# 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 1m6bA 621 2.57e-02 c.10.2.5 74521 c.10.2.5 74522 g.3.9.1 74523 g.3.9.1 74524 1axkA 394 1.89e-01 1axkA b.29.1.2 24181 b.29.1.11 24315 1o20A 427 2.33e-01 c.82.1.1 86556 2f6kA 307 2.95e-01 1ogoX 574 3.71e-01 b.133.1.1 92925 b.80.1.10 92926 1acc 735 4.85e-01 1acc f.11.1.1 43828 2ahxA 617 4.87e-01 1nr0A 611 5.47e-01 b.69.4.1 86078 b.69.4.1 86079 1c9uA 454 5.54e-01 1c9uA b.68.2.1 27623 1phb 414 6.87e-01 1phd a.104.1.1 18906 2nlrA 234 7.83e-01 2nlrA b.29.1.11 24344 1nlr 234 8.21e-01 2nlrA b.29.1.11 24345 1wxrA 1048 8.25e-01 1yrcA 414 9.83e-01 1k32A 1045 1.23e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1cpn 208 1.31e+00 1axkA b.29.1.2 24175 1gof 639 1.38e+00 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1ivyA 452 1.51e+00 1ivyA c.69.1.5 34654 1pguA 615 1.55e+00 b.69.4.1 88069 b.69.4.1 88070 1q47A 495 1.57e+00 b.69.12.1 104532 1ajkA 214 1.76e+00 1axkA b.29.1.2 24176 1jb7A 495 2.24e+00 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1pjpA 226 2.32e+00 5ptp b.47.1.2 26301 1phg 414 2.67e+00 1phd a.104.1.1 18910 1goh 639 2.78e+00 1gof b.1.18.2 21809 b.18.1.1 23711 b.69.1.1 27633 1qbiA 454 2.87e+00 1c9uA b.68.2.1 27619 1dz4A 414 2.92e+00 1phd a.104.1.1 18903 5cpp 414 2.96e+00 1phd a.104.1.1 18935 1phd 414 3.13e+00 1phd a.104.1.1 18913 1pxgA 382 3.17e+00 c.1.20.1 95287 1sotA 320 3.22e+00 b.36.1.4 105852 b.47.1.1 105853 1qmqA 414 3.33e+00 1phd a.104.1.1 18907 2sqcA 631 3.34e+00 2sqcA a.102.4.2 18854 a.102.4.2 18855 1uz5A 402 3.34e+00 b.85.6.1 100217 b.103.1.1 100218 c.57.1.2 100219 1y7bA 542 3.40e+00 1s9aA 257 3.45e+00 b.3.6.1 105379 1n6eA 1071 3.62e+00 b.36.1.3 80149 b.68.7.1 80150 b.69.9.1 80151 c.14.1.2 80152 1a0qL 212 3.67e+00 8fabA b.1.1.1 20286 b.1.1.2 21278 1otcA 495 3.70e+00 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1pd21 199 4.04e+00 1pd21 1uacH 114 4.19e+00 b.1.1.1 99132 1re9A 414 4.33e+00 1itkA 731 4.67e+00 a.93.1.3 71417 a.93.1.3 71418 1kypA 237 4.85e+00 d.22.1.1 73280 1ei5A 520 5.28e+00 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1xhcA 367 5.31e+00 1dkuA 317 5.54e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1oxdA 227 5.55e+00 d.22.1.1 93687 1t6eX 381 5.68e+00 b.50.1.2 106564 1cruA 454 5.71e+00 1c9uA b.68.2.1 27617 1gv9A 260 5.71e+00 b.29.1.13 70596 2aamA 309 5.82e+00 1sy7A 715 6.00e+00 