# List of top-scoring protein chains for t2k-100-30-bys 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 1souA 194 1.21e-27 1v9fA 325 4.55e-01 1oxxK 353 8.63e-01 b.40.6.3 -3969 c.37.1.12 -7187 1dqwA 267 9.49e-01 1dqwA c.1.2.3 28551 1oxsC 353 9.72e-01 b.40.6.3 87519 c.37.1.12 87520 1q7zA 566 1.23e+00 c.1.21.2 -5638 c.1.26.1 -5666 1ggvA 232 1.49e+00 1din c.69.1.9 34683 1gpwB 201 1.66e+00 c.23.16.1 65461 1f5mA 180 1.83e+00 1f5mB d.110.2.1 40895 1din 236 2.22e+00 1din c.69.1.9 34682 1l2tA 235 2.26e+00 c.37.1.12 73514 1b0uA 262 2.32e+00 1b0uA c.37.1.12 32370 1mnmA 100 2.50e+00 1mnmA d.88.1.1 40232 1vhtA 218 2.54e+00 c.37.1.1 -7004 1k9vF 201 2.54e+00 c.23.16.1 68365 1poiA 317 2.83e+00 1poiA unknown_sccs 34153 1k8kC 372 2.84e+00 b.69.4.1 68308 1ixkA 315 3.00e+00 unknown_sccs -8099 1omzA 293 3.07e+00 c.68.1.15 87093 1mk4A 157 3.17e+00 d.108.1.1 84979 1f5mB 180 3.42e+00 1f5mB d.110.2.1 40896 1ka9H 200 3.45e+00 c.23.16.1 77308 1r4uA 301 3.87e+00 d.96.1.4 -10709 d.96.1.4 -10710 1d6jA 211 3.94e+00 1d6jA c.37.1.4 31940 1ls1A 295 4.04e+00 a.24.13.1 78170 c.37.1.10 78171 1c7uA 85 4.14e+00 1mnmA d.88.1.1 40238 1ehiA 377 4.46e+00 1iow c.30.1.2 31716 d.142.1.1 41484 1ng1 294 4.57e+00 1ng1 a.24.13.1 16961 c.37.1.10 32272 1iu9A 111 4.62e+00 c.78.2.1 -8500 1oasA 322 4.64e+00 1oasA c.79.1.1 35293 1e6mA 128 4.87e+00 3chy c.23.1.1 31039 2nsyA 271 5.08e+00 2nsyA c.26.2.1 31612 1lyp 32 5.15e+00 1lyp j.17.1.1 46169 1k3rA 268 5.24e+00 b.40.4.10 72018 c.116.1.2 72019 1ass 159 5.35e+00 1a6dA c.8.5.2 30818 1usgA 346 5.46e+00 c.93.1.1 -8635 1tidB 119 5.62e+00 1spgB 147 6.60e+00 1cg5B a.1.1.2 15588 1qysA 106 6.76e+00 unknown_sccs -13432 1fzaB 328 6.85e+00 3fib d.171.1.1 42480 h.1.8.1 45621 1jbeA 128 7.44e+00 3chy c.23.1.1 62845 1cye 129 7.74e+00 3chy c.23.1.1 31077 1w2wB 191 7.77e+00 1nsyA 271 8.19e+00 2nsyA c.26.2.1 31614 1jq5A 370 8.20e+00 e.22.1.2 67084 1kqpA 271 8.67e+00 c.26.2.1 72883 1uox 296 8.80e+00 1uox 1ih8A 271 8.87e+00 2nsyA c.26.2.1 62377 1uedA 406 8.99e+00 a.104.1.1 -1459 1qamA 244 9.28e+00 2ercA c.66.1.24 34220 1jpnA 296 9.34e+00 a.24.13.1 67039 c.37.1.10 67040 1jvnA 555 9.38e+00 c.1.2.1 67355 c.23.16.1 67356 1nox 205 9.48e+00 1nox d.90.1.1 40242 1cfr 285 9.63e+00 1cfr c.52.1.7 33312 1egwA 77 9.78e+00 1mnmA d.88.1.1 40234 1jflA 228 1.02e+01 c.78.2.1 71656 c.78.2.1 71657 1jeyB 565 1.03e+01 1jeqB unknown_sccs -4431 unknown_sccs -7995 1gz6A 319 1.04e+01 c.2.1.2 76410 1nzyA 269 1.16e+01 1nzyA c.14.1.3 30903 1dl5A 317 1.18e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1svy 114 1.20e+01 1svy d.109.1.1 40831 1jscA 630 1.22e+01 c.31.1.3 67224 c.36.1.5 67225 c.36.1.9 67226 1rjdA 334 1.25e+01 unknown_sccs -8079 1ca1 370 