# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1qbkB 890 7.70e-53 1qbkB a.118.1.1 19127 1wa5C 960 2.22e-37 1w9cA 321 1.25e-33 1qgrA 876 3.81e-20 1qgrA a.118.1.1 19119 1ibrB 462 1.07e-16 1qgrA a.118.1.1 19120 1gw5B 591 2.10e-06 a.118.1.10 70630 1b3uA 588 7.14e-06 1b3uA a.118.1.2 19135 1ee4A 423 6.02e-05 1ee4A a.118.1.1 19128 1bk6A 422 2.20e-04 1bk5A a.118.1.1 19133 1bk5A 422 3.05e-04 1bk5A a.118.1.1 19130 1wa5B 530 3.73e-04 1fiy 883 5.00e-03 1fiy c.1.12.3 29307 1qb4A 883 1.16e-02 c.1.12.3 74640 1jqnA 883 1.54e-02 c.1.12.3 77159 1avc 673 1.68e-02 1avc a.65.1.1 18178 a.65.1.1 18179 1gw5A 621 2.51e-02 a.118.1.10 70629 1w07A 659 3.31e-02 1ao6A 585 3.46e-02 1bj5 a.126.1.1 19354 a.126.1.1 19355 a.126.1.1 19356 1bj5 585 3.55e-02 1bj5 a.126.1.1 19369 a.126.1.1 19370 a.126.1.1 19371 1ha2A 585 3.72e-02 1bj5 a.126.1.1 60866 a.126.1.1 60867 a.126.1.1 60868 1kxpD 458 4.39e-02 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1jdhA 529 5.06e-02 a.118.1.1 66549 1e7aA 585 5.13e-02 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1n5uA 585 5.56e-02 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1i7wA 538 6.13e-02 3bct a.118.1.1 61909 1g3jA 532 9.53e-02 3bct a.118.1.1 19114 1ehkA 562 1.06e-01 1ehkA f.24.1.1 43624 1j78A 458 1.75e-01 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 1ldjA 760 2.01e-01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 2btvA 901 2.31e-01 2btvA e.28.1.1 43376 1miwA 404 2.46e-01 a.173.1.1 79162 d.218.1.4 79163 1jk0B 345 3.02e-01 a.25.1.2 63143 1jb0A 755 4.21e-01 1jb0A f.29.1.1 62820 2sqcA 631 8.59e-01 2sqcA a.102.4.2 18854 a.102.4.2 18855 1iv8A 720 1.29e+00 b.71.1.1 76842 c.1.8.1 76843 1fo3A 460 1.53e+00 1dl2A a.102.2.1 18845 1j5sA 463 1.55e+00 c.1.9.8 71580 1nktA 922 1.56e+00 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1v54A 514 1.72e+00 1sqc 631 1.82e+00 2sqcA a.102.4.2 18858 a.102.4.2 18859 1ka2A 499 2.01e+00 d.92.1.5 77305 1fchA 368 2.05e+00 1fchA a.118.8.1 19212 2kfnA 605 2.10e+00 1xwl c.55.3.5 33682 e.8.1.1 42975 1n46A 258 2.12e+00 a.123.1.1 85315 1e8yA 966 2.31e+00 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1eia 207 2.34e+00 1eia a.28.3.1 16951 a.73.1.1 18331 1upkA 341 2.36e+00 5eat 548 2.45e+00 5eat a.102.4.1 18853 a.128.1.3 19445 1l7vA 326 2.71e+00 f.22.1.1 73672 1kktA 511 2.85e+00 a.102.2.1 68687 1riqA 465 2.90e+00 2occA 514 3.22e+00 2occA f.24.1.1 43518 1t7rA 269 3.33e+00 1nfiC 301 3.37e+00 b.1.18.1 21943 b.2.5.3 22456 1y14A 187 3.41e+00 1tzvA 142 3.43e+00 1kpkA 473 3.50e+00 f.20.1.1 68776 1q6hA 224 3.54e+00 1h6kA 757 3.60e+00 a.118.1.2 60675 a.118.1.2 60676 a.118.1.2 60677 1a36A 592 3.66e+00 1a36A a.2.8.1 15715 d.163.1.2 42173 e.15.1.1 43266 1htjF 210 3.95e+00 1htjF a.91.1.1 61254 1taq 832 3.95e+00 1taq a.60.7.1 18082 c.120.