# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1k30A 368 8.05e-03 c.112.1.1 68067 1fvaA 217 1.00e-01 1fvaA d.58.28.1 39409 1fvgA 199 1.27e-01 1fvaA d.58.28.1 39408 1b3qA 379 2.64e-01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1i58A 189 2.89e-01 1b3qA d.122.1.3 61773 1auiA 521 3.24e-01 1auiA d.159.1.3 42085 1h72C 296 3.39e-01 d.14.1.5 60712 d.58.26.1 60713 1egaA 301 3.70e-01 1egaA c.37.1.8 32150 d.52.3.1 38836 1iso 416 6.03e-01 1iso c.77.1.1 35065 1gumA 222 6.14e-01 1pgtA a.45.1.1 17683 c.47.1.5 32977 1vhh 162 6.39e-01 1vhh d.65.1.2 39550 1fwkA 296 6.47e-01 1fwkA d.14.1.5 37576 d.58.26.1 39398 7icd 416 7.21e-01 1iso c.77.1.1 35072 3blm 257 7.69e-01 1btl e.3.1.1 42709 1f89A 291 7.78e-01 d.160.1.1 64988 1bif 469 8.05e-01 1bif c.37.1.7 31961 c.60.1.4 34003 1pioA 257 8.13e-01 1btl e.3.1.1 42719 1ghpA 258 8.46e-01 1btl e.3.1.1 60520 3bifA 468 9.96e-01 1bif c.37.1.7 31962 c.60.1.4 34008 1f0xA 571 1.30e+00 1f0xA d.58.32.2 39483 d.145.1.1 41746 1gulA 222 1.31e+00 1pgtA a.45.1.1 17675 c.47.1.5 32969 1c3oE 1073 1.66e+00 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 1e1dA 553 1.71e+00 1e1dA e.26.1.1 43363 1bjwA 382 1.83e+00 1bjwA c.67.1.1 34349 1aoxA 203 2.02e+00 1aoxA c.62.1.1 34151 1k6zA 141 2.28e+00 d.198.1.1 68247 1keeC 1073 2.60e+00 a.92.1.1 68500 c.24.1.1 68501 c.30.1.1 68502 c.30.1.1 68503 d.142.1.2 68504 d.142.1.2 68505 1c9kA 180 2.69e+00 1c9kB c.37.1.11 32363 2dtr 226 2.74e+00 1bi0 a.4.5.24 16193 a.76.1.1 18399 b.34.1.2 24450 1keeE 1073 2.77e+00 a.92.1.1 68508 c.24.1.1 68509 c.30.1.1 68510 c.30.1.1 68511 d.142.1.2 68512 d.142.1.2 68513 1a3aC 148 2.83e+00 1a3aA d.112.1.1 40919 1esmA 316 2.95e+00 1esmA c.37.1.6 31953 1c3wA 222 3.03e+00 1c3wA f.2.1.1 43405 1cleA 534 3.15e+00 1thg c.69.1.17 34771 1c3oA 1073 4.50e+00 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 1thg 544 4.68e+00 1thg c.69.1.17 34763 1a3aA 148 4.81e+00 1a3aA d.112.1.1 40917 1keeA 1073 4.89e+00 a.92.1.1 68492 c.24.1.1 68493 c.30.1.1 68494 c.30.1.1 68495 d.142.1.2 68496 d.142.1.2 68497 1h3nA 878 4.89e+00 1cz1A 394 5.97e+00 1cz1A c.1.8.3 28839 1jf9A 408 6.13e+00 1c0nA c.67.1.3 62931 1eqcA 394 6.14e+00 1cz1A c.1.8.3 28811 1f7tA 122 6.47e+00 1f7lA d.150.1.2 59667 1jnyA 435 6.79e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1bj7 156 7.07e+00 1bj7 b.60.1.1 27113 1a1s 314 7.10e+00 1othA c.78.1.1 35258 c.78.1.1 35259 1i19A 561 7.44e+00 1i19A d.58.32.3 61522 d.145.1.1 61523 1biqA 375 7.70e+00 1xikA a.25.1.2 16786 1hyeA 313 7.71e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1qlmA 316 7.96e+00 1qlmA d.147.1.1 