1.25e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1ufbA 127 1.26e+01 a.24.16.3 -635 3chy 128 1.30e+01 3chy c.23.1.1 31038 1po5A 476 1.30e+01 a.104.1.1 -1467 1jmxB 349 1.35e+01 b.69.2.2 66906 1asx 159 1.36e+01 1a6dA c.8.5.2 30821 1io7A 368 1.36e+01 1f4tA a.104.1.1 18971 1qf6A 642 1.44e+01 1qf6A c.51.1.1 33210 d.15.10.1 39551 d.67.1.1 39562 d.104.1.1 40759 1gskA 513 1.44e+01 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 2phlA 397 1.48e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1xis 387 1.51e+01 4xis c.1.15.3 29422 1h7wA 1025 1.52e+01 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1evlA 401 1.53e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1rprA 63 1.54e+01 1nkd a.30.1.1 16989 1mkmA 249 1.58e+01 a.4.5.33 79242 d.110.2.2 79243 1spuB 727 1.60e+01 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1v4xB 146 1.65e+01 1h7xD 1025 1.65e+01 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1gthB 1025 1.70e+01 a.1.2.2 70488 c.1.4.1 70489 c.3.1.1 70490 c.4.1.1 70491 d.58.1.5 70492 1h7wD 1025 1.71e+01 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 2lbp 346 1.73e+01 2liv c.93.1.1 35709 1h4vB 421 1.74e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1fmcA 255 1.77e+01 1cydA c.2.1.2 29856 1pg4A 652 1.77e+01 e.23.1.1 88067 1h09A 338 1.78e+01 b.109.1.1 83420 c.1.8.8 83421 1nnmA 652 1.78e+01 1gthC 1025 1.79e+01 a.1.2.2 70493 c.1.4.1 70494 c.3.1.1 70495 c.4.1.1 70496 d.58.1.5 70497 1eudB 396 1.83e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1n81A 186 1.84e+01 a.185.1.1 85388 1gteD 1025 1.86e+01 a.1.2.2 70455 c.1.4.1 70456 c.3.1.1 70457 c.4.1.1 70458 d.58.1.5 70459 1h7xC 1025 1.88e+01 a.1.2.2 15689 c.1.4.1 28634 c.3.1.1 30330 c.4.1.1 30615 d.58.1.5 39013 1i1nA 226 1.92e+01 c.66.1.7 71102 1fcjA 322 1.99e+01 1oasA c.79.1.1 35289 1gthD 1025 2.01e+01 a.1.2.2 70498 c.1.4.1 70499 c.3.1.1 70500 c.4.1.1 70501 d.58.1.5 70502 1gthA 1025 2.04e+01 a.1.2.2 70483 c.1.4.1 70484 c.3.1.1 70485 c.4.1.1 70486 d.58.1.5 70487 1h7wB 1025 2.06e+01 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1itwA 741 2.10e+01 c.77.1.2 76793 1jqaA 370 2.10e+01 e.22.1.2 67085 1h7xA 1025 2.11e+01 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 3xis 387 2.12e+01 4xis c.1.15.3 29423 1eucB 396 2.16e+01 2scuB c.23.4.1 31149 d.142.1.4 41570 1lv7A 257 2.17e+01 c.37.1.20 78232 1h7xB 1025 2.17e+01 a.1.2.2 15688 c.1.4.1 28633 c.3.1.1 30329 c.4.1.1 30614 d.58.1.5 39012 1hh8A 213 2.32e+01 1e96B a.118.8.1 61042 1d6zA 727 2.33e+01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1k2yX 463 2.39e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 4xis 387 2.40e+01 4xis c.1.15.3 29421 1rtwA 220 2.41e+01 