# 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 1mkmA 249 1.34e-03 a.4.5.33 79242 d.110.2.2 79243 1hqcA 324 4.48e-02 1hqcA a.4.5.11 16127 c.37.1.20 32424 1rvkA 382 8.46e-01 1in4A 334 8.61e-01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1vi9A 299 8.86e-01 1vjpA 394 1.02e+00 1jq5A 370 1.03e+00 e.22.1.2 67084 1lshB 319 1.17e+00 f.7.1.1 74245 1in6A 334 1.86e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1tml 286 2.13e+00 1tml c.6.1.1 30656 1llfA 534 2.28e+00 c.69.1.17 78094 1gln 468 2.68e+00 1gln a.97.1.1 18752 c.26.1.1 31588 1lea 84 3.33e+00 1lea a.4.5.2 16085 1g0oA 283 3.45e+00 1ybvA c.2.1.2 60181 1cleA 534 3.46e+00 1thg c.69.1.17 34771 1i6iA 366 3.78e+00 1bg2 c.37.1.9 61844 1crl 534 3.95e+00 1thg c.69.1.17 34765 1q48A 134 4.21e+00 1j54A 186 4.74e+00 c.55.3.5 77077 1giqA 413 4.93e+00 d.166.1.1 76224 d.166.1.1 76225 1ybvA 283 5.02e+00 1ybvA c.2.1.2 29948 1a27 289 6.02e+00 1fds c.2.1.2 29839 1viaA 175 6.12e+00 1s6yA 450 6.43e+00 2phlA 397 6.66e+00 1dgwA b.82.1.2 28082 b.82.1.2 28083 1gg4A 452 6.73e+00 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1ak1 310 6.94e+00 1ak1 c.92.1.1 35594 1ptmA 329 7.27e+00 4crxA 322 7.31e+00 4crxA a.60.9.1 18095 d.163.1.1 42155 1h2aL 567 7.63e+00 1h2rL e.18.1.1 43299 1ad3A 452 7.65e+00 1ad3A c.82.1.1 35335 1dozA 309 7.78e+00 1ak1 c.92.1.1 35592 1fdt 327 7.91e+00 1fds c.2.1.2 29841 1i5rA 327 7.92e+00 c.2.1.2 83668 1i5sA 367 8.37e+00 1bg2 c.37.1.9 61822 1a4iA 301 8.44e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1b8oA 284 8.54e+00 1b8oA c.56.2.1 33762 1qi6A 475 8.81e+00 1euhA c.82.1.1 35373 1a4iB 301 8.93e+00 1a4iA c.2.1.7 30279 c.58.1.2 33927 1jtvA 327 8.98e+00 c.2.1.2 84230 1itg 166 9.24e+00 1b9dA c.55.3.2 33661 1crxA 322 9.42e+00 4crxA a.60.9.1 18097 d.163.1.1 42157 1g59A 468 9.62e+00 a.97.1.1 60257 c.26.1.1 60258 1ubkL 534 9.78e+00 e.18.1.1 88422 1fkmA 396 9.96e+00 1fkmA a.69.2.1 18315 a.69.2.1 18316 1lwyA 324 1.01e+01 a.96.1.3 78285 d.129.1.2 78286 1om1A 332 1.04e+01 1ig8A 486 1.06e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1gdeA 389 1.07e+01 c.67.1.1 60456 1fds 327 1.07e+01 1fds c.2.1.2 29838 1m2rA 327 1.09e+01 d.144.1.7 84760 1s1pA 331 1.09e+01 1jhfA 202 1.11e+01 a.4.5.2 63057 b.87.1.1 63058 1fd9A 213 1.11e+01 1fd9A d.26.1.1 59771 1gd9A 389 1.11e+01 c.67.1.1 60454 1h2rL 534 1.12e+01 1h2rL e.18.1.1 43298 1bupA 386 1.13e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1sbxA 106 1.13e+01 1fiuA 286 1.14e+01 1fiuA c.52.1.10 33317 1uteA 313 1.15e+01 1uteA d.159.1.1 42078 1diaA 306 1.15e+01 1a4iA c.2.1.7 30280 c.58.1.2 33928 1kay 381 1.17e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1pt6A 