2anyA 241 6.14e+00 1knvA 293 6.15e+00 c.52.1.7 68707 1klt 226 6.28e+00 5ptp b.47.1.2 26300 1g3qA 237 6.29e+00 1hyqA c.37.1.10 60237 1lqsR 214 6.37e+00 b.1.2.1 74194 b.1.2.1 74195 1n1pA 504 6.49e+00 c.3.1.2 91546 d.16.1.1 91547 1n4wA 504 6.49e+00 c.3.1.2 91676 d.16.1.1 91677 1oaoC 729 6.50e+00 e.26.1.3 86746 1b9cA 236 6.52e+00 1ema d.22.1.1 38358 2rspA 124 6.53e+00 2rspB b.50.1.1 26771 1mxtA 504 6.86e+00 c.3.1.2 79671 d.16.1.1 79672 1iyhA 198 6.98e+00 a.45.1.1 83790 c.47.1.5 83791 1sqjA 789 7.35e+00 b.69.13.1 105918 b.69.13.1 105919 2madH 373 7.39e+00 2bbkH b.69.2.1 27639 1f3eA 386 7.53e+00 1pud c.1.20.1 29661 1mvpA 124 7.64e+00 2rspB b.50.1.1 26775 2rspB 124 7.97e+00 2rspB b.50.1.1 26772 1j7vR 214 8.34e+00 b.1.2.1 62705 b.1.2.1 62706 1rh5A 436 8.54e+00 f.41.1.1 97464 1qksA 567 8.58e+00 1qksA a.3.1.2 15951 b.70.2.1 27710 1xfxA 777 8.58e+00 1nn6A 228 8.73e+00 b.47.1.2 85893 1sqc 631 8.74e+00 2sqcA a.102.4.2 18858 a.102.4.2 18859 3ladA 476 8.81e+00 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1aoqA 567 9.07e+00 1qksA a.3.1.2 15934 b.70.2.1 27692 1czfA 362 9.26e+00 1czfA b.80.1.3 28031 1dugA 234 9.34e+00 1b8xA a.45.1.1 17718 c.47.1.5 33012 1aj5A 173 9.34e+00 1alvA a.39.1.8 17367 1dkrA 317 9.38e+00 1dkuA c.61.1.2 34114 c.61.1.2 34115 1xg8A 111 9.38e+00 1ibsA 317 9.79e+00 c.61.1.2 66107 c.61.1.2 66108 1zejA 293 9.83e+00 1jfpA 348 1.04e+01 f.13.1.2 66645 2d0oA 610 1.06e+01 1svcP 365 1.07e+01 1a3qA b.1.18.1 21924 b.2.5.3 22443 1e3aB 560 1.07e+01 1ajqB 1adjA 421 1.09e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 1vi6A 208 1.20e+01 c.23.15.1 100736 1h4vB 421 1.23e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1k3iA 656 1.24e+01 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 1go3E 187 1.25e+01 b.40.4.5 83054 d.230.1.1 83055 1msaA 109 1.27e+01 1b2pA b.78.1.1 27987 2fo3A 125 1.30e+01 1h6rA 236 1.30e+01 d.22.1.1 65683 1xhkA 187 1.31e+01 1efm 393 1.33e+01 1efcA c.37.1.8 64732 1fnnA 389 1.34e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1r5yA 386 1.35e+01 c.1.20.1 97134 1gm7B 557 1.37e+01 1np8A 159 1.38e+01 a.39.1.8 92022 1ijhA 504 1.38e+01 c.3.1.2 66161 d.16.1.1 66162 2ajrA 331 1.39e+01 1x1iA 752 1.40e+01 1j0mA 752 1.41e+01 a.102.3.2 83910 b.24.1.1 83911 b.30.5.2 83912 1gkfB 557 1.41e+01 1jpc 109 1.41e+01 1b2pA b.78.1.1 27986 1i8dA 213 1.45e+01 b.43.4.3 61953 b.43.4.3 