# 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 1lo7A 141 6.74e-06 1bvqA 141 7.94e-06 1bvqA d.38.1.1 38542 1c8uA 285 3.21e-03 1c8uA d.38.1.3 38547 d.38.1.3 38548 2bpa1 426 1.05e-01 2bpa1 1xypA 190 3.03e-01 1axkA b.29.1.11 24327 1iq0A 592 3.05e-01 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1bzyA 217 4.78e-01 1qk3A c.61.1.1 34071 1hnoA 280 4.95e-01 1hnoA c.14.1.3 61095 1hnuA 280 5.17e-01 1hnoA c.14.1.3 61096 1lylA 504 8.20e-01 1lylA b.40.4.1 25261 d.104.1.1 40717 1dqeA 137 1.14e+00 1dqeA a.39.2.1 17388 1f4lA 551 1.39e+00 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 2ae2A 260 1.93e+00 1bdb c.2.1.2 29945 1qqtA 551 2.29e+00 1qqtA a.27.1.1 16923 c.26.1.1 31590 g.41.1.1 45175 1koqA 253 2.40e+00 2cba b.74.1.1 27964 1xnb 185 2.72e+00 1axkA b.29.1.11 24308 1e1oA 504 2.80e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1mkaA 171 3.01e+00 1mkaA d.38.1.2 38543 1fjgQ 105 3.96e+00 1fjfQ b.40.4.5 25352 1e32A 458 3.98e+00 1e32A b.52.2.3 59183 c.37.1.13 59184 d.31.1.1 59185 2pcdM 238 4.09e+00 3pchM b.3.6.1 22760 1al0F 426 4.46e+00 2bpa1 b.10.1.1 23274 1eqkA 102 4.82e+00 1eqkA d.17.1.2 37998 1svb 395 4.88e+00 1svb b.1.1.5 21814 f.10.1.1 43827 1jjyA 636 5.17e+00 1jjyA e.26.1.2 63141 1eo9B 241 5.23e+00 3pchM b.3.6.1 22826 1lla 628 5.44e+00 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.1.5 21861 1b64 91 5.94e+00 1b64 d.58.12.1 39306 1ee2A 373 6.04e+00 2ohxA b.35.1.2 24663 c.2.1.1 29679 3pcgM 238 6.05e+00 3pchM b.3.6.1 22742 1bxrA 1073 6.12e+00 a.92.1.1 18570 c.24.1.1 31499 c.30.1.1 31697 c.30.1.1 31698 d.142.1.2 41542 d.142.1.2 41543 1hjrA 158 6.50e+00 1hjrA c.55.3.6 33727 1axkA 394 6.61e+00 1axkA b.29.1.2 24181 b.29.1.11 24315 1je5A 206 6.78e+00 1je5A b.40.4.7 62909 1heuA 374 7.29e+00 2ohxA b.35.1.2 60979 c.2.1.1 60980 1hetA 374 7.29e+00 2ohxA b.35.1.2 60975 c.2.1.1 60976 1bsjA 168 7.76e+00 1bs4A d.167.1.1 42302 1b65A 375 8.41e+00 1b65A d.154.1.1 42020 3pchM 238 8.83e+00 3pchM b.3.6.1 22748 1dabA 539 8.92e+00 1dabA b.80.1.7 28049 1ll1 590 9.94e+00 1lla a.85.1.1 18488 a.86.1.1 18499 b.1.1.5 21864 1hdkA 141 1.01e+01 b.29.1.3 65807 1lcl 142 1.02e+01 1lcl b.29.1.3 24216 1cb0A 283 1.17e+01 1cb0A c.56.2.1 33790 1a9xA 1058 1.30e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1g2oA 268 1.34e+01 1b8oA c.56.2.1 60228 1ibcB 88 1.35e+01 1pauB 1qhvA 195 1.39e+01 1qhvA b.21.1.1 23842 1tf4A 605 1.43e+01 1tf4A a.102.1.2 18827 b.2.2.2 22393 1qg3A 195 1.44e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1bmqB 88 1.48e+01 1pauB 1ptvA 321 1.49e+01 1pty c.45.1.2 32665 8adh 374 1.56e+01 2ohxA b.35.1.2 24690 c.2.1.1 29706 1ezvI 55 1.58e+01 1be3J f.2.1.8 59553 1ab8A 220 1.59e+01 1azsA d.58.29.1 39414 1c3oG 1073 1.60e+01 a.92.1.1 18565 c.24.1.1 31494 c.30.1.1 31687 c.30.1.1 31688 d.142.1.2 41532 d.142.1.2 41533 2ohxA 374 1.61e+01 2ohxA b.35.1.2 24669 c.2.1.1 29685 1c3oE 1073 1.63e+01 a.92.1.1 18564 c.24.1.1 31493 c.30.1.1 31685 c.30.1.1 31686 d.142.1.2 41530 d.142.1.2 41531 1cs0C 1073 1.65e+01 a.92.1.1 18559 c.24.1.1 31488 c.30.1.1 31675 c.30.1.1 31676 d.142.1.2 41520 d.142.1.2 41521 1pty 321 1.67e+01 1pty c.45.1.2 32656 1c3oC 1073 1.69e+01 a.92.1.1 18563 c.24.1.1 31492 c.30.1.1 31683 c.30.1.1 31684 d.142.1.2 41528 d.142.1.2 41529 4sli 679 1.72e+01 2sli b.29.1.9 24275 b.68.1.1 27612 2sli 679 1.75e+01 2sli b.29.1.9 24274 b.68.1.1 27611 1eeoA 321 1.77e+01 1pty c.45.1.2 32655 2rmpA 361 1.80e+01 2rmpA b.50.1.2 26825 1i0rA 169 1.82e+01 1i0rA