2 16805 1brd 248 4.25e+00 1c3wA f.13.1.1 43404 1ouvA 273 4.35e+00 a.118.18.1 93570 1us6A 102 4.38e+00 a.2.13.1 107999 1j1vA 94 4.43e+00 a.4.12.2 83981 1kgnA 329 4.69e+00 a.25.1.2 68584 1ofcX 304 4.78e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2bk9A 153 5.43e+00 1xlyA 234 5.44e+00 1ka2A 499 5.68e+00 d.92.1.5 77305 1wy0A 342 5.74e+00 2gmyA 153 5.87e+00 1xsm 390 5.94e+00 1xsm a.25.1.2 16804 1r2fA 319 6.12e+00 1r2fA a.25.1.2 16800 2ethA 154 6.23e+00 1rfyA 102 6.44e+00 1cojA 212 6.57e+00 1avmA a.2.11.1,d.44.1.1 15737,38734 1orjA 130 6.77e+00 a.24.19.1 93456 2fupA 168 6.77e+00 1ku1A 230 6.87e+00 a.118.3.1 72996 1ylmA 144 7.21e+00 1l2iA 261 7.50e+00 a.123.1.1 73503 1i1iP 681 7.51e+00 1i1iP d.92.1.5 40297 1vls 146 7.55e+00 1vls a.24.2.1 16532 1ciy 590 8.02e+00 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1dowA 205 8.40e+00 1dovA a.24.9.1 16626 1vj7A 393 8.42e+00 a.211.1.1,d.218.1.8 100801,100802 2awiA 317 8.54e+00 2g38A 99 8.54e+00 1t33A 224 1.09e+01 a.4.1.9,a.121.1.1 106295,106296 1s2xA 206 1.21e+01 a.47.3.1 105229 1wqgA 185 1.24e+01 1nr6A 473 1.24e+01 a.104.1.1 92085 1jq0A 84 1.25e+01 h.3.2.1 71786 1yozA 116 1.26e+01 2db0A 253 1.27e+01 1wcrA 103 1.28e+01 1o5hA 214 1.30e+01 a.191.1.1 92497 1hs6A 611 1.30e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1vljA 407 1.36e+01 e.22.1.2 108832 2abk 211 1.40e+01 2abk a.96.1.1 18743 1n6bA 473 1.43e+01 a.104.1.1 85359 1z1lA 345 1.44e+01 1woyA 500 1.45e+01 1zgmA 248 1.48e+01 2fnoA 248 1.48e+01 1t6jA 714 1.54e+01 2f6hX 419 1.60e+01 1elkA 157 1.60e+01 1dvpA a.118.9.2 19217 1z5hA 780 1.61e+01 1bcfA 158 1.61e+01 1bcfA a.25.1.1 16648 1g2cL 43 1.62e+01 1g2cL 1tqgA 105 1.66e+01 a.24.10.3 107224 1iqcA 308 1.72e+01 a.3.1.5,a.3.1.5 66266,66267 1vgmA 378 1.78e+01 1f44A 324 1.79e+01 a.60.9.1,d.163.1.1 64982,64983 1vgoA 253 1.85e+01 1qkmA 255 1.88e+01 3erdA a.123.1.1 19309 1sgmA 191 1.89e+01 a.4.1.9,a.121.1.1 105537,105538 1r9jA 673 1.92e+01 1wphA 201 1.92e+01 1gpb 842 1.93e+01 1a8i c.87.1.4 35478 1g2cB 43 1.98e+01 1g2cB 1z6aA 500 1.98e+01 1c3wA 222 1.99e+01 1c3wA f.13.1.1 43405 1eyyA 510 2.01e+01 1eyyA c.82.1.1 35389 3crxA 343 2.02e+01 4crxA a.60.9.1,d.163.1.1 18101,42161 1jk0B 345 2.03e+01 a.25.1.2 63143 1kbuA 349 2.03e+01 a.60.9.1,d.163.1.1 72284,72285 1wovA 250 2.04e+01 1n4kA 381 2.05e+01 a.118.22.1,b.42.6.1 79992,79993 1aisB 200 2.06e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1y2mA 716 2.09e+01 1mroA 548 2.10e+01 1mroA a.89.1.1,d.58.31.2 18525,39443 2fcjA 119 2.15e+01 1eumA 165 2.17e+01 1eumA a.25.1.1 59507 1hbnA 549 2.23e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 2chnA 716 2.24e+01 4crxA 322 2.25e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 2fq4A 192 2.26e+01 1s4bP 674 2.28e+01 