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 2eiaB 206 4.00e+00 1eia a.28.3.1 16950 a.73.1.1 18330 1g5hA 454 4.52e+00 1g5hA c.51.1.1 60270 d.104.1.1 60271 1lp4A 332 4.69e+00 d.144.1.7 74170 1lnh 857 4.77e+00 1yge a.119.1.1 19237 b.12.1.1 23637 1r9kA 172 4.79e+00 1oyzA 280 4.83e+00 1ih7A 903 5.04e+00 1clqA c.55.3.5 62375 e.8.1.1 62376 1ljrA 244 5.12e+00 1ljrA a.45.1.1 17707 c.47.1.5 33001 1vjoA 393 5.15e+00 1oohA 126 5.20e+00 1rtwA 220 5.30e+00 1h12A 405 5.47e+00 a.102.1.2 83447 1upvA 257 5.50e+00 1guxA 218 5.68e+00 1guxA a.74.1.3 18388 1ulyA 192 5.81e+00 1m13A 316 5.92e+00 a.123.1.1 84746 1lpuA 332 5.92e+00 d.144.1.7 74177 1lshA 1056 6.21e+00 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1e9eA 215 6.42e+00 c.37.1.1 64810 1peqA 714 6.44e+00 1rec 201 6.58e+00 1rec a.39.1.5 17326 1e9cA 215 6.60e+00 c.37.1.1 64808 1oywA 523 6.60e+00 1a6dA 545 6.60e+00 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1evyA 366 6.78e+00 1evyA a.100.1.6 18811 c.2.1.6 30215 1pw4A 451 6.80e+00 1omrA 201 6.89e+00 1cb8A 678 7.08e+00 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1e2gA 215 7.15e+00 3tmkA c.37.1.1 59165 1oq9A 363 7.31e+00 a.25.1.2 87257 1spvA 184 7.50e+00 1afrA 345 7.59e+00 1afrA a.25.1.2 16805 1p7tA 731 7.88e+00 1nrlA 316 7.89e+00 3bct 457 7.94e+00 3bct a.118.1.1 19112 1ft1A 377 8.03e+00 1ft1A a.118.6.1 19186 1clqA 903 8.13e+00 1clqA c.55.3.5 33717 e.8.1.1 43006 1nn5A 215 8.14e+00 c.37.1.1 85892 1anxA 319 8.36e+00 1avc a.65.1.1 18161 1hcuA 503 8.40e+00 a.102.2.1 65796 1aueA 100 8.56e+00 1nsgB a.24.7.1 16615 1irxA 523 8.75e+00 a.97.1.2 71378 c.26.1.1 71379 1e2fA 215 9.08e+00 3tmkA c.37.1.1 59164 1eco 136 9.10e+00 1flp a.1.1.2 15208 1hm2A 700 9.13e+00 1cb8A a.102.3.2 61083 b.24.1.1 61084 b.30.5.2 61085 1nfiA 301 9.29e+00 1a3qA b.1.18.1 21942 b.2.5.3 22455 1bob 320 9.35e+00 1bob d.108.1.1 40816 1tqnA 486 9.41e+00 1vljA 407 9.49e+00 1sctB 151 9.66e+00 3sdhA a.1.1.2 15003 1ornA 226 9.68e+00 a.96.1.1 87342 1mxrA 375 9.74e+00 a.25.1.2 85197 1dceB 331 9.81e+00 1dceB a.102.4.3 18872 1lj8A 493 1.02e+01 a.100.1.9 78033 c.2.1.6 78034 1biqA 375 1.05e+01 1xikA a.25.1.2 16786 1h3fA 432 1.06e+01 c.26.1.1 76631 d.66.1.4 76632 1jk0A 419 1.07e+01 a.25.1.2 63142 1om1A 332 1.07e+01 1e8xA 961 1.09e+01 1e8xA