61954 1dmlA 319 1.48e+01 1dmlA d.131.1.2 41380 d.131.1.2 41381 1gm9B 557 1.49e+01 1ajqB 557 1.50e+01 1ajqB 1ema 236 1.50e+01 1ema d.22.1.1 38339 1uypA 432 1.51e+01 b.29.1.19 100176 b.67.2.3 100177 1gk9B 557 1.52e+01 2emo 237 1.53e+01 1ema d.22.1.1 38366 1gbg 214 1.54e+01 1axkA b.29.1.2 24171 1cd9B 215 1.56e+01 1cto b.1.2.1 22041 b.1.2.1 22042 1gskA 513 1.58e+01 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 1qwlA 505 1.58e+01 e.5.1.1 96483 1nls 237 1.61e+01 1nls b.29.1.1 23928 1dghB 498 1.61e+01 1cf9A e.5.1.1 42791 1ehkA 562 1.61e+01 1ehkA f.24.1.1 43624 1xfuA 747 1.63e+01 1qvbA 481 1.65e+01 1qvbA c.1.8.4 28983 1o94A 729 1.71e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1m8jA 181 1.71e+01 c.26.1.3 84875 1dgfA 497 1.71e+01 1cf9A e.5.1.1 42782 1azdA 237 1.73e+01 1nls b.29.1.1 24020 1djnA 729 1.73e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1djqA 729 1.75e+01 2tmdA c.1.4.1 28614 c.3.1.1 30315 c.4.1.1 30600 1w2tA 432 1.77e+01 1t2bA 397 1.78e+01 1b4vA 504 1.80e+01 1b8sA c.3.1.2 30334 d.16.1.1 37865 1b8sA 504 1.84e+01 1b8sA c.3.1.2 30335 d.16.1.1 37866 2tmdA 729 1.86e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1te0A 318 1.89e+01 1atiA 505 1.89e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 169lA 164 1.90e+01 1l92 d.2.1.3 36963 3psg 370 1.95e+01 1smrA b.50.1.2 26841 1etu 394 1.97e+01 1efcA c.37.1.8 64737 1mjgM 729 1.99e+01 e.26.1.3 79204 1cwvA 492 2.00e+01 1cwvA b.1.14.1 22373 b.1.14.1 22374 b.1.14.1 22375 b.1.14.1 22376 d.169.1.3 42442 1a8y 367 2.05e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 7catA 506 2.08e+01 1cf9A e.5.1.1 42781 1cvjA 190 2.09e+01 1cvjB d.58.7.1 39191 d.58.7.1 39192 1gu3A 149 2.12e+01 b.18.1.14 76350 1gvzA 237 2.13e+01 b.47.1.2 76360 1ysc 421 2.16e+01 1ivyA c.69.1.5 34652 1mvwA 840 2.17e+01 i.15.1.1 79523 1x33A 268 2.19e+01 1ef1A 294 2.21e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1rlmB 271 2.22e+01 1m7sA 484 2.22e+01 e.5.1.1 74574 1rlmA 271 2.26e+01 2minB 522 2.29e+01 1qguB c.92.2.3 35610 1wp5A 323 2.30e+01 1swyA 164 2.30e+01 1sx7A 164 2.30e+01 3minB 522 2.31e+01 1qguB c.92.2.3 35606 1m1nB 522 2.31e+01 c.92.2.3 78418 1olzA 663 2.32e+01 b.1.1.4 93341 b.69.12.1 93342 g.16.2.1 93343 1atiB 505 2.37e+01 1atiA c.51.1.1 33197 d.104.1.1 40746 1alvA 173 2.37e+01 1alvA a.39.1.8 17370 1t5rA 284 2.43e+01 f.6.1.1 106465 1gnyA 153 