d.92.1.5 105252 1cn4C 166 2.28e+01 1eerA a.26.1.2 16847 1aijS 301 2.30e+01 6prcM f.26.1.1 43465 2g3bA 208 2.32e+01 1sig 339 2.33e+01 1sig a.177.1.1 19068 1lshA 1056 2.34e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1bk6A 422 2.36e+01 1bk5A a.118.1.1 19133 1aijM 307 2.40e+01 6prcM f.26.1.1 43462 1t5oA 351 2.43e+01 c.124.1.5 106459 1o17A 345 2.44e+01 a.46.2.1,c.27.1.1 80765,80766 2cj4A 150 2.52e+01 1sd4A 126 2.61e+01 a.4.5.39 105428 1ohfA 644 2.62e+01 b.121.4.8 93014 1m98A 317 2.66e+01 a.175.1.1,d.17.4.6 78866,78867 1eemA 241 2.71e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 2fji1 399 2.80e+01 1ez0A 510 2.80e+01 1eyyA c.82.1.1 35385 1xo0A 324 2.81e+01 1np3A 338 2.95e+01 a.100.1.2,c.2.1.6 85946,85947 1oqcA 125 2.95e+01 a.24.15.1 87264 2dh4A 340 2.97e+01 1jcqA 382 3.04e+01 a.118.6.1 66504 1crxA 322 3.06e+01 4crxA a.60.9.1,d.163.1.1 18097,42157 1xpcA 248 3.06e+01 1mw9X 592 3.16e+01 e.10.1.1 91480 1ld8A 382 3.24e+01 a.118.6.1 73838 1lf6A 684 3.24e+01 a.102.1.5,b.30.5.5 77918,77919 1lvl 458 3.27e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1colA 204 3.27e+01 1a87 f.1.1.1 43378 1irxA 523 3.29e+01 a.97.1.2,c.26.1.1 71378,71379 2aexA 346 3.37e+01 2choA 716 3.43e+01 1ecl 597 3.45e+01 1ecl e.10.1.1 43238 1hx1B 114 3.45e+01 1hx1B a.7.7.1 61350 1gw5A 621 3.50e+01 a.118.1.10 70629 1dovA 181 3.51e+01 1dovA a.24.9.1 16627 1x0vA 354 3.58e+01 1ys7A 233 3.58e+01 1m0kA 262 3.64e+01 f.13.1.1 78344 1qsaA 618 3.64e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1k6iA 352 3.74e+01 c.2.1.2 68223 1un8A 552 3.77e+01 c.119.1.2,a.208.1.1 103806,99661 3erdA 261 3.80e+01 3erdA a.123.1.1 19293 1k6xA 352 3.83e+01 c.2.1.2 68238 1wrdA 103 3.83e+01 1qgtA 149 3.84e+01 1qgtA a.62.1.1 18135 1rzhM 307 3.85e+01 f.26.1.1 98165 1jdpA 441 3.91e+01 c.93.1.1 62906 1vjlA 164 3.95e+01 d.257.1.1 100822 2btdA 210 3.96e+01 1d3uB 201 3.98e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 1go3F 107 4.00e+01 a.60.8.2 65407 1oglA 283 4.02e+01 a.204.1.1 92922 2a11A 242 4.03e+01 1fz1C 389 4.04e+01 1mtyB a.25.1.2 16746 1r9dA 787 4.04e+01 c.7.1.1 104865 1xgkA 352 4.06e+01 1bk5A 422 4.09e+01 1bk5A a.118.1.1 19130 1f7cA 231 4.23e+01 1f7cA a.116.1.1 19107 1iygA 133 4.29e+01 a.118.8.1 76947 1m3qA 317 4.34e+01 a.96.1.3,d.129.1.2 91184,91185 1wleA 501 4.34e+01 1rfzA 168 4.36e+01 a.195.1.1 97411 2bxkA 585 4.40e+01 1kgbA 231 4.42e+01 f.13.1.1 68581 1mkiA 330 4.43e+01 e.3.1.2 84994 1l4aD 87 4.48e+01 h.1.15.1 73562 1i50B 1224 4.48e+01 e.29.1.1 61755 1qqeA 292 4.50e+01 1qqeA a.118.8.1 19210 1wmuB 146 4.54e+01 a.1.1.2 109417 1gtmA 419 4.56e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1vg5A 73 4.59e+01 1uhnA 189 4.60e+01 a.39.1.5 99399 1po5A 476 4.60e+01 a.104.1.1 94963 1w68A 390 