# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 5cpp 414 3.94e-01 1phd a.104.1.1 18935 1dz4A 414 4.80e-01 1phd a.104.1.1 18903 1phg 414 5.33e-01 1phd a.104.1.1 18910 1ljrA 244 5.42e-01 1ljrA a.45.1.1 17707 c.47.1.5 33001 1qmqA 414 5.65e-01 1phd a.104.1.1 18907 1phb 414 5.79e-01 1phd a.104.1.1 18906 1phd 414 5.85e-01 1phd a.104.1.1 18913 1a59 378 6.07e-01 1aj8A a.103.1.1 18902 1fps 348 7.24e-01 1uby a.128.1.1 19436 1a8h 500 8.75e-01 1a8h a.27.1.1 16922 c.26.1.1 31589 1io7A 368 1.05e+00 1f4tA a.104.1.1 18971 1cll 148 1.08e+00 1cll a.39.1.5 17263 1osa 148 1.12e+00 1cll a.39.1.5 17300 1brwA 433 1.14e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1exnA 290 1.20e+00 1exnA a.60.7.1 18088 c.53.1.2 33358 1jndA 420 1.28e+00 1g4yR 148 1.30e+00 1cll a.39.1.5 60252 1dcnD 436 1.31e+00 1auwA a.127.1.1 19423 1k7wA 468 1.37e+00 1rcd 173 1.44e+00 2fha a.25.1.1 16687 1zymA 258 1.48e+00 1zymA a.60.10.1 18110 c.8.1.2 30705 1hy0A 466 1.77e+00 1auwA a.127.1.1 61392 1auwA 468 1.82e+00 1auwA a.127.1.1 19416 1necA 216 1.90e+00 1vfrA d.90.1.1 40249 1icrA 217 2.03e+00 1vfrA d.90.1.1 62274 1e70M 501 2.05e+00 1e70M c.1.8.4 28926 1exrA 148 2.06e+00 1cll a.39.1.5 17299 1pbv 195 2.12e+00 1pbv a.118.3.1 19179 1fd9A 213 2.21e+00 1fd9A d.26.1.1 59771 1bglA 1023 2.23e+00 1bglA b.1.4.1 22097 b.1.4.1 22098 b.18.1.5 23734 b.30.1.1 24358 c.1.8.3 28857 1iapA 211 2.27e+00 a.91.1.1 62119 1csh 435 2.28e+00 1csh a.103.1.1 18880 1h99A 224 2.33e+00 a.142.1.1 60814 a.142.1.1 60815 1dp0A 1023 2.35e+00 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.1.1 24346 c.1.8.3 28845 1jz8A 1023 2.35e+00 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.1.1 67833 c.1.8.3 67834 1e6qM 501 2.41e+00 1e70M c.1.8.4 28920 1e4mM 501 2.59e+00 1e70M c.1.8.4 59226 1cmnA 402 2.91e+00 1rom a.104.1.1 18958 1qlaA 656 2.93e+00 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1ebmA 317 3.09e+00 1ebmA a.96.1.3 18751 d.129.1.2 41300 1i50B 1224 3.16e+00 e.29.1.2 61755 6cts 433 3.21e+00 1csh a.103.1.1 18891 1i0aA 466 3.25e+00 1auwA a.127.1.1 61479 1d9cA 121 3.30e+00 1d9cA a.26.1.3 16901 1h6oA 204 3.30e+00 a.146.1.1 60689 1jfbA 404 3.42e+00 a.104.1.1 66624 1adeA 431 3.64e+00 1adeA c.37.1.10 32213 3cln 148 3.74e+00 1cll a.39.1.5 17286 1f4tA 368 3.91e+00 1f4tA a.104.1.1 18973 1ggqA 174 3.92e+00 1ggqA a.24.12.1 60486 1f24A 402 3.99e+00 1rom a.104.1.1 18953 1pbwA 216 3.99e+00 1pbwA a.116.1.1 19103 1e1dA 553 4.00e+00 1e1dA e.26.1.1 43363 1ggzA 148 4.12e+00 9gafA 295 4.13e+00 1apyA d.153.1.5 42008 1hqcA 324 4.14e+00 1hqcA a.4.5.11 16127 c.37.1.13 32424 1rom 403 4.18e+00 1rom a.104.1.1 18963 1jipA 403 4.46e+00 a.104.1.1 66748 1gu9A 177 4.58e+00 a.152.1.1 65540 1qf5A 431 4.63e+00 1adeA c.37.1.10 32212 4xiaA 393 4.96e+00 4xis c.1.15.3 29439 1eia 207 5.00e+00 1eia a.28.3.1 16951 a.73.1.1 18331 1jb0L 154 5.26e+00 1jb0L f.2.1.12 62829 1e2uA 553 5.30e+00 1e1dA e.26.1.1 43362 1gntA 553 5.30e+00 1dcnA 424 5.38e+00 1auwA a.127.1.1 