2.46e+01 b.18.1.11 65404 2ashA 381 2.47e+01 1bqg 451 2.49e+01 1bqg c.1.11.2 29217 d.54.1.1 38861 1reqA 727 2.53e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1qgtA 149 2.53e+01 1qgtA a.62.1.1 18135 1w7jA 795 2.54e+01 16pk 415 2.55e+01 16pk c.86.1.1 35454 1scs 237 2.55e+01 1nls b.29.1.1 23930 1vorW 173 2.58e+01 1fib 269 2.61e+01 3fib d.171.1.1 42456 1nhcA 336 2.61e+01 b.80.1.3 91879 1ej2A 181 2.62e+01 1f9aA c.26.1.3 59414 1oe9A 795 2.62e+01 b.34.3.1 92792 c.37.1.9 92793 1ionA 243 2.69e+01 c.37.1.10 62633 1qcxA 359 2.74e+01 1qcxA b.80.1.2 28028 1a8p 258 2.74e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1j1xH 114 2.74e+01 b.1.1.1 77063 1k4gA 386 2.75e+01 c.1.20.1 72054 1ospH 218 2.81e+01 1igtB b.1.1.1 20117 b.1.1.2 21147 1up8A 598 2.82e+01 a.111.1.2 99710 2a46A 238 2.83e+01 198l 164 2.83e+01 1l92 d.2.1.3 36785 2ajuH 219 2.83e+01 1rwhA 757 2.85e+01 a.102.3.2 97984 b.24.1.1 97985 b.30.5.2 97986 1lw9A 164 2.85e+01 d.2.1.3 84727 1rloA 271 2.86e+01 1i3kA 348 2.90e+01 1xel c.2.1.2 61595 1p36A 164 2.93e+01 d.2.1.3 93978 1a0tP 413 2.93e+01 1a0tP f.4.3.2 43794 1aerA 205 2.95e+01 1aerA d.166.1.1 42249 1wkrA 340 2.97e+01 b.50.1.2 109395 1dmaA 214 2.99e+01 1aerA d.166.1.1 42251 1c8gA 548 3.00e+01 2cas b.121.5.2 23380 1b76A 442 3.02e+01 1atiA c.51.1.1 33198 d.104.1.1 40747 2bkdN 134 3.06e+01 163l 164 3.06e+01 1l92 d.2.1.3 36658 172l 164 3.09e+01 1l92 d.2.1.3 36905 4pep 326 3.12e+01 1smrA b.50.1.2 26843 1x36A 237 3.22e+01 1l58 164 3.23e+01 1l92 d.2.1.3 36635 2bbkH 355 3.23e+01 2bbkH b.69.2.1 27634 1bf2 750 3.25e+01 1bf2 b.1.18.2 21860 b.71.1.1 27787 c.1.8.1 28774 1smvA 260 3.27e+01 1smvA b.121.4.7 23288 1gweA 503 3.27e+01 e.5.1.1 70667 1ddzA 496 3.29e+01 1ddzA c.53.2.1 33372 c.53.2.1 33373 2bmaA 470 3.34e+01 167lA 164 3.34e+01 1l92 d.2.1.3 36937 1q33A 292 3.38e+01 d.113.1.1 95657 175lA 164 3.40e+01 1l92 d.2.1.3 36924 2cas 548 3.41e+01 2cas b.121.5.2 23376 1pnkB 557 3.42e+01 1ajqB 2gsq 202 3.44e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 147l 164 3.45e+01 1l92 d.2.1.3 36864 197l 164 3.50e+01 1l92 d.2.1.3 36911 125l 164 3.50e+01 1l92 d.2.1.3 36672 145l 164 3.53e+01 1l92 d.2.1.3 36860 173l 164 3.62e+01 1l92 d.2.1.3 36728 1tqxA 227 3.63e+01 1ll7A 392 3.64e+01 c.1.8.5 78085 d.26.3.1 78086 1ic7H 114 3.66e+01 1f3rB b.1.1.1 62258 168lA 164 3.67e+01 1l92 d.2.1.3 36975 1e3pA 757 3.68e+01 