4.63e+01 a.25.1.2 109216 1z0kB 69 4.63e+01 1ash 150 4.65e+01 1ash a.1.1.2 15622 1y8aA 332 4.69e+01 1gaxA 862 4.72e+01 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1gqeA 365 4.74e+01 e.38.1.1 70351 1txuA 273 4.74e+01 a.222.1.1 107439 1ao6A 585 4.76e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19354,19355,19356 1z6oM 191 4.77e+01 2cfuA 658 4.78e+01 1ir6A 424 4.80e+01 c.107.1.2 71342 1vcsA 102 4.81e+01 1k47A 337 4.83e+01 d.14.1.5,d.58.26.4 72040,72041 1abbA 828 4.84e+01 1a8i c.87.1.4 35536 1w2yA 229 4.88e+01 a.204.1.1 109140 1pfvA 551 4.90e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 2fbqA 235 4.91e+01 1f4lA 551 4.93e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1nznA 126 4.97e+01 a.118.8.1 92382 1pw4A 451 4.97e+01 f.38.1.1 95198 1in6A 334 5.06e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1in4A 334 5.07e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1ei1A 391 5.07e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1zeeA 403 5.07e+01 1oshA 232 5.07e+01 a.123.1.1 93496 1dt6A 473 5.10e+01 1dt6A a.104.1.1 18977 1dk5A 322 5.16e+01 1dk5A a.65.1.1 18192 1c20A 128 5.17e+01 1c20A a.4.3.1 16079 1kw4A 89 5.26e+01 a.60.1.2 73077 1fqiA 147 5.27e+01 1agrE a.91.1.1 18542 2a0b 125 5.28e+01 2a0b a.24.10.1 16630 1aj8A 371 5.30e+01 1aj8A a.103.1.1 18900 2ashA 381 5.33e+01 1o9rA 162 5.41e+01 a.25.1.1 86706 1ha2A 585 5.43e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 60866,60867,60868 2azjA 289 5.47e+01 1dik 874 5.53e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1itwA 741 5.65e+01 c.77.1.2 76793 1a8i 842 5.70e+01 1a8i c.87.1.4 35490 1xioA 261 5.71e+01 1x42A 232 5.73e+01 1bbhA 131 5.75e+01 1bbhA a.24.3.2 16546 1or4A 178 5.75e+01 a.1.1.2 93447 1nwmX 142 5.76e+01 a.7.8.1 86301 1a76 326 5.78e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 2a2mA 258 5.78e+01 1dxrM 323 5.80e+01 6prcM f.26.1.1 43432 1zs9A 261 5.85e+01 2a2fX 325 5.88e+01 1hiwA 133 5.88e+01 1hiwA a.61.1.1 18122 2fpqA 444 5.89e+01 1o7xD 377 5.92e+01 a.103.1.1 81174 1xg7A 250 5.94e+01 1gmjA 84 5.95e+01 h.4.8.1 65310 1pbwA 216 6.00e+01 1pbwA a.116.1.1 19103 1q06A 135 6.00e+01 a.6.1.3 95493 1qdbA 473 6.00e+01 1qdbA a.138.1.3 19688 1tn6A 382 6.00e+01 2viuB 175 6.06e+01 1hgeB h.3.1.1 45676 3hmgB 175 6.06e+01 1hgeB h.3.1.1 45704 1bvp1 349 6.06e+01 1bvp1 1m93A 55 6.07e+01 e.1.1.1 91235 1o5kA 306 6.12e+01 c.1.10.1 92504 1qcrA 446 6.18e+01 1be3A d.185.1.1,d.185.1.1 59025,59026 1pf4A 582 6.18e+01 c.37.1.12,f.37.1.1 88052,88053 1hgeB 175 6.23e+01 1hgeB h.3.1.1 45680 1kpkA 473 6.38e+01 f.20.1.1 68776 1kzhA 555 6.39e+01 c.89.1.1 73361 1rylA 167 6.39e+01 d.276.1.1 105124 1dkzA 219 6.43e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1ialA 453 6.47e+01 1bk5A a.118.1.1 