# 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 1nf2A 268 3.14e-01 c.108.1.10 -6842 1mrzA 293 4.94e-01 b.43.5.1 -4048 c.26.1.3 -6616 1cd8 114 2.44e+00 1cd8 b.1.1.1 19714 1bqhG 129 2.53e+00 1cd8 b.1.1.1 19715 1qgmA 30 3.70e+00 g.3.16.1 44380 1iyxA 432 3.70e+00 c.1.11.1 83815 d.54.1.1 83816 1vizA 240 3.77e+00 c.1.4.1 -5212 1liiA 363 3.80e+00 c.72.1.1 73921 1lfpA 249 3.95e+00 e.39.1.1 73885 1dgmA 363 4.60e+00 1bx4A c.72.1.1 34936 1prgA 270 4.71e+00 2prgA a.123.1.1 19314 1okrA 123 4.93e+00 unknown_sccs -235 1gn0A 108 5.00e+00 c.46.1.3 65358 1i8xA 30 5.03e+00 g.3.16.1 71132 1nezG 128 5.24e+00 b.1.1.1 85592 1gmxA 108 5.28e+00 c.46.1.3 65355 1fm9D 272 5.29e+00 2prgA a.123.1.1 19313 1rvgA 305 5.76e+00 c.1.10.2 -5500 1cc8A 73 6.09e+00 1cc8A d.58.17.1 39343 5ptp 223 6.45e+00 5ptp b.47.1.2 25831 1akeA 214 6.60e+00 1zin c.37.1.1 31905 g.41.2.1 45185 1qftA 175 6.84e+00 1qftA b.60.1.1 27151 2prgA 271 6.95e+00 2prgA a.123.1.1 19311 1hj9A 226 6.97e+00 b.47.1.2 65845 1ju5A 109 7.79e+00 d.93.1.1 77173 7reqB 637 8.10e+00 1reqB c.1.19.1 29617 c.23.6.1 31244 1qpsA 261 8.21e+00 1ckqA c.52.1.1 33234 1odkA 235 8.54e+00 c.56.2.1 86863 1se0A 116 9.20e+00 g.52.1.1 -12841 1xyzA 347 9.30e+00 1taxA c.1.8.3 28804 1g73C 121 9.81e+00 1g3fA g.52.1.1 45375 1fd8A 73 1.00e+01 1cc8A d.58.17.1 59770 1f2aA 215 1.01e+01 1cs8A d.3.1.1 37040 1lrrA 131 1.08e+01 d.228.1.1 78165 1aim 215 1.14e+01 1cs8A d.3.1.1 37044 1ab9C 97 1.18e+01 5ptp 1qavA 90 1.22e+01 1qauA b.36.1.1 24777 1gg6C 97 1.23e+01 5ptp 1ica 40 1.26e+01 1ica g.3.7.4 44173 1geqA 248 1.30e+01 2tysA c.1.2.4 28589 1reqB 637 1.36e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1mtnC 97 1.49e+01 5ptp 2cblA 305 1.52e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1ygs 234 1.61e+01 1ygs b.26.1.1 23907 1b47A 304 1.68e+01 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1nkoA 132 1.69e+01 b.1.1.1 85829 1nbaA 264 1.74e+01 1nbaA unknown_sccs 31753 1i60A 278 1.77e+01 c.1.15.4 71118 1f3uB 171 1.79e+01 1f3uB b.65.1.1 27525 1m7sA 484 1.87e+01 e.5.1.1 74574 1o7sA 127 1.87e+01 b.1.1.1 86644 1qwgA 251 1.94e+01 unknown_sccs -5678 1ov3A 138 2.22e+01 b.34.2.1 87451 b.34.2.1 87452 1v2dA 381 2.29e+01 1jj7A 260 2.30e+01 c.37.1.12 63114 1oi7A 288 2.33e+01 c.2.1.8 87049 c.23.4.1 87050 2wsyA 268 2.34e+01 2tysA c.1.2.4 28588 1cjaA 342 2.51e+01 1cjaA d.144.1.3 41708 1fu1A 203 2.54e+01 1fu1B b.59.1.1 27076 h.1.11.1 45630 1omhA 293 2.56e+01 unknown_sccs -10527 1fu1B 203 2.62e+01 1fu1B b.59.1.1 27077 h.1.11.1 45631 1g3fA 117 2.63e+01 1g3fA g.52.1.1 45378 1ng2A 193 2.77e+01 b.34.2.1 85660 b.34.2.1 85661 1eudB 396 2.77e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1qapA 296 2.79e+01 1qpoA c.1.17.1 29559 d.41.2.1 38595 1jj2Y 73 2.83e+01 1ffkW g.41.8.1 63110 1v95A 130 2.88e+01 1reqD 637 2.90e+01 1reqB c.1.19.1 29623 c.23.6.1 31250 1tiiD 99 2.91e+01 1tiiD b.40.2.1 24965 1tqnA 486 2.94e+01 1qb5D 99 2.95e+01 b.40.2.1 88357 1ik9A 213 2.96e+01 b.59.1.1 66176 h.1.11.1 66177 1pkn 530 3.01e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1eucB 396 3.08e+01 2scuB c.23.4.1 31149 d.142.1.4 41570 1oywA 523 3.09e+01 unknown_sccs -270 c.37.1.19 -7209 c.37.1.19 -7210 1k6wA 426 3.09e+01 b.92.1.2 68236 c.1.9.5 68237 1ohfA 644 3.14e+01 unknown_sccs -3012 1m2dA 110 3.18e+01 c.47.1.11 78476 1m2aA 110 3.20e+01 c.47.1.11 78472 1jakA 512 3.22e+01 c.1.8.6 66472 d.92.2.1 66473 1f37A 110 3.24e+01 1f37A c.47.1.11 33088 1bncA 449 3.27e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1k3pA 426 3.27e+01 a.103.1.1 77237 1mgrA 99 3.31e+01 d.1.1.2 79106 1hp4A 512 3.38e+01 1hp4A c.1.8.6 61111 d.92.2.1 61112 1me4A 215 3.39e+01 d.3.1.1 79023 1ti6B 274 3.40e+01 1hp5A 512 3.40e+01 1hp4A c.1.8.6 61113 d.92.2.1 61114 5croA 66 3.42e+01 1orc a.35.1.2 17044 1me3A 215 3.43e+01 d.3.1.1 79022 1qv9A 283 3.46e+01 unknown_sccs -6888 1owcA 427 3.61e+01 2occB 227 3.62e+01 2occB b.6.1.2 23027 f.17.2.1 43519 1cf9A 753 3.65e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1p80A 753 3.69e+01 c.23.16.3 -6547 e.5.1.1 -11840 1h77A 605 3.86e+01 1o6aA 96 3.86e+01 unknown_sccs -4101 1k7jA 206 3.95e+01 d.115.1.1 72103