213 1.20e+01 2hsdA 253 1.20e+01 1e6wA c.2.1.2 29866 1lp4A 332 1.21e+01 d.144.1.7 74170 1lpuA 332 1.23e+01 d.144.1.7 74177 1g8yA 279 1.24e+01 1g8yA c.37.1.11 32302 1exqA 154 1.24e+01 1b9dA c.55.3.2 33646 1itkA 731 1.25e+01 a.93.1.3 71417 a.93.1.3 71418 1ihrA 76 1.26e+01 1ihrA d.212.1.2 62392 1ba1 386 1.28e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1e3oC 160 1.29e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1jdfA 447 1.29e+01 c.1.11.2 62897 d.54.1.1 62898 1j7dA 145 1.32e+01 1jatB d.20.1.1 62680 1n9lA 109 1.33e+01 d.110.3.6 85468 1jdrA 294 1.36e+01 1ryc a.93.1.1 62908 1f44A 324 1.38e+01 a.60.9.1 64982 d.163.1.1 64983 1qc5A 192 1.38e+01 1aoxA c.62.1.1 34147 1a0cA 438 1.39e+01 1a0cA c.1.15.3 29529 1hdcA 253 1.39e+01 1e6wA c.2.1.2 29862 1a8d 452 1.43e+01 1a8d b.29.1.6 24262 b.42.4.2 25607 1nlfA 279 1.45e+01 c.37.1.11 85850 1lgyA 269 1.45e+01 3tgl c.69.1.17 34758 1hvyA 288 1.48e+01 1bkpA d.117.1.1 41049 1ebmA 317 1.50e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1mpxA 615 1.50e+01 b.18.1.13 85041 c.69.1.21 85042 1m3qA 317 1.51e+01 1ccg 291 1.51e+01 1ryc a.93.1.1 18627 1iw0A 215 1.52e+01 a.132.1.1 83720 1upiA 225 1.54e+01 1bj7 156 1.57e+01 1bj7 b.60.1.1 27113 1ryc 294 1.59e+01 1ryc a.93.1.1 18601 1o08A 221 1.62e+01 c.108.1.6 86525 1mwvA 714 1.62e+01 a.93.1.3 85161 a.93.1.3 85162 1i4jA 110 1.67e+01 d.55.1.1 76734 1ds4A 292 1.67e+01 1ryc a.93.1.1 59129 1mdl 359 1.68e+01 2mnr c.1.11.2 29247 d.54.1.1 38891 1c0pA 363 1.74e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1moq 368 1.76e+01 1moq c.80.1.1 35302 1ec7A 446 1.76e+01 1bqg c.1.11.2 29218 d.54.1.1 38862 1diwA 441 1.83e+01 1a8d b.29.1.6 24264 b.42.4.2 25609 1bcpC 199 1.86e+01 1bcpB b.40.2.1 25121 d.169.1.2 42430 2cyp 294 1.89e+01 1ryc a.93.1.1 18600 1gm5A 780 1.91e+01 a.29.4.1 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1i1gA 141 1.94e+01 a.4.5.32 65982 d.58.4.2 65983 1jyoA 130 1.94e+01 d.198.1.1 67483 1aj8A 371 1.96e+01 1aj8A a.103.1.1 18900 1d2eA 397 1.97e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1kbuA 349 2.01e+01 a.60.9.1 72284 d.163.1.1 72285 1khiA 176 2.08e+01 b.34.5.2 77408 b.40.4.5 77409 1hyeA 313 2.09e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1okrA 123 2.11e+01 1mzbA 136 2.13e+01 1gqyA 475 2.14e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1b0uA 262 2.17e+01 1b0uA c.37.1.12 32370 1dmgA 225 2.19e+01 1dmgA c.22.1.1 31036 1q1hA 110 2.20e+01 1f2tB 148 2.26e+01 1f2tB 1kb9A 431 2.27e+01 d.185.1.1 77311 d.185.1.1 77312 1p1mA 406 2.28e+01 b.92.1.4 87696 c.1.9.9 87697 1j09A 468 2.30e+01 a.97.1.1 77025 c.26.1.1 77026 1j6pA 418 2.30e+01 b.92.1.4 77089 c.1.9.9 77090 