# 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 1ha3A 405 2.86e-29 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1exmA 405 3.29e-29 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1aipE 405 5.51e-29 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1efcA 393 2.52e-27 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1jnyA 435 6.00e-27 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1f60A 458 1.04e-25 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1d2eA 397 1.88e-25 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1kk1A 410 9.11e-12 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1s0uA 408 1.55e-09 1n0uA 842 1.36e-05 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1g7rA 594 3.65e-05 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1g7tA 594 4.99e-05 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1g7sA 594 5.08e-05 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1d1nA 99 7.20e-05 1d1nA b.43.3.1 25718 1fnmA 691 8.21e-02 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1dar 691 1.78e-01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1irp 153 2.00e-01 1irp b.42.1.2 25559 1po0A 751 2.19e-01 1kmoA 774 2.55e-01 f.4.3.3 72753 2fcpA 723 3.50e-01 1by5A f.4.3.3 43802 1bzyA 217 4.04e-01 1qk3A c.61.1.1 34071 1qfgA 725 4.89e-01 1by5A f.4.3.3 43803 1by3A 714 7.51e-01 1by5A f.4.3.3 43801 1by5A 714 8.84e-01 1by5A f.4.3.3 43800 1fsgA 233 9.84e-01 1qk3A c.61.1.1 34029 1qk3A 233 1.31e+00 1qk3A c.61.1.1 34031 1qk4A 233 1.47e+00 1qk3A c.61.1.1 34037 1mq7A 154 1.83e+00 b.85.4.1 79404 1etu 394 2.11e+00 1efcA c.37.1.8 64737 1sixA 174 2.32e+00 1g3p 217 2.40e+00 1g3p b.37.1.1 24788 b.37.1.1 24789 1qcxA 359 2.44e+00 1qcxA b.80.1.2 28028 8prn 289 2.47e+00 3prn f.4.3.1 43767 1vjnA 220 2.48e+00 1j1tA 233 2.79e+00 1jp4A 308 3.03e+00 1jp4A e.7.1.1 63223 3prn 289 3.56e+00 3prn f.4.3.1 43761 1bh3 289 3.56e+00 3prn f.4.3.1 43766 1prn 289 3.57e+00 3prn f.4.3.1 43762 1bb9 115 3.64e+00 1bb9 b.34.2.1 24554 1h6yA 170 3.64e+00 b.18.1.7 70904 1bkb 136 3.68e+00 1bkb b.34.5.2 24609 b.40.4.5 25341 1g2aA 168 4.24e+00 d.167.1.1 65109 1cjbA 231 4.37e+00 1qk3A c.61.1.1 34079 1n7fA 97 4.41e+00 1iknA 286 4.49e+00 1a3qA b.1.18.1 21936 b.2.5.3 22449 1ah6 220 5.20e+00 1yer d.122.1.1 41094 1bsjA 168 5.21e+00 1bs4A d.167.1.1 42302 1iraX 152 5.49e+00 1irp b.42.1.2 25556 1pmy 123 5.76e+00 1bqk b.6.1.1 22888 1cyu 98 5.97e+00 1stfI d.17.1.2 38004 1def 147 5.99e+00 1bs4A d.167.1.1 42306 1sro 76 6.06e+00 1sro b.40.4.5 25327 1bs4A 168 6.27e+00 1bs4A d.167.1.1 42287 1k0hA 117 6.28e+00 b.106.1.2 71975 1icjA 168 6.63e+00 1bs4A d.167.1.1 42284 1ilr1 152 6.67e+00 1irp 1jhfA 202 6.73e+00 a.4.5.2 63057 b.87.1.1 63058 1c3hA 137 6.78e+00 1n7eA 97 6.93e+00 1dlc 584 7.46e+00 