41765 1h6zA 913 8.25e+00 1f7lA 121 8.32e+00 1f7lA d.150.1.2 59666 1sgpE 185 8.91e+00 1qq4A b.47.1.1 25816 1a9xA 1058 9.33e+00 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 1e6yC 247 9.55e+00 1mroC d.58.31.1 39441 1moq 368 9.72e+00 1moq c.80.1.1 35302 1fts 295 1.01e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1dp4A 435 1.08e+01 1dp4A c.93.1.1 35710 1e2o 233 1.12e+01 1eaf c.43.1.1 32631 1jyaA 130 1.13e+01 d.198.1.1 67453 1dceB 331 1.14e+01 1dceB a.102.4.3 18872 1adeA 431 1.15e+01 1adeA c.37.1.10 32213 1lfwA 470 1.15e+01 1ewkA 490 1.21e+01 1ewkA c.93.1.1 35712 1a6q 382 1.21e+01 1a6q d.158.1.1 42063 1de5A 426 1.25e+01 1de5A c.1.15.2 29402 2ifeA 100 1.27e+01 1tig d.68.1.1 39567 1c0nA 406 1.28e+01 1c0nA c.67.1.3 34433 1tdj 514 1.28e+01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1gntA 553 1.29e+01 1en7A 157 1.32e+01 1en7A a.140.4.1 64733 d.4.1.5 64734 3xis 387 1.39e+01 4xis c.1.15.3 29423 1hdmB 193 1.44e+01 1hdmB b.1.1.2 21584 d.19.1.1 38158 1sat 471 1.46e+01 1sat b.79.1.1 28014 d.92.1.6 40300 1agy 200 1.48e+01 1cex c.23.9.1 31286 1cch 82 1.49e+01 451c a.3.1.1 15902 1e2uA 553 1.50e+01 1e1dA e.26.1.1 43362 1keeG 1073 1.51e+01 a.92.1.1 68516 c.24.1.1 68517 c.30.1.1 68518 c.30.1.1 68519 d.142.1.2 68520 d.142.1.2 68521 1a99A 344 1.51e+01 1pot c.94.1.1 35812 1gnlA 544 1.52e+01 1bi0 226 1.53e+01 1bi0 a.4.5.24 16202 a.76.1.1 18408 b.34.1.2 24453 1dfaA 454 1.54e+01 1vdeA b.86.1.2 28375 d.95.2.2 40575 d.95.2.2 40576 1hizA 379 1.54e+01 c.1.8.3 65841 1e7lA 157 1.55e+01 1en7A a.140.4.1 64728 d.4.1.5 64729 1cus 200 1.57e+01 1cex c.23.9.1 31287 1xikA 375 1.57e+01 1xikA a.25.1.2 16784 1qd9A 124 1.58e+01 1qu9A d.79.1.1 39758 2pia 321 1.59e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1c3oC 1073 1.61e+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 1c3oG 1073 1.63e+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 1kk1A 410 1.66e+01 1bdg 451 1.72e+01 1qhaA c.55.1.3 33461 c.55.1.3 33462 1de6A 426 1.77e+01 1de5A c.1.15.2 29398 1d8wA 426 1.79e+01 1de5A c.1.15.2 29394 1cex 214 1.84e+01 1cex c.23.9.1 31285 2sgpE 185 1.88e+01 1qq4A b.47.1.1 25825 1qh8B 519 1.92e+01 1qguB c.92.2.3 35634 1bxrA 1073 1.99e+01 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 2pac 82 2.07e+01 451c a.3.1.1 15907 1l7yA 94 2.08e+01 1gylA 369 2.08e+01 1gox c.1.4.1 28610 1e9cA 215 2.12e+01 c.37.1.1 64808 1e9eA 215 2.14e+01 c.37.1.1 64810 1k0rA 366 2.14e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1cor 82 2.17e+01 451c a.3.1.1 15903 1e2fA 215 2.19e+01 3tmkA c.37.1.1 59164 1cbuA 180 2.20e+01 1c9kB c.37.1.11 