unknown_sccs -1904 2ezk 99 2.42e+01 2ezk a.4.1.2 16027 1bdmA 327 2.42e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1bdmB 327 2.45e+01 1bmdA c.2.1.5 30138 d.162.1.1 42105 1g2iA 166 2.46e+01 1g2iA c.23.16.2 31438 1gw9A 388 2.48e+01 c.1.15.3 70658 2xis 387 2.49e+01 4xis c.1.15.3 29427 2gbp 309 2.54e+01 1gca c.93.1.1 35657 1jjvA 206 2.56e+01 c.37.1.1 71698 2ng1 293 2.56e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1sv6A 269 2.57e+01 1gteA 1025 2.63e+01 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1j93A 353 2.64e+01 c.1.22.1 66454 1mc0A 368 2.70e+01 d.110.2.1 78937 d.110.2.1 78938 1cozA 129 2.71e+01 1cozA c.26.1.2 31598 1o6uA 403 2.74e+01 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 1jilA 420 2.75e+01 c.26.1.1 66745 1edoA 244 2.78e+01 1ybvA c.2.1.2 29896 1m3kA 392 2.80e+01 c.95.1.1 78565 c.95.1.1 78566 1mnzA 388 2.83e+01 c.1.15.3 79328 1m4tA 392 2.83e+01 c.95.1.1 78617 c.95.1.1 78618 1jg1A 235 2.90e+01 c.66.1.7 66661 1rpo 65 2.98e+01 1nkd a.30.1.1 16975 1kr5A 226 3.00e+01 c.66.1.7 68847 1aszB 490 3.00e+01 1b8aA b.40.4.1 25241 d.104.1.1 40762 1auoA 218 3.05e+01 1auoA c.69.1.14 34716 1gca 309 3.07e+01 1gca c.93.1.1 35659 1aurA 218 3.08e+01 1auoA c.69.1.14 34718 1bdc 60 3.09e+01 1fc2C a.8.1.1 16350 3ygsP 97 3.12e+01 3ygsP a.77.1.3 18435 1uf3A 228 3.15e+01 unknown_sccs -11463 1mrzA 293 3.18e+01 b.43.5.1 -4048 c.26.1.3 -6616 1o5oA 221 3.24e+01 c.61.1.1 -7954 1iugA 352 3.25e+01 c.67.1.3 -8176 1p80A 753 3.32e+01 c.23.16.3 -6547 e.5.1.1 -11840 1gt8C 1025 3.38e+01 a.1.2.2 70428 c.1.4.1 70429 c.3.1.1 70430 c.4.1.1 70431 d.58.1.5 70432 1ek6A 348 3.43e+01 1xel c.2.1.2 29800 1fd8A 73 3.46e+01 1cc8A d.58.17.1 59770 1gd2E 70 3.49e+01 1gd2G h.1.3.1 45528 1b64 91 3.56e+01 1b64 d.58.12.1 39306 1oy1A 228 3.57e+01 c.23.16.2 87548 1juhA 350 3.59e+01 b.82.1.5 71884 1d2kA 392 3.62e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1gp8A 40 3.63e+01 2gp8A j.58.1.1 46342 1a04A 215 3.65e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1p5dX 463 3.70e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1g4yB 101 3.74e+01 1g4yB f.15.1.1 60251 1hta 69 3.75e+01 1a7w a.22.1.2 16476 1qstA 160 3.76e+01 1yghA d.108.1.1 40804 1korA 400 3.78e+01 c.26.2.1 72824 d.210.1.1 72825 1mixA 206 3.81e+01 a.11.2.1 79166 b.55.1.5 79167 1ocxA 182 3.84e+01 b.81.1.3 86814 1gcoA 261 3.85e+01 1ybvA c.2.1.2 29884 1htoA 477 3.85e+01 d.15.9.1 70987 d.128.1.1 70988 2gp8A 40 3.85e+01 2gp8A j.58.1.1 46343 1geeA 261 3.89e+01 c.2.1.2 -5814 1gmlA 178 3.89e+01 c.8.5.2 70273 1cf9A 753 3.90e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1rtxA 123 3.95e+01 a.1.1.1 -3 1m7gA 211 3.98e+01 c.37.1.4 78724 2ezl 99 3.99e+01 2ezk a.4.1.2 16026