b.45.1.2 61489 1i0sA 169 1.82e+01 1i0rA b.45.1.2 61491 1cor 82 1.85e+01 451c a.3.1.1 15903 1gjwA 637 1.89e+01 b.71.1.1 60582 c.1.8.1 60583 1cskA 71 1.91e+01 1ckaA b.34.2.1 24513 1jeyA 609 1.91e+01 1jeqA e.31.1.1 62924 1jdbB 1073 1.96e+01 a.92.1.1 18574 c.24.1.1 31503 c.30.1.1 31705 c.30.1.1 31706 d.142.1.2 41550 d.142.1.2 41551 1g2lA 235 2.02e+01 b.47.1.2 65112 1jeqA 609 2.02e+01 1jeqA a.140.2.1 64748 e.31.1.1 64749 1kopA 223 2.06e+01 2cba b.74.1.1 27966 1c3oA 1073 2.11e+01 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1jkeA 145 2.13e+01 c.110.1.1 66791 1gjuA 637 2.17e+01 b.71.1.1 60580 c.1.8.1 60581 1cvsC 225 2.22e+01 1cvsC b.1.1.4 21726 b.1.1.4 21727 1aw8E 91 2.24e+01 1aw8B 1b87A 181 2.26e+01 1b87A d.108.1.1 40797 2pia 321 2.36e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1kk1A 410 2.41e+01 1hqsA 423 2.41e+01 1iso c.77.1.1 61154 1k2fA 190 2.42e+01 b.8.1.2 68054 1eo1A 124 2.51e+01 1eo1A c.55.5.1 33739 1c0aA 585 2.55e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1gqvA 135 2.56e+01 1iicA 422 2.58e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1agdA 276 2.63e+01 1agdA b.1.1.2 20741 d.19.1.1 38260 1g7fA 298 2.69e+01 1pty c.45.1.2 60330 1hi2A 135 2.76e+01 7rsa d.5.1.1 61057 1gqeA 365 2.77e+01 2hnp 321 2.77e+01 1pty c.45.1.2 32678 1aw8B 91 2.77e+01 1aw8B 1hmpA 217 2.77e+01 1qk3A c.61.1.1 34075 2scuB 388 2.80e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1axiB 236 2.81e+01 1axiB b.1.2.1 21997 b.1.2.1 21998 4enl 436 2.85e+01 4enl c.1.11.1 29202 d.54.1.1 38846 1pyaB 228 2.93e+01 1pyaB 1oneA 436 3.09e+01 4enl c.1.11.1 29200 d.54.1.1 38844 1jkgA 140 3.10e+01 d.17.4.2 66795 2oneA 436 3.12e+01 4enl c.1.11.1 29203 d.54.1.1 38847 1vcaA 202 3.17e+01 1vcaA b.1.1.3 21649 b.1.1.4 21685 1fil 139 3.19e+01 1pne d.110.1.1 40869 1fjsA 234 3.20e+01 1ucyE b.47.1.2 26336 1agnA 373 3.24e+01 2ohxA b.35.1.2 24737 c.2.1.1 29753 1sltA 134 3.25e+01 1c1lA b.29.1.3 24186 1ovaA 386 3.28e+01 1ovaA e.1.1.1 42619 1f9zA 135 3.28e+01 1qipA d.32.1.1 38484 1ihkA 174 3.30e+01 1bfg b.42.1.1 62384 1sltB 134 3.30e+01 1c1lA b.29.1.3 24187 1pne 140 3.32e+01 1pne d.110.1.1 40866 1qq8A 214 3.33e+01 1qq8A a.132.1.1 19508 1bteA 97 3.35e+01 1bteA g.7.1.3 44463 1dmhA 311 3.37e+01 1dmhA b.3.6.1 22633 1ga1A 372 3.38e+01 1ga1A c.41.1.2 32557 1qfhA 212 3.39e+01 1qfhA b.1.1.5 21893 b.1.1.5 21894 2bb8 71 3.39e+01 2bb8 d.10.1.1 37480 1f42A 306 3.41e+01 1f42A b.1.1.4 59636 b.1.2.1 59637 b.1.2.1 59638 1gaxA 862 3.41e+01 1gaxA a.27.1.1 16928 b.51.1.1 26893 c.26.1.1 31595 1cwvA 492 3.44e+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 1qlyA 58 3.46e+01 1bbzA b.34.2.1 24530 3hhrB 203 3.49e+01 1axiB b.1.2.1 22005 b.1.2.1 22006 1ktpB 172 3.59e+01 1gcvA 140 3.60e+01 1cg5B a.1.1.2 15410 1hsbA 270 3.61e+01 1agdA b.1.1.2 20736 d.19.1.1 38257 1aj0 282 3.61e+01 1aj2 c.1.21.1 29667 1i4fA 275 3.70e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1ckaA 57 3.76e+01 1ckaA b.34.2.1 24459 1eyzA 392 3.78e+01 1ez1A b.84.2.1 28246 c.30.1.1 31653 d.142.1.2 41498 1ez1A 392 3.78e+01 1ez1A b.84.2.1 28248 c.30.1.1 31655 d.142.1.2 41500 1slaA 134 3.81e+01 1c1lA b.29.1.3 24196 1jn5A 140 3.83e+01 d.17.4.2 66921 1ej6D 418 3.84e+01 i.7.1.1 45970 1qh3A 260 3.84e+01 1qh5A d.157.1.2 42059 1aj2 282 3.89e+01 1aj2 c.1.21.1 29665 1php 394 3.93e+01 16pk c.86.1.1 35452 1duzA 275 3.97e+01 1agdA b.1.1.2 20670 d.19.1.1 38224 1ga6A 372 3.98e+01 1ga1A c.41.1.2 32556 1krs 120 4.00e+01 1krs b.40.4.1 25256