19420 2cb5A 453 5.48e+00 3gcb d.3.1.1 37035 1ab4 477 5.64e+00 1ab4 e.11.1.1 43251 1exnB 290 5.78e+00 1exnA a.60.7.1 18089 c.53.1.2 33359 1f1mA 164 5.81e+00 1ggqA a.24.12.1 59598 1hjp 203 5.84e+00 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1ko9A 345 5.88e+00 a.96.1.3 68717 d.129.1.2 68718 1hm6A 346 5.88e+00 1avc a.65.1.1 18147 1fyhA 258 6.05e+00 1d9cA a.26.1.3 16907 a.26.1.3 16908 1toh 343 6.09e+00 4pah d.178.1.1 42573 1ukz 203 6.40e+00 1zin c.37.1.1 31840 1jt6A 188 6.44e+00 a.4.1.9 67247 a.121.1.1 67248 2ezi 75 6.50e+00 2ezh a.4.1.2 16028 1jkw 323 6.61e+00 1jkw a.74.1.1 18356 a.74.1.1 18357 1go3F 107 6.68e+00 a.60.8.2 65407 1yacA 208 6.77e+00 1yacA c.33.1.2 31757 1tpt 440 6.80e+00 1brwA a.46.2.1 17763 c.27.1.1 31627 d.41.3.1 38625 3minB 522 6.92e+00 1qguB c.92.2.3 35606 1czpA 98 7.23e+00 1awd d.15.4.1 37645 1i5pA 633 7.23e+00 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1qt9A 98 7.23e+00 1awd d.15.4.1 37647 2eiaB 206 7.32e+00 1eia a.28.3.1 16950 a.73.1.1 18330 1cpt 412 7.52e+00 1cpt a.104.1.1 18968 1f8xA 157 7.56e+00 1f8xA c.23.14.1 31397 1uby 367 7.71e+00 1uby a.128.1.1 19435 2ezh 75 7.74e+00 2ezh a.4.1.2 16029 1gm5A 780 7.96e+00 a.29.4.1 65298 b.40.4.9 65299 c.37.1.13 65300 c.37.1.13 65301 1jdlA 121 8.61e+00 a.3.1.1 66557 3adk 195 8.85e+00 1zin c.37.1.1 31885 1f1sA 814 8.86e+00 a.102.3.2 64928 b.1.1.5 64929 b.24.1.1 64930 b.30.3.1 64931 1jcqA 382 8.95e+00 a.118.6.1 66504 1ld8A 382 9.33e+00 1dguA 183 9.37e+00 1dguA a.39.1.5 17333 2minB 522 9.42e+00 1qguB c.92.2.3 35610 1scmB 145 9.67e+00 1wdcB a.39.1.5 17304 1j78A 458 9.81e+00 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 1f3iA 481 9.83e+00 1b7eA c.55.3.4 33679 1bmfA 510 9.88e+00 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1qb2A 109 1.01e+01 1qb2A a.36.1.1 17125 1b78A 193 1.01e+01 1b78A c.51.4.1 33221 1jqjC 343 1.03e+01 a.80.1.1 67097 c.37.1.13 67098 1g7dA 106 1.08e+01 1g7dA a.71.1.1 18318 1l2iA 261 1.10e+01 2mjpA 193 1.11e+01 1b78A c.51.4.1 33223 1ycsB 239 1.12e+01 1ycsB a.118.2.1 19155 b.34.2.1 24553 1kxpD 458 1.13e+01 1h7cA 108 1.14e+01 1csn 298 1.18e+01 1csn d.144.1.1 41664 1frrA 95 1.20e+01 1awd d.15.4.1 37674 8adh 374 1.20e+01 2ohxA b.35.1.2 24690 c.2.1.1 29706 1lre 81 1.20e+01 1lre a.13.1.1 16376 1ebuA 358 1.23e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 2gsq 202 1.24e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1kncA 177 1.26e+01 a.152.1.1 68703 1tr1A 447 1.31e+01 1e70M c.1.8.4 28957 1emvA 86 1.31e+01 1cei a.28.2.1 16944 1qqfA 277 1.33e+01 1c3d a.102.4.4 18875 1b6g 310 1.36e+01 1b6g c.69.1.8 34661 1aa0 113 1.38e+01 1aa0 h.1.17.1 45659 1ede 310 1.40e+01 1b6g c.69.1.8 34662 1aisB 200 1.40e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1r69 69 1.40e+01 1r69 a.35.1.2 17028 1pda 315 1.42e+01 1pda c.94.1.1 35751 d.50.2.1 38794 1d4aA 273 1.43e+01 1d4aA c.23.5.3 31219 1eguA 731 1.44e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.3.1 24423 1f8yA 157 