a.118.1.6 19148 b.7.1.1 23183 d.15.1.5 37631 d.144.1.4 41711 1dm5A 315 1.11e+01 1avc a.65.1.1 18186 1eca 136 1.12e+01 1flp a.1.1.2 15209 1ecd 136 1.12e+01 1flp a.1.1.2 15211 1xikA 375 1.13e+01 1xikA a.25.1.2 16784 1m6nA 802 1.13e+01 a.162.1.1 78697 a.172.1.1 78698 c.37.1.19 78699 c.37.1.19 78700 1fqvJ 149 1.13e+01 1fqvD a.157.1.1 19266 d.42.1.1 38670 1d2nA 272 1.15e+01 1d2nA c.37.1.20 32428 1o7nB 194 1.16e+01 d.17.4.4 81164 1ndoB 194 1.16e+01 1ndoB d.17.4.4 38121 1eg9B 194 1.16e+01 1ndoB d.17.4.4 38120 1dn1A 594 1.19e+01 1dn1A e.25.1.1 43357 1ib2A 349 1.20e+01 1ib2A a.118.1.8 62141 1ash 150 1.21e+01 1ash a.1.1.2 15622 1f5qB 252 1.23e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1ezfA 340 1.28e+01 1ezfA a.128.1.2 19440 1aorA 605 1.30e+01 1b25A a.110.1.1 19042 d.152.1.1 41794 1vheA 373 1.31e+01 1d8cA 723 1.32e+01 1d8cA c.1.13.1 29325 1otsA 465 1.34e+01 f.20.1.1 87415 1jqcA 375 1.39e+01 1xikA a.25.1.2 63229 1jfaA 374 1.39e+01 a.128.1.5 66622 1rovA 857 1.43e+01 1ovnA 248 1.43e+01 1w4xA 542 1.48e+01 1rh5A 436 1.48e+01 1mukA 1267 1.51e+01 e.8.1.4 79492 1fqvD 149 1.53e+01 1fqvD a.157.1.1 19263 d.42.1.1 38667 1lrv 244 1.56e+01 1lrv a.118.1.5 19146 1i37A 260 1.58e+01 1a28A a.123.1.1 61583 1m2rA 327 1.58e+01 d.144.1.7 84760 1wekA 217 1.61e+01 1jixA 351 1.61e+01 1c3jA c.87.1.1 63081 1jg7A 351 1.67e+01 1c3jA c.87.1.1 62945 1brwA 433 1.68e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1oe9A 795 1.69e+01 1jfgA 374 1.69e+01 a.128.1.5 66636 1cec 343 1.70e+01 1ceo c.1.8.3 28809 1dn1B 267 1.72e+01 1dn1B a.47.2.1 17771 1t0qB 330 1.72e+01 1vns 609 1.76e+01 1vns a.111.1.3 19061 1rt8A 513 1.78e+01 1kv9A 668 1.82e+01 a.3.1.6 73056 b.70.1.1 73057 1j6oA 268 1.83e+01 c.1.9.12 77088 1kzhA 555 1.86e+01 c.89.1.1 73361 1xqoA 256 1.87e+01 1gaxA 862 1.88e+01 1gaxA a.2.7.3 75842 a.27.1.1 75843 b.51.1.1 26893 c.26.1.1 31595 1lrzA 426 1.88e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1h2vC 771 1.90e+01 a.118.1.2 76592 a.118.1.2 76593 a.118.1.2 76594 1cpq 129 1.92e+01 1cpq a.24.3.2 16556 1nv8A 284 1.92e+01 c.66.1.30 86224 1vnc 609 1.94e+01 1vns a.111.1.3 19065 1kf6C 130 1.94e+01 f.21.2.2 72399 1tffA 234 1.98e+01 5pal 109 2.03e+01 1a75A a.39.1.4 17215 3tmkA 216 2.04e+01 3tmkA c.37.1.1 31920 1ae1A 273 2.13e+01 1bdb c.2.1.2 29943 1c1kA 217 2.15e+01 1c1kA a.120.1.1 19239 1hy0A 466 2.17e+01 1auwA a.127.1.1 61392 1qr6A 584 2.17e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1j79A 347 2.19e+01 1j79A c.1.9.4 62675 1nekC 129 2.27e+01 f.21.2.2 80431 1qhbA 596 2.33e+01 