32360 1i4nA 251 2.21e+01 1d3uB 201 2.23e+01 1aisB a.74.1.2 18386 a.74.1.2 18387 1h2vZ 156 2.23e+01 1pd21 199 2.24e+01 1pd21 1dmuA 299 2.26e+01 1dmuA c.52.1.4 33294 1igs 248 2.26e+01 1a53 c.1.2.4 28565 1jeoA 180 2.28e+01 c.80.1.3 66611 1dkgB 197 2.34e+01 1dkgA b.73.1.1 27813 h.1.9.1 45627 1mhyD 521 2.44e+01 1mhyD a.25.1.2 16780 1e2gA 215 2.44e+01 3tmkA c.37.1.1 59165 1ltqA 301 2.49e+01 2hnp 321 2.50e+01 1pty c.45.1.2 32678 1eucB 396 2.51e+01 2scuB c.23.4.1 31149 d.142.1.4 41570 1eudB 396 2.51e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1jqcA 375 2.54e+01 1xikA a.25.1.2 63229 2minB 522 2.60e+01 1qguB c.92.2.3 35610 1cg2A 393 2.61e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1eudA 311 2.63e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1cs0C 1073 2.66e+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 1ede 310 2.72e+01 1b6g c.69.1.8 34662 1vaoA 560 2.75e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1aua 296 2.83e+01 1aua a.5.3.1 16290 c.13.1.1 30882 1b35A 260 2.90e+01 1b35A b.10.1.3 23333 4xiaA 393 2.90e+01 4xis c.1.15.3 29439 1innA 166 2.91e+01 1j98A d.185.1.2 62608 1imjA 210 2.95e+01 1aurA 218 2.95e+01 1auoA c.69.1.14 34718 1b9lA 120 2.96e+01 1b9lA d.96.1.3 40665 2tmkA 216 2.96e+01 3tmkA c.37.1.1 31928 1ribA 375 2.97e+01 1xikA a.25.1.2 16788 1eucA 311 3.02e+01 2scuA c.2.1.8 30311 c.23.4.1 31139 1i7dA 659 3.04e+01 1d6mA e.10.1.1 61886 1gox 370 3.11e+01 1gox c.1.4.1 28607 1cb7B 483 3.14e+01 1cb7B c.1.19.2 29648 1xis 387 3.17e+01 4xis c.1.15.3 29422 2xis 387 3.17e+01 4xis c.1.15.3 29427 1jdbB 1073 3.23e+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 1svy 114 3.32e+01 1svy d.109.1.1 40831 1fa0A 537 3.35e+01 1fa0B d.58.16.1 39335 e.9.1.2 43229 1gca 309 3.37e+01 1gca c.93.1.1 35659 3minB 522 3.41e+01 1qguB c.92.2.3 35606 4xis 387 3.47e+01 4xis c.1.15.3 29421 1b6g 310 3.54e+01 1b6g c.69.1.8 34661 1qf5A 431 3.59e+01 1adeA c.37.1.10 32212 1dg3A 592 3.60e+01 1dg3A a.114.1.1 19078 c.37.1.8 32153 1l0bA 229 3.61e+01 1hqsA 423 3.64e+01 1iso c.77.1.1 61154 1e5xA 486 3.64e+01 c.79.1.1 59283 1csmA 256 3.66e+01 5csmA a.130.1.2 19495 1ccwB 483 3.66e+01 1cb7B c.1.19.2 29646 1aky 221 3.70e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1bh6A 274 3.70e+01 1gci c.41.1.1 32487 1dzkA 157 3.75e+01 1obpA b.60.1.1 27096 1auoA 218 3.79e+01 1auoA c.69.1.14 34716 1sqc 631 3.81e+01 2sqcA a.102.4.2 18858 a.102.4.2 18859 1a3yA 149 3.83e+01 1obpA b.60.1.1 27110 1i45A 248 3.86e+01 1amk c.1.1.1 61665 1k7gA 479 3.87e+01 1juk 248 3.97e+01 1a53 c.1.2.4 28567 1cfr 285 3.98e+01 1cfr c.52.1.7 33312