1.45e+01 1f8xA c.23.14.1 31395 1dik 874 1.46e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1e79A 510 1.50e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1af7 274 1.52e+01 1af7 a.58.1.1 17928 c.66.1.8 34203 1oxa 403 1.52e+01 1f4tA a.104.1.1 18965 3kinB 117 1.54e+01 3kinB 1i50K 120 1.56e+01 d.74.3.2 61765 1i7gA 287 1.56e+01 1kbqA 273 1.59e+01 c.23.5.3 68391 1fhuA 320 1.66e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878 2or1L 69 1.71e+01 1r69 a.35.1.2 17031 4crxA 322 1.73e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1be3F 110 1.75e+01 1be3F f.2.1.8 43668 1p32C 209 1.77e+01 1p32A d.25.1.1 38381 1phnA 162 1.77e+01 1cpcA a.1.1.3 15641 1qhlA 227 1.79e+01 1qhlA c.37.1.12 32382 1jlnA 297 1.80e+01 1pty c.45.1.2 63172 1kxu 333 1.82e+01 1jkw a.74.1.1 18358 a.74.1.1 18359 2pth 193 1.84e+01 2pth c.56.3.1 33793 1f16A 192 1.85e+01 1f16A f.1.4.1 43400 1qs2A 401 1.88e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1ee8A 266 1.88e+01 1ee8A e.14.1.1 43261 1p32A 209 1.91e+01 1p32A d.25.1.1 38379 1hf8A 289 1.97e+01 1hg5A a.118.10.1 19219 1ft1A 377 1.99e+01 1ft1A a.118.6.1 19186 6gsvA 217 2.00e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 1dqyA 283 2.09e+01 1dqyA c.69.1.3 34640 3crxA 343 2.10e+01 4crxA a.60.9.1 18101 d.163.1.1 42161 1cuk 203 2.12e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1bc5A 269 2.12e+01 1af7 a.58.1.1 17929 c.66.1.8 34204 1d8dA 377 2.14e+01 1ft1A a.118.6.1 19185 1e6iA 121 2.17e+01 1b91A a.29.2.1 16969 1wdcB 156 2.19e+01 1wdcB a.39.1.5 17302 1g6hA 257 2.23e+01 1gajA c.37.1.12 60318 2tysB 397 2.25e+01 2tysB c.79.1.1 35272 1jsxA 207 2.27e+01 1h8eA 510 2.28e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1e4iA 447 2.28e+01 1e70M c.1.8.4 59225 1a26 361 2.37e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1b1cA 181 2.38e+01 1amoA c.23.5.2 31212 1hg5A 289 2.41e+01 1hg5A a.118.10.1 19221 1hetA 374 2.42e+01 2ohxA b.35.1.2 60975 c.2.1.1 60976 1jtyA 194 2.45e+01 a.4.1.9 67292 a.121.1.1 67293 1chuA 540 2.48e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1qrdA 273 2.49e+01 1d4aA c.23.5.3 31217 7ahlA 293 2.52e+01 7ahlA f.6.1.1 43812 1qopB 396 2.57e+01 2tysB c.79.1.1 35270 1jhdA 396 2.58e+01 b.58.1.2 66712 c.26.1.5 66713 1fxiA 96 2.58e+01 1awd d.15.4.1 37664 1crxA 322 2.59e+01 4crxA a.60.9.1 18097 d.163.1.1 42157 1cseI 71 2.60e+01 1egpA d.40.1.1 38559 2mhr 118 2.60e+01 2mhr a.24.4.1 16581 1dofA 403 2.65e+01 1c3cA a.127.1.1 19429 1kufA 203 2.71e+01 3cbh 365 2.72e+01 1bvwA c.6.1.1 30665 1ihfA 99 2.72e+01 1huuA a.55.1.1 17893 1bvsB 203 2.73e+01 1hjp a.5.1.1 16281 a.60.2.1 17956 b.40.4.2 25275 1kugA 203 2.74e+01 1ax4A 467 2.74e+01 1ax4A c.67.1.2 34391 1jcrA 377 2.76e+01 a.118.6.1 66506 1ktpA 162 2.77e+01 1rec 201 2.78e+01 1rec a.39.1.5 17326 1ciy 590 2.83e+01 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1b8xA 280 2.83e+01 1b8xA a.45.1.1 17739 c.47.1.5 33033 1ebfA 358 2.88e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1llp 