# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1erjA 393 1.19e-25 1erjA b.69.4.1 27660 1gotB 340 9.09e-25 1tbgA b.69.4.1 27648 1tbgA 340 1.17e-24 1tbgA b.69.4.1 27649 1gxrA 337 6.06e-19 1k8kC 372 2.66e-14 b.69.4.1 68308 1crzA 403 1.03e-06 1crzA b.68.4.1 27629 c.51.2.1 33211 1c5kA 439 1.37e-06 1crzA b.68.4.1 27630 c.51.2.1 33212 1aomA 567 1.79e-05 1qksA b.70.2.1 27694 1aoqA 567 2.63e-05 1qksA a.3.1.2 15934 b.70.2.1 27692 1k32A 1045 3.16e-05 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1qksA 567 5.33e-05 1qksA a.3.1.2 15951 b.70.2.1 27710 1jjuB 337 7.33e-05 b.69.2.2 66779 1jofA 365 5.59e-04 1jmxB 349 1.79e-03 b.69.2.2 66906 1kb0A 677 1.15e-02 a.3.1.6 68378 b.70.1.1 68379 1e1aA 314 1.38e-02 1e1aA b.68.6.1 59155 4aahA 571 2.44e-02 4aahA b.70.1.1 27678 1g72A 573 2.49e-02 4aahA b.70.1.1 27680 1qbiA 454 2.61e-02 1c9uA b.68.2.1 27619 1c9uA 454 3.08e-02 1c9uA b.68.2.1 27623 2bbkH 355 4.09e-02 2bbkH b.69.2.1 27634 1kv9A 668 4.23e-02 1cruA 454 4.71e-02 1c9uA b.68.2.1 27617 1k3iA 656 4.99e-02 b.1.1.5 68113 b.18.1.1 68114 b.69.1.1 68115 1goh 639 6.14e-02 1gof b.1.1.5 21809 b.18.1.1 23711 b.69.1.1 27633 1gof 639 6.27e-02 1gof b.1.1.5 21807 b.18.1.1 23709 b.69.1.1 27631 1dfcA 493 1.17e-01 1dfcA b.42.5.1 25616 b.42.5.1 25617 b.42.5.1 25618 b.42.5.1 25619 1a12A 413 1.53e-01 1a12A b.69.5.1 27663 2sil 381 1.66e-01 3sil b.68.1.1 27543 3sil 379 1.67e-01 3sil b.68.1.1 27542 1lenA 181 1.90e-01 1led b.29.1.1 24032 1dim 381 1.96e-01 3sil b.68.1.1 27544 1qfmA 710 2.04e-01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1e8nA 710 2.26e-01 1qfmA b.69.7.1 27675 c.69.1.4 34643 1ijqA 316 2.91e-01 1ijqA b.68.5.1 62506 g.3.11.1 62507 2aaiB 262 3.01e-01 1abrB b.42.2.1 25561 b.42.2.1 25562 2ltnA 181 4.06e-01 1led b.29.1.1 24024 1bpoA 494 7.44e-01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1wba 175 8.49e-01 1wba b.42.4.1 25591 1b6e 128 9.15e-01 1b6e d.169.1.1 42326 1lkfA 299 9.80e-01 1pvl f.6.1.1 43821 5nn9 388 1.26e+00 2qwc b.68.1.1 27563 1eur 365 1.33e+00 1eut b.68.1.1 27607 1f8eA 388 1.44e+00 2qwc b.68.1.1 59694 3nn9 388 1.46e+00 2qwc b.68.1.1 27566 1qba 858 1.55e+00 1qba b.1.1.5 21810 b.2.2.3 22406 c.1.8.6 29009 d.92.2.1 40408 1yaiA 151 1.62e+00 1yaiA b.1.8.1 22289 2qwc 388 1.70e+00 2qwc b.68.1.1 27547 1gnyA 153 2.06e+00 b.18.1.11 65404 1at0 145 2.41e+00 1at0 b.86.1.1 28374 1c7sA 858 2.42e+00 1qba b.1.1.5 21812 b.2.2.3 22408 c.1.8.6 29011 