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1go3E 187 7.91e+00 b.40.4.5 83054 d.230.1.1 83055 1hmpA 217 8.80e+00 1qk3A c.61.1.1 34075 1pm4A 119 9.51e+00 1kn9A 249 9.71e+00 b.87.1.2 68699 1nfiC 301 9.90e+00 b.1.18.1 21943 b.2.5.3 22456 1idk 359 9.98e+00 1qcxA b.80.1.2 28025 1nfiA 301 1.02e+01 1a3qA b.1.18.1 21942 b.2.5.3 22455 1lp8A 254 1.02e+01 1ewkA 490 1.03e+01 1ewkA c.93.1.1 35712 1ig0A 319 1.03e+01 1ig0A b.82.6.1 62354 c.100.1.1 62355 1ten 90 1.06e+01 1ten b.1.2.1 21990 1m56B 264 1.06e+01 b.6.1.2 74472 f.17.2.1 74473 1g0xA 197 1.30e+01 1nkr b.1.1.4 21805 b.1.1.4 21806 1b7yB 785 1.30e+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 1g8lA 411 1.31e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1b12A 248 1.39e+01 1b12A b.87.1.2 28388 1vkxA 273 1.39e+01 1a3qA b.1.18.1 21941 b.2.5.3 22454 1js8A 394 1.40e+01 a.86.1.1 67219 b.112.1.1 67220 1j7lA 264 1.43e+01 d.144.1.6 62697 1umwA 237 1.53e+01 1lshA 1056 1.53e+01 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1lxtA 561 1.67e+01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1a78A 134 1.87e+01 1c1lA b.29.1.3 24212 1pkoA 139 1.92e+01 b.1.1.1 88147 1qniA 581 1.98e+01 1qniA b.6.1.4 23042 b.69.3.1 27642 1jj2K 164 2.00e+01 1ffkJ c.12.1.1 63096 1npuA 117 2.02e+01 1rds 105 2.08e+01 9rnt d.1.1.4 36236 1fiwA 290 2.20e+01 5ptp 1fl7B 111 2.25e+01 1hcnB g.17.1.4 59872 1bv4A 118 2.31e+01 1rtm1 d.169.1.1 42380 1gztA 115 2.40e+01 b.115.1.1 76428 1fwyA 331 2.40e+01 1fwyA b.81.1.4 28064 c.68.1.5 34522 1h8eA 510 2.55e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1nb9A 147 2.59e+01 b.43.5.1 85515 1j7iA 264 2.64e+01 1j7iA d.144.1.6 62694 1ixlA 131 2.89e+01 1qwyA 291 2.89e+01 1bmfA 510 2.93e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1ga1A 372 2.94e+01 1ga1A c.41.1.2 32557 1ga6A 372 3.00e+01 1ga1A c.41.1.2 32556 3pmgA 561 3.01e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1oi1A 221 3.06e+01 b.34.9.3 87037 b.34.9.3 87038 1fr3A 67 3.16e+01 1fr3A b.40.6.1 25436 1oxcA 114 3.23e+01 1gvhA 396 3.38e+01 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1ni9A 338 3.39e+01 e.7.1.2 85739 1nb5I 98 3.40e+01 d.17.1.2 80381 1amx 180 3.40e+01 1amx b.2.3.1 22410 4tsvA 150 3.45e+01 2tnfA b.22.1.1 23860 1lxa 262 3.46e+01 1lxa b.81.1.1 28052 1awd 94 3.48e+01 1awd d.15.4.1 37673 1earA 147 3.52e+01 b.107.1.1 64875 d.58.38.1 64876 1eb0A 147 3.53e+01 b.107.1.1 64890 d.58.38.1 64891 1a26 361 3.74e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1v74A 107 3.77e+01 3hhrB 203 3.84e+01 1axiB b.1.2.1 22005 b.1.2.1 22006 1kzlA 208 3.84e+01 b.43.4.3 77635 b.43.4.3 77636 1rdj1 113 3.86e+01 1rtm1 1rdo1 113 3.86e+01 1rtm1 1fwcB 106 3.92e+01 1ubpB b.85.3.1 28324 2kauB 106 3.92e+01 1ubpB b.85.3.1 28328 1vppV 102 3.99e+01 1vpfA g.17.1.1 44753 1nqzA 194 3.99e+01 d.113.1.1 86077