343 2.89e+01 1arv a.93.1.1 18578 1eupA 403 2.90e+01 1rom a.104.1.1 18967 1ldfA 281 2.91e+01 1ex1A 605 2.91e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1yveI 524 2.92e+01 1qmgA a.100.1.2 18789 c.2.1.6 30186 1kzhA 555 2.93e+01 1yveJ 524 2.94e+01 1qmgA a.100.1.2 18790 c.2.1.6 30187 1iexA 605 2.94e+01 c.1.8.7 66127 c.23.11.1 66128 1gumA 222 2.95e+01 1pgtA a.45.1.1 17683 c.47.1.5 32977 1ks9A 291 2.95e+01 a.100.1.7 68857 c.2.1.6 68858 1wab 232 2.98e+01 1wab c.23.10.3 31341 1ee2A 373 3.00e+01 2ohxA b.35.1.2 24663 c.2.1.1 29679 1qmgA 524 3.00e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1heuA 374 3.01e+01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1cpcA 162 3.07e+01 1cpcA a.1.1.3 15643 1pd21 199 3.09e+01 1pd21 1ea1A 455 3.09e+01 1ea1A a.104.1.1 18970 1igwA 434 3.10e+01 c.1.12.6 62370 1cb2A 365 3.11e+01 1bvwA c.6.1.1 30661 1i3dA 146 3.12e+01 a.1.1.2 61587 1ip9A 85 3.17e+01 1ip9A d.15.2.2 62638 1qsaA 618 3.18e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 1ibrB 462 3.19e+01 1qgrA a.118.1.1 19120 1ush 550 3.21e+01 1ush d.114.1.1 40923 d.159.1.2 42079 1qjwA 365 3.24e+01 1bvwA c.6.1.1 30657 1jeqB 565 3.25e+01 1jeqB e.31.1.2 62922 1dat 174 3.27e+01 2fha a.25.1.1 16677 1abv 134 3.28e+01 1abv a.70.1.1 18317 1bli 483 3.29e+01 1bli b.71.1.1 27715 c.1.8.1 28702 1tml 286 3.31e+01 1tml c.6.1.1 30656 1ao0A 459 3.33e+01 1ecfB c.61.1.1 34049 d.153.1.1 41816 1kpgA 287 3.33e+01 c.66.1.18 68735 1eh2 106 3.33e+01 1eh2 a.39.1.6 17339 3pbgA 468 3.34e+01 1e70M c.1.8.4 28951 1qs1A 462 3.35e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1pbgA 468 3.38e+01 1e70M c.1.8.4 28946 1ezvA 430 3.38e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1k8tA 510 3.41e+01 e.9.1.4 68316 1gp6A 356 3.41e+01 b.82.2.1 65441 1es9A 232 3.41e+01 1wab c.23.10.3 31340 2ohxA 374 3.42e+01 2ohxA b.35.1.2 24669 c.2.1.1 29685 1qbqA 333 3.43e+01 1ft1A a.118.6.1 19187 1hdcA 253 3.44e+01 1e6wA c.2.1.2 29862 1cbg 490 3.45e+01 1e70M c.1.8.4 28933 1ej3A 191 3.47e+01 1ej3A a.39.1.5 17259 1gp4A 356 3.51e+01 b.82.2.1 65439 2wsyB 396 3.52e+01 2tysB c.79.1.1 35288 1dn1A 594 3.53e+01 1dn1A e.25.1.1 43357 1cv2A 296 3.53e+01 1bn6A c.69.1.8 34680 1jb0A 755 3.56e+01 1jb0A f.2.1.12 62820 1liaA 164 3.57e+01 1cpcA a.1.1.3 15661 3ertA 261 3.59e+01 3erdA a.123.1.1 19292 1bx4A 345 3.62e+01 1bx4A c.72.1.1 34935 1fp1D 372 3.74e+01 1fpqA a.4.5.29 59939 c.66.1.12 59940 1guxA 218 3.76e+01 1guxA a.74.1.3 18388 1fkmA 396 3.77e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1f5qB 252 3.80e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1ceqA 316 3.81e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1a28A 256 3.83e+01 1a28A a.123.1.1 19290 1aj8A 371 3.83e+01 1aj8A a.103.1.1 18900 1fmk 452 3.85e+01 1fmk b.34.2.1 24511 d.93.1.1 40436 d.144.1.2 41690 1k94A 165 3.86e+01 a.39.1.7 68333 1h70A 255 3.86e+01 1h70A d.126.1.3 60711 1dugA 234 3.99e+01 1b8xA a.45.1.1 17718 c.47.1.5 33012