d.92.2.1 40410 1ospO 257 2.95e+00 1ospO b.76.1.1 27971 1pvl 301 3.03e+00 1pvl f.6.1.1 43819 1ilr1 152 3.56e+00 1irp 1abrB 267 3.68e+00 1abrB b.42.2.1 25563 b.42.2.1 25564 1qniA 581 4.16e+00 1qniA b.6.1.4 23042 b.69.3.1 27642 1irp 153 4.72e+00 1irp b.42.1.2 25559 1h8eA 510 4.99e+00 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1jlyA 304 5.46e+00 1jlyA b.42.3.1 25587 b.42.3.1 25588 2sli 679 5.48e+00 2sli b.29.1.9 24274 b.68.1.1 27611 4sli 679 5.48e+00 2sli b.29.1.9 24275 b.68.1.1 27612 1kit 757 5.51e+00 1kit b.29.1.8 24272 b.29.1.8 24273 b.68.1.1 27616 1mrg 263 5.71e+00 1mrj d.165.1.1 42183 1jlxA 304 6.17e+00 1jlyA b.42.3.1 25583 b.42.3.1 25584 1fnhA 271 6.23e+00 1fnhA b.1.2.1 21976 b.1.2.1 21977 b.1.2.1 21978 1ksiA 642 6.37e+00 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1e79A 510 6.47e+00 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1bmfA 510 6.89e+00 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1ksiB 642 7.22e+00 1ksiB b.30.2.1 24409 d.17.2.1 38045 d.17.2.1 38046 1fwxA 595 7.66e+00 b.6.1.4 60069 b.69.3.1 60070 1aj6 219 7.71e+00 1aj6 d.122.1.2 41106 1qexA 288 8.20e+00 1qexA b.32.1.1 24425 2snv 151 8.29e+00 1svpA b.47.1.3 26394 1hxs3 237 8.41e+00 1h6lA 353 8.85e+00 b.68.3.1 60687 1d0nA 729 9.21e+00 1d0nA d.109.1.1 40834 d.109.1.1 40835 d.109.1.1 40836 d.109.1.1 40837 d.109.1.1 40838 d.109.1.1 40839 1qhoA 686 9.33e+00 1cxlA b.1.1.5 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1ijtA 128 9.48e+00 1bfg b.42.1.1 62510 1jj2A 239 9.98e+00 1rl2A b.34.5.3 63084 b.40.4.5 63085 1ft9A 222 1.06e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1yna 194 1.11e+01 1axkA b.29.1.11 24335 2pooA 355 1.14e+01 1qlgA b.68.3.1 27626 1zxq 192 1.25e+01 1zxq b.1.1.3 21657 b.1.1.4 21693 2hft 218 1.28e+01 1boy b.1.2.1 21951 b.1.2.1 21952 1qcsA 211 1.30e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1iq8A 582 1.34e+01 1xnb 185 1.39e+01 1axkA b.29.1.11 24308 1rypI 222 1.40e+01 d.153.1.4 41877 1iraX 152 1.41e+01 1irp b.42.1.2 25556 1g24A 211 1.45e+01 1g24A d.166.1.1 42270 1ax0 239 1.51e+01 1led b.29.1.1 24042 2mllB 255 1.52e+01 1abrB b.42.2.1 25567 b.42.2.1 25568 1je6A 275 1.57e+01 1cknA 330 1.62e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1cvmA 353 1.65e+01 1qlgA b.68.3.1 27628 1rmg 422 1.69e+01 1rmg b.80.1.3 28029 1gcyA 527 1.70e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1hms 132 1.71e+01 1hmt b.60.1.2 