# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1exmA 405 1.67e-22 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1ha3A 405 2.16e-22 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1aipE 405 3.52e-22 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1efcA 393 3.07e-21 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1jnyA 435 4.92e-21 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1f60A 458 2.53e-20 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1d2eA 397 6.44e-20 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1kk1A 410 1.90e-10 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1s0uA 408 3.52e-08 1n0uA 842 5.26e-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 9.19e-05 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1g7sA 594 1.03e-04 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1g7tA 594 1.39e-04 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1d1nA 99 3.31e-04 1d1nA b.43.3.1 25718 1dar 691 1.16e-01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1fnmA 691 1.21e-01 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 1qfgA 725 4.94e-01 1by5A f.4.3.3 43803 1sixA 174 5.45e-01 1pmy 123 5.64e-01 1bqk b.6.1.1 22888 1po0A 751 6.15e-01 1bzyA 217 8.93e-01 1qk3A c.61.1.1 34071 1kmoA 774 9.22e-01 f.4.3.3 72753 1fsgA 233 9.54e-01 1qk3A c.61.1.1 34029 1qk3A 233 1.01e+00 1qk3A c.61.1.1 34031 1mq7A 154 1.08e+00 b.85.4.1 79404 1qk4A 233 1.11e+00 1qk3A c.61.1.1 34037 1oi1A 221 1.13e+00 b.34.9.3 87037 b.34.9.3 87038 1h6yA 170 1.22e+00 b.18.1.7 70904 1jp4A 308 1.26e+00 1jp4A e.7.1.1 63223 1b7yB 785 1.98e+00 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 1soxA 466 2.33e+00 1soxA b.1.18.6 21947 d.120.1.1 41090 d.176.1.1 42563 1kn9A 249 2.45e+00 b.87.1.2 68699 1e79A 510 2.61e+00 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1h8eA 510 2.71e+00 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1bmfA 510 2.72e+00 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1etu 394 2.91e+00 1efcA c.37.1.8 64737 1b12A 248 3.03e+00 1b12A b.87.1.2 28388 1m56B 264 3.17e+00 b.6.1.2 74472 f.17.2.1 74473 1im3D 95 3.41e+00 1im3D b.1.18.5 62568 1kzlA 208 3.86e+00 b.43.4.3 77635 b.43.4.3 77636 1gztA 115 3.91e+00 b.115.1.1 76428 1r0pA 312 4.05e+00 2fcpA 723 4.95e+00 1by5A f.4.3.3 43802 1irp 153 5.11e+00 1irp b.42.1.2 25559 1oxcA 114 5.20e+00 1ofdA 1520 5.23e+00 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1pkoA 139 5.30e+00 b.1.1.1 88147 1c3hA 137 5.87e+00 1cjbA 231 6.33e+00 1qk3A c.61.1.1 34079 1bkb 136 6.45e+00 1bkb b.34.5.2 24609 b.40.4.5 25341 1eiyB 785 6.49e+00 1pysB a.6.1.1 16305 a.6.1.1 16306 b.40.4.4 25314 d.58.13.1 39313 d.104.1.1 40782 d.138.1.1 41458 1skyB 502 6.63e+00 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1by3A 714 6.89e+00 1by5A f.4.3.3 43801 1bb9 115 7.14e+00 1bb9 b.34.2.1 24554 1g0xA 197 8.45e+00 1nkr b.1.1.4 21805 b.1.1.4 21806 1uebA 184 8.65e+00 1cyu 98 8.83e+00 1stfI d.17.1.2 38004 1lxa 262 9.14e+00 1lxa b.81.1.1 28052 1j1tA 233 9.34e+00 1ten 90 1.00e+01 1ten b.1.2.1 21990 1nb5I 98 1.02e+01 d.17.1.2 80381 1vhzA 198 1.05e+01 1b0uA 262 1.07e+01 1b0uA c.37.1.12 32370 1nqzA 194 1.08e+01 d.113.1.1 86077 1pm4A 119 1.30e+01 1mhnA 59 1.32e+01 b.34.9.1 