1qhbA a.111.1.2 19055 1va6A 518 2.33e+01 1vkhA 273 2.34e+01 1lvk 762 2.37e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1lw7A 365 2.39e+01 c.26.1.3 74295 c.37.1.1 74296 1g59A 468 2.40e+01 a.97.1.1 60257 c.26.1.1 60258 2gsaA 432 2.49e+01 2gsaA c.67.1.4 34446 1pgtA 210 2.51e+01 1pgtA a.45.1.1 17515 c.47.1.5 32809 1mv8A 436 2.54e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 3fapB 94 2.57e+01 1nsgB a.24.7.1 16612 1kyqA 274 2.62e+01 c.2.1.11 73281 e.37.1.1 73282 1ayx 492 2.63e+01 1ayx a.102.1.1 18825 1dcnD 436 2.63e+01 1auwA a.127.1.1 19423 1glm 470 2.64e+01 1ayx a.102.1.1 18821 1chuA 540 2.64e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1po5A 476 2.70e+01 1k5oA 86 2.71e+01 a.165.1.1 77269 1jli 112 2.71e+01 1jli a.26.1.2 16884 2ts1 419 2.72e+01 2ts1 c.26.1.1 31564 1tf5A 844 2.77e+01 1sh0A 510 2.80e+01 1ribA 375 2.80e+01 1xikA a.25.1.2 16788 1k4tA 592 2.82e+01 a.2.8.1 77263 d.163.1.2 77264 e.15.1.1 77265 1sig 339 2.85e+01 1sig a.177.1.1 19068 1qrjB 199 2.87e+01 1qrjB a.28.3.1 16952 1pprM 312 2.89e+01 1pprM a.131.1.1 19502 a.131.1.1 19503 1nekA 588 2.96e+01 a.7.3.1 80426 c.3.1.4 80427 d.168.1.1 80428 1xlyA 234 2.96e+01 1j8uA 325 3.04e+01 d.178.1.1 71611 5eau 548 3.05e+01 5eat a.102.4.1 18851 a.128.1.3 19443 1ceo 343 3.06e+01 1ceo c.1.8.3 28808 1kgnA 329 3.07e+01 a.25.1.2 68584 1auwA 468 3.08e+01 1auwA a.127.1.1 19416 1mpgA 282 3.09e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1vom 762 3.13e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 1a8h 500 3.14e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 2bgu 351 3.18e+01 1c3jA c.87.1.1 35460 1xnfA 275 3.18e+01 2tmkA 216 3.19e+01 3tmkA c.37.1.1 31928 1hvd 319 3.20e+01 1avc a.65.1.1 18154 1tn6A 382 3.22e+01 1yfm 488 3.23e+01 1furA a.127.1.1 19413 1gvnB 287 3.23e+01 c.37.1.21 76354 1jcrA 377 3.27e+01 a.118.6.1 66506 1qhtA 775 3.30e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1c3jA 351 3.32e+01 1c3jA c.87.1.1 35459 1tzjA 338 3.32e+01 1jm6A 407 3.32e+01 a.29.5.1 66876 d.122.1.4 66877 1cch 82 3.34e+01 451c a.3.1.1 15902 1kkhA 317 3.47e+01 d.14.1.5 72645 d.58.26.3 72646 1i1qA 520 3.48e+01 1qdlA d.161.1.1 61543 1tvkA 440 3.50e+01 1q87A 221 3.52e+01 1phk 298 3.54e+01 1cdkA d.144.1.7 41635 1hta 69 3.57e+01 1a7w a.22.1.2 16476 1ucrA 78 3.61e+01 1j2zA 270 3.64e+01 1rrmA 386 3.67e+01 1nsf 273 3.72e+01 1d2nA c.37.1.20 32429 1k7wA 468 3.74e+01 a.127.1.1 72130 1j09A 468 3.91e+01 a.97.1.1 77025 c.26.1.1 77026 1gweA 503 3.94e+01 e.5.1.1 70667 1orjA 130 3.98e+01 1tbfA 347 3.99e+01