1cqwA 295 2.31e+01 1b6g c.69.1.8 34679 1ezvA 430 2.31e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1l9gA 192 2.32e+01 c.18.1.2 84568 1az9 457 2.33e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1kyoA 430 2.34e+01 d.185.1.1 73249 d.185.1.1 73250 1euhA 475 2.34e+01 1euhA c.82.1.1 35369 1bjaA 95 2.37e+01 1bjaA a.4.5.9 16122 1p0hA 318 2.40e+01 1b24A 188 2.42e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 1wdcB 156 2.44e+01 1wdcB a.39.1.5 17302 1blxA 326 2.46e+01 1hcl d.144.1.7 41596 3xis 387 2.48e+01 4xis c.1.15.3 29423 1qwiA 143 2.51e+01 6paxA 133 2.55e+01 6paxA a.4.1.5 64758 a.4.1.5 64759 1bn7A 294 2.57e+01 1bn6A c.69.1.8 34677 1ry9A 145 2.59e+01 1bsmA 201 2.65e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1j5yA 187 2.66e+01 a.4.5.1 71592 d.94.2.1 71593 1bn6A 294 2.70e+01 1bn6A c.69.1.8 34678 1r5qA 102 2.75e+01 1bl3A 160 2.77e+01 1b9dA c.55.3.2 33655 1k3xA 262 2.79e+01 a.156.1.2 77242 b.113.1.1 77243 g.39.1.8 77244 1n4oA 276 2.79e+01 1fa0A 537 2.80e+01 1fa0B a.160.1.1 75837 d.218.1.3 75838 d.58.16.1 39335 1g01A 364 2.86e+01 7a3hA c.1.8.3 60161 1nnhA 294 2.87e+01 1a8q 274 2.90e+01 1brt c.69.1.12 34702 1gw9A 388 2.91e+01 c.1.15.3 70658 1kvkA 395 3.01e+01 d.14.1.5 73060 d.58.26.3 73061 1l2iA 261 3.02e+01 a.123.1.1 73503 1o7eA 276 3.03e+01 1b3nA 412 3.07e+01 1dd8A c.95.1.1 35966 c.95.1.1 35967 1je8A 82 3.10e+01 a.4.6.2 77108 1lvhA 221 3.17e+01 c.108.1.6 74282 1spxA 278 3.20e+01 1h8mA 140 3.23e+01 1h8mA d.110.4.1 60782 1ckiA 317 3.23e+01 1csn d.144.1.7 41660 1on3A 523 3.24e+01 c.14.1.4 87107 c.14.1.4 87108 1ko9A 345 3.28e+01 a.96.1.3 68717 d.129.1.2 68718 1frvB 536 3.33e+01 1h2rL e.18.1.1 43296 1qcnA 421 3.33e+01 1qcnA b.34.8.1 59017 d.177.1.1 59018 1a16 440 3.38e+01 1az9 c.55.2.1 33548 d.127.1.1 41165 1h61A 364 3.40e+01 1oyc c.1.4.1 60657 1kzhA 555 3.43e+01 c.89.1.1 73361 1rkd 309 3.43e+01 1rkd c.72.1.1 34928 1j93A 353 3.43e+01 c.1.22.1 66454 1ehyA 294 3.50e+01 1ehyA c.69.1.11 34693 1a0p 290 3.53e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 2frvB 536 3.53e+01 1h2rL e.18.1.1 43291 1g0cA 364 3.55e+01 7a3hA c.1.8.3 60165 1iz6A 138 3.58e+01 b.34.5.2 76976 b.40.4.5 76977 1q1lA 401 3.59e+01 1iupA 282 3.60e+01 c.69.1.10 76815 1is8A 230 3.62e+01 d.96.1.1 66321 1mnzA 388 3.68e+01 c.1.15.3 79328 1xis 387 3.68e+01 4xis c.1.15.3 29422 4xis 387 3.68e+01 4xis c.1.15.3 29421 1iz0A 302 3.73e+01 b.35.1.2 83821 c.2.1.1 83822 1ohtA 215 3.77e+01 d.118.1.1 87036 1gvoA 364 3.80e+01 c.1.4.1 76357 1thg 544 3.81e+01 1thg c.69.1.17 34763 1qqjA 419 3.83e+01 1qcnA b.34.8.1 59034 d.177.1.1 59035 1s14A 194 3.88e+01 1hyoA 421 3.98e+01 1qcnA b.34.8.1 59001 d.177.1.1 59002