1e3hA a.4.9.1 16258 b.40.4.5 25328 d.14.1.4 37574 d.14.1.4 37575 d.52.3.1 38811 d.101.1.1 40697 d.101.1.1 40698 1p7tA 731 3.68e+01 c.1.13.1 94319 1m0uA 249 3.69e+01 a.45.1.1 78359 c.47.1.5 78360 191l 164 3.72e+01 1l92 d.2.1.3 36826 1r8nA 185 3.73e+01 b.42.4.1 104851 128l 164 3.73e+01 1l92 d.2.1.3 36634 1dszA 86 3.74e+01 2nllB g.39.1.2 45129 1n1bA 549 3.74e+01 a.102.4.1 79799 a.128.1.3 79800 127l 164 3.74e+01 d.2.1.3 36745 1x35A 268 3.75e+01 190l 164 3.77e+01 1l92 d.2.1.3 36892 1vdc 333 3.77e+01 1trb c.3.1.5 30545 c.3.1.5 30546 129l 164 3.78e+01 1l92 d.2.1.3 36660 1ndbA 596 3.78e+01 c.43.1.3 80411 c.43.1.3 80412 1orvA 728 3.78e+01 b.70.3.1 87354 c.69.1.24 87355 1i7pA 274 3.78e+01 b.43.4.2 66048 c.25.1.1 66049 162l 164 3.79e+01 1l92 d.2.1.3 36749 1onwA 390 3.79e+01 b.92.1.7 87172 c.1.9.13 87173 170l 164 3.80e+01 1l92 d.2.1.3 36968 157l 164 3.80e+01 1l92 d.2.1.3 36717 159l 164 3.80e+01 1l92 d.2.1.3 36682 1v8yA 170 3.81e+01 161l 164 3.82e+01 1l92 d.2.1.3 36636 142l 164 3.82e+01 1l92 d.2.1.3 36874 1mkmA 249 3.82e+01 a.4.5.33 79242 d.110.2.2 79243 118l 164 3.82e+01 1l92 d.2.1.3 36642 126l 164 3.83e+01 1l92 d.2.1.3 36699 164l 164 3.83e+01 1l92 d.2.1.3 36714 160l 164 3.83e+01 1l92 d.2.1.3 36748 130l 164 3.84e+01 1l92 d.2.1.3 36638 119l 164 3.84e+01 1l92 d.2.1.3 36622 156l 164 3.85e+01 1l92 d.2.1.3 36709 122l 164 3.85e+01 1l92 d.2.1.3 36667 1qwoA 442 3.85e+01 c.60.1.2 104620 146l 164 3.86e+01 1l92 d.2.1.3 36763 166l 164 3.87e+01 1l92 d.2.1.3 36681 158l 164 3.87e+01 1l92 d.2.1.3 36747 1diwA 441 3.87e+01 1a8d b.29.1.6 24264 b.42.4.2 25609 196l 164 3.87e+01 1l92 d.2.1.3 36927 195l 164 3.88e+01 1l92 d.2.1.3 36841 165l 164 3.89e+01 1l92 d.2.1.3 36680 144l 164 3.89e+01 1l92 d.2.1.3 36893 1xdyA 298 3.89e+01 1dih 273 3.90e+01 1drw c.2.1.3 30056 d.81.1.3 39971 139l 164 3.90e+01 1l92 d.2.1.3 36643 155l 164 3.91e+01 1l92 d.2.1.3 36762 138l 164 3.91e+01 1l92 d.2.1.3 36679 141l 164 3.91e+01 1l92 d.2.1.3 36863 143l 164 3.91e+01 1l92 d.2.1.3 36857 140l 164 3.92e+01 1l92 d.2.1.3 36891 1nnlA 225 3.92e+01 c.108.1.4 85906 1jflA 228 3.92e+01 c.78.2.1 71656 c.78.2.1 71657 1mkiA 330 3.93e+01 e.3.1.2 84994 1pud 386 3.93e+01 1pud c.1.20.1 29658 199l 164 3.94e+01 1l92 d.2.1.3 36855 1a5fH 217 3.96e+01 1igtB b.1.1.1 20303 b.1.1.2 21295 1svb 395 3.99e+01 1svb b.1.18.4 21814 f.10.1.1 43827 1php 394 4.00e+01 16pk c.86.1.1 35452