84964 1krhA 338 1.33e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 2rhe 114 1.34e+01 8fabA b.1.1.1 20523 1i21A 159 1.35e+01 1i21A d.108.1.1 61549 1llwA 1520 1.35e+01 b.80.4.1 74017 c.1.4.1 74018 d.153.1.1 74019 1hmpA 217 1.37e+01 1qk3A c.61.1.1 34075 1uz5A 402 1.39e+01 1i12A 160 1.42e+01 1i21A d.108.1.1 61515 1k0hA 117 1.42e+01 b.106.1.2 71975 1gvhA 396 1.47e+01 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1ilr1 152 1.55e+01 1irp 1gnhA 206 1.62e+01 1sacA b.29.1.5 24252 1pysB 785 1.62e+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 1ga1A 372 1.64e+01 1ga1A c.41.1.2 32557 1fwcB 106 1.64e+01 1ubpB b.85.3.1 28324 2kauB 106 1.64e+01 1ubpB b.85.3.1 28328 1nb9A 147 1.72e+01 b.43.5.1 85515 1dlc 584 1.72e+01 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1bdo 80 1.74e+01 1bdo b.84.1.1 28214 1earA 147 1.78e+01 b.107.1.1 64875 d.58.38.1 64876 1i8tA 367 1.81e+01 c.4.1.3 66094 d.16.1.7 66095 2sfa 191 1.82e+01 1qq4A b.47.1.1 25815 1fmaE 150 1.87e+01 1fmaE d.41.5.1 38630 1fm0E 150 1.87e+01 1fmaE d.41.5.1 38629 1mgtA 174 1.93e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1ga6A 372 1.94e+01 1ga1A c.41.1.2 32556 1ah6 220 1.94e+01 1yer d.122.1.1 41094 1qwyA 291 1.96e+01 1ejeA 192 1.96e+01 1ejeA b.45.1.2 25757 5ldh 334 2.03e+01 3ldh c.2.1.5 30158 d.162.1.1 42125 1ui0A 205 2.04e+01 1by5A 714 2.06e+01 1by5A f.4.3.3 43800 1j7lA 264 2.13e+01 d.144.1.6 62697 1j7iA 264 2.20e+01 1j7iA d.144.1.6 62694 1poiA 317 2.25e+01 1poiA c.63.1.2 34153 1g3p 217 2.36e+01 1g3p b.37.1.1 24788 b.37.1.1 24789 1iraX 152 2.48e+01 1irp b.42.1.2 25556 1kobA 387 2.53e+01 1tkiA d.144.1.7 41640 1g8lA 411 2.55e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1a78A 134 2.62e+01 1c1lA b.29.1.3 24212 1gc0A 398 2.68e+01 c.67.1.3 70168 1qi7A 253 2.68e+01 1qi7A d.165.1.1 42210 1qtfA 246 2.71e+01 1agjA b.47.1.1 25830 1bjt 793 2.76e+01 1bjt e.11.1.1 43249 1ejxB 101 2.85e+01 b.85.3.1 83183 1ejrB 101 2.87e+01 1ubpB b.85.3.1 28320 1paz 123 2.88e+01 1bqk b.6.1.1 22878 1fiwA 290 2.91e+01 5ptp 1dyoA 160 2.95e+01 1dyoA b.18.1.7 23771 1hlcA 129 2.99e+01 1c1lA b.29.1.3 24208 1bw0A 416 3.03e+01 1bw0A c.67.1.1 34385 1mkyA 439 3.05e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1h0hA 977 3.09e+01 b.52.2.2 76435 c.81.1.1 76436 1uedA 406 3.10e+01 1ordA 730 3.16e+01 1ordA c.23.1.4 31274 c.67.1.5 34503 d.125.1.1 41124 1j5qA 437 3.16e+01 b.121.2.3 77084 b.121.2.3 77085 1lp8A 254 3.24e+01 1oruA 195 3.26e+01 1bglA 1023 3.26e+01 1bglA b.1.4.1 22097 b.1.4.1 22098 b.18.1.5 23734 b.30.5.1 24358 c.1.8.3 28857 1ewkA 490 3.35e+01 1ewkA c.93.1.1 35712 1cjcA 460 3.38e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 1rtfB 252 3.48e+01 5ptp 1dmhA 311 3.52e+01 1dmhA b.3.6.1 22633 1sat 471 3.57e+01 1sat b.79.1.1 28014 d.92.1.6 40300 1npuA 117 3.58e+01 1l6oA 95 3.61e+01 b.36.1.1 84534 1c28A 135 3.63e+01 1c28A b.22.1.1 23857 2eifA 136 3.64e+01 1bkb b.34.5.2 24607 b.40.4.5 25339 1fa4A 105 3.65e+01 1plc b.6.1.1 22867 1o91A 178 3.70e+01 1jj2A 239 3.75e+01 1rl2A b.34.5.3 63084 b.40.4.5 63085 1g5vA 88 3.81e+01 1g5vA b.34.9.1 60292 1o54A 277 3.92e+01 3hhrB 203 3.92e+01 1axiB b.1.2.1 22005 b.1.2.1 22006 1ikpA 613 3.93e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184