27168 1hmr 132 1.71e+01 1hmt b.60.1.2 27170 1hmt 132 1.72e+01 1hmt b.60.1.2 27169 1ee8A 266 1.76e+01 1ee8A e.14.1.1 43261 1tl2A 236 1.77e+01 1tl2A b.67.1.1 27541 1svpA 161 1.81e+01 1svpA b.47.1.3 26384 1dlc 584 1.83e+01 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1epwA 1290 1.83e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 2nlrA 234 1.85e+01 2nlrA b.29.1.11 24344 1dceA 567 1.97e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1ckmA 330 2.00e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1nlr 234 2.02e+01 2nlrA b.29.1.11 24345 1b7yB 785 2.04e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1pvxA 194 2.10e+01 1axkA b.29.1.11 24341 1fnf 368 2.18e+01 1fnf b.1.2.1 21972 b.1.2.1 21973 b.1.2.1 21974 b.1.2.1 21975 1f89A 291 2.22e+01 d.160.1.1 64988 1g4mA 393 2.33e+01 b.1.1.5 65143 b.1.1.5 65144 1dq3A 454 2.37e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1k4nA 192 2.39e+01 1dzkA 157 2.39e+01 1obpA b.60.1.1 27096 1bev1 281 2.47e+01 1aym1 1iam 185 2.53e+01 1zxq b.1.1.3 21653 b.1.1.4 21689 1a3yA 149 2.64e+01 1obpA b.60.1.1 27110 1lnrI 134 2.74e+01 1qlgA 355 2.85e+01 1qlgA b.68.3.1 27627 1ga1A 372 2.91e+01 1ga1A c.41.1.2 32557 1ga6A 372 2.98e+01 1ga1A c.41.1.2 32556 1i31A 314 2.98e+01 1bw8A b.2.7.1 22481 1rypH 205 3.00e+01 d.153.1.4 41876 1eut 605 3.05e+01 1eut b.1.1.5 21891 b.18.1.1 23712 b.68.1.1 27609 1euu 605 3.23e+01 1eut b.1.1.5 21892 b.18.1.1 23713 b.68.1.1 27610 1pysB 785 3.28e+01 1pysB a.6.1.1 16299 a.6.1.1 16300 b.40.4.4 25311 d.58.13.1 39310 d.104.1.1 40779 d.138.1.1 41455 1svb 395 3.30e+01 1svb b.1.1.5 21814 f.10.1.1 43827 1l9xA 315 3.30e+01 1i82A 189 3.33e+01 1i82A b.1.9.2 61937 1i8aA 189 3.33e+01 1i82A b.1.9.2 61951 1dgaA 375 3.39e+01 1yagA c.55.1.1 33441 c.55.1.1 33442 1g3gA 164 3.42e+01 1g6gA b.26.1.2 23918 1bj4A 470 3.46e+01 1bj4A c.67.1.4 34479 1hdhA 536 3.46e+01 c.76.1.2 65805 1aun 208 3.51e+01 1thv b.25.1.1 23900 1dmhA 311 3.58e+01 1dmhA b.3.6.1 22633 1sltA 134 3.68e+01 1c1lA b.29.1.3 24186 1rypK 198 3.69e+01 d.153.1.4 41879 1sltB 134 3.76e+01 1c1lA b.29.1.3 24187 1xyn 178 3.79e+01 1axkA b.29.1.11 24322 1f5mB 180 3.81e+01 1f5mB d.110.2.1 40896 1f5mA 180 3.81e+01 1f5mB d.110.2.1 40895 1lo7A 141 3.86e+01 1httA 423 3.92e+01 1adjA c.51.1.1 33178 d.104.1.1 40727 1bvqA 141 3.93e+01 1bvqA d.38.1.1 38542 1b2pA 119 3.96e+01 1b2pA b.78.1.1 27998 1bkb 136 3.99e+01 1bkb b.34.5.2 24609 b.40.4.5 25341