19116 1paqA 189 6.48e+01 a.118.1.14 94413 2cbiA 594 6.52e+01 1bj5 585 6.54e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19369,19370,19371 2occA 514 6.56e+01 2occA f.24.1.1 43518 1r5iD 216 6.61e+01 a.202.1.1 97091 1is1A 185 6.62e+01 d.67.3.1 83704 1h0oA 390 6.63e+01 a.25.1.2 70845 1n00A 321 6.65e+01 a.65.1.1 85241 1w9cA 321 6.73e+01 1qazA 351 6.74e+01 1qazA a.102.3.1 18848 1b71A 191 6.76e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 1txqB 86 6.83e+01 2erbA 125 6.89e+01 1zw0A 66 6.96e+01 1r2aA 46 6.99e+01 1r2aA a.31.1.1 16995 1ym3A 215 7.00e+01 2es4D 332 7.05e+01 1wwpA 119 7.10e+01 1jmxA 494 7.12e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1z57A 339 7.13e+01 1iyhA 198 7.19e+01 a.45.1.1,c.47.1.5 83790,83791 1iomA 377 7.32e+01 a.103.1.1 83698 1dvbA 191 7.33e+01 1ryt a.25.1.1,g.41.5.1 16645,45244 1h6pA 203 7.34e+01 a.146.1.1 60690 1ft1A 377 7.36e+01 1ft1A a.118.6.1 19186 1ltm 320 7.38e+01 1ltm d.2.1.6 36992 1zs4A 83 7.39e+01 1q0gA 117 7.45e+01 a.24.22.1 104428 1sfcE 96 7.45e+01 1sfcE h.1.15.1 45647 1ew3A 159 7.45e+01 1mup b.60.1.1 27114 2ez6A 221 7.47e+01 1eq1A 166 7.49e+01 a.63.1.1 64910 1fr0A 125 7.50e+01 2a0b a.24.10.1 59996 1womA 271 7.52e+01 1puoA 170 7.53e+01 a.101.1.1,a.101.1.1 95134,95135 1a17 166 7.55e+01 1a17 a.118.8.1 19206 1eqfA 280 7.63e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1e2xA 243 7.68e+01 1e2xA a.4.5.6,a.78.1.1 16113,18443 1td5A 202 7.72e+01 d.110.2.2 106767 1twfB 1224 7.73e+01 1tf5A 844 7.76e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1fjgB 256 7.76e+01 1fjfB c.23.15.1 31400 2a5vA 213 7.82e+01 1u9lA 70 7.83e+01 a.60.4.2 107751 1ryt 190 7.97e+01 1ryt a.25.1.1,g.41.5.1 16646,45245 1e3aA 260 8.02e+01 1ajqA d.153.1.2 41838 1sedA 117 8.09e+01 a.219.1.1 105449 1ffyA 917 8.16e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1qu2A 917 8.16e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16925,26890,31592 1f5qB 252 8.17e+01 1f5qB a.74.1.1,a.74.1.1 18362,18363 1l0lA 446 8.21e+01 d.185.1.1,d.185.1.1 84482,84483 1myo 118 8.28e+01 2myo d.211.1.1 19174 2e2aA 105 8.33e+01 a.7.2.1 88499 1wa5B 530 8.36e+01 1gnlA 544 8.42e+01 e.26.1.1 70287 1t0qB 330 8.43e+01 a.25.1.2 106221 1jfzA 154 8.45e+01 a.149.1.1 66655 1bn6A 294 8.45e+01 1bn6A c.69.1.8 34678 1ppjA 446 8.48e+01 d.185.1.1,d.185.1.1 104252,104253 2ahrA 259 8.57e+01 1cqwA 295 8.60e+01 1b6g c.69.1.8 34679 2bl8A 103 8.61e+01 1bn7A 294 8.61e+01 1bn6A c.69.1.8 34677 3ertA 261 8.64e+01 3erdA a.123.1.1 19292 1l58 164 8.68e+01 1l92 d.2.1.3 36635 1qjbA 245 8.72e+01 1qjaA a.118.7.1 19202 1dkxA 219 8.85e+01 1dkzA a.8.4.1,b.130.1.1 90339,90340 1v54A 514 8.92e+01 f.24.1.1 100321 1p4xA 250 8.95e+01 a.4.5.28,a.4.5.28 87784,87785 1lmzA 187 8.95e+01 a.96.1.4 74037