# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-scores 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 2fbwC 141 1.23e+00 2h88C 140 1.28e+00 1zoyC 140 2.89e+00 1x3xA 82 2.97e+00 1v54J 59 4.31e+00 f.23.4.1 100331 1sseB 86 4.43e+00 2occJ 59 5.16e+00 2occJ f.23.4.1 43524 1ww8A 439 5.37e+00 4aahB 69 5.72e+00 4aahB a.137.2.1 19625 2coeA 120 6.00e+00 1q7lB 88 7.05e+00 1tvs 75 9.01e+00 1tvs j.40.1.1 46303 1n6zA 105 9.09e+00 d.263.1.1 85369 2ad6B 69 9.15e+00 1ypqA 135 9.30e+00 1g72B 69 9.35e+00 4aahB a.137.2.1 19627 2gumA 628 1.18e+01 1jy2O 56 1.22e+01 h.1.8.1 67441 1jy3O 56 1.22e+01 h.1.8.1 67447 1lj0A 92 1.26e+01 d.120.1.1 78019 1qcrG 70 1.29e+01 1be3G f.23.13.1 43677 1dwnA 127 1.30e+01 1dwnA d.85.1.1 40141 2occL 47 1.42e+01 2occL f.23.6.1 43526 1k1fA 72 1.49e+01 a.147.1.1 68007 2fi1A 190 1.51e+01 2knt 58 1.60e+01 1bpi g.8.1.1 44537 1aijM 307 1.68e+01 6prcM f.26.1.1 43462 1v54L 47 1.71e+01 f.23.6.1 100333 1jj2O 148 1.75e+01 1ffkM a.94.1.1 63100 1h6qA 168 1.75e+01 1h6qA b.88.1.2 60692 1cwxA 44 1.80e+01 1cwxA j.54.1.1 46338 1jy3P 48 1.88e+01 h.1.8.1 67448 1ntcA 91 1.93e+01 1ntcA a.4.1.12 19004 2dkoB 103 1.97e+01 1gc5A 467 1.97e+01 1gc5A c.72.1.3 60429 1rzhM 307 2.05e+01 f.26.1.1 98165 1vrbA 342 2.06e+01 1vejA 74 2.10e+01 1gk8I 140 2.11e+01 d.73.1.1 65242 1poiA 317 2.14e+01 1poiA c.124.1.2 34153 1kx5A 135 2.27e+01 a.22.1.1 77593 1ffkM 148 2.32e+01 1ffkM a.94.1.1 18740 2f1rA 171 2.37e+01 1kthA 58 2.43e+01 g.8.1.1 68863 1w4vA 119 2.50e+01 1uvzA 119 2.52e+01 1yqfA 203 2.61e+01 1ji8A 111 2.66e+01 d.203.1.1 66733 1eueA 86 2.68e+01 1cyo d.120.1.1 59504 1knt 58 2.74e+01 1bpi g.8.1.1 44538 1bgyE 196 2.77e+01 1bgyE f.23.12.1 43683 1vg5A 73 2.91e+01 1jy2P 48 2.96e+01 h.1.8.1 67442 1awpA 92 2.96e+01 1cyo d.120.1.1 41071 1dxsA 80 2.97e+01 1cokA a.60.1.2 17944 2g0uA 92 3.03e+01 1blu 82 3.08e+01 2fdn d.58.1.1 38948 1ezvG 93 3.15e+01 1ezvG f.23.13.1 59551 1k8kG 151 3.15e+01 a.118.13.1 68313 1ywlA 96 3.18e+01 2g5cA 281 3.21e+01 1cmaA 104 3.31e+01 1cmbA a.43.1.5 17486 1al8 359 3.32e+01 1gox c.1.4.1 28608 1qk9A 92 3.43e+01 1qk9A d.10.1.3 37485 1mjoA 104 3.54e+01 1cmbA a.43.1.5 17466 1kx5B 102 3.61e+01 a.22.1.1 77594 1cvsC 225 3.65e+01 1cvsC b.1.1.4,b.1.1.4 21726,21727 1gmwA 143 3.65e+01 b.107.1.1,d.58.38.1 65347,65348 1wjpA 107 3.67e+01 1f45B 197 3.78e+01 1f45B a.26.1.1 59642 1aijS 301 4.04e+01 6prcM f.26.1.1 43465 2bmoB 194 4.06e+01 1u7eB 154 4.10e+01 1hgeA 328 4.22e+01 1hgeA b.19.1.2 23816 1kx5D 125 4.34e+01 a.22.1.1 77596 1z9iA 53 4.42e+01 1w6sB 74 4.48e+01 1u96A 69 4.49e+01 1acj 537 4.53e+01 2bce c.69.1.1 34588 1ycrA 109 4.55e+01 1ycqA a.42.1.1 17420 2bmaA 470 4.64e+01 1pvuA 154 4.65e+01 3pviA c.52.1.6 33306 1bccE 196 4.71e+01 1rie b.33.1.1,f.23.12.1 24431,43699 1or0A 160 4.78e+01 d.153.1.2 93445 2ezl 99 4.83e+01 2ezk a.4.1.2 16026 1h8aC 128 4.89e+01 a.4.1.3,a.4.1.3 65731,65732 2cq7A 49 4.90e+01 1fouA 309 5.07e+01 1fouA e.27.1.1 43364 1t6aA 126 5.08e+01 d.129.8.1 106555 1pyoB 105 5.11e+01 1ceuA 51 5.12e+01 1ceuA j.11.1.1 46137 2fgoA 82 5.14e+01 1xszA 356 5.19e+01 1o7nB 194 5.21e+01 d.17.4.4 81164 1kb9H 93 5.25e+01 f.23.13.1 77323 1ir21 140 5.41e+01 1fm2A 169 5.41e+01 1fm2A d.153.1.2 59877 1b5m 84 5.46e+01 1cyo d.120.1.1 41073 1ip9A 85 5.48e+01 1ip9A d.15.2.2 62638 1e66A 543 5.49e+01 c.69.1.1 59291 1ppjG 81 5.50e+01 f.23.13.1 104263 1vdiA 52 5.54e+01 1umqA 81 5.59e+01 a.4.1.12 99625 1db1A 259 5.63e+01 1db1A a.123.1.1 19329 1eg9B 194 5.65e+01 1ndoB d.17.4.4 38120 1ndoB 194 5.74e+01 1ndoB d.17.4.4 38121 1wz7A 111 5.75e+01 1ppjE 196 5.78e+01 b.33.1.1,f.23.12.1 104260,104261 1jy2N 53 5.85e+01 h.1.8.1 67440 1msc 129 5.86e+01 1msc d.85.1.1 40039 1f9xA 120 5.91e+01 1g3fA g.52.1.1 59748 3hmgA 328 5.98e+01 1hgeA b.19.1.2 23825 2trcP 217 5.98e+01 1b9yC c.47.1.6 33051 1oeyA 83 6.04e+01 d.15.2.2 92800 1gox 370 6.04e+01 1gox c.1.4.1 28607 1ce4A 35 6.07e+01 1ce4A j.53.1.1 46337 1y6nL 145 6.07e+01 2iufA 688 6.13e+01 1gmuA 143 6.14e+01 b.107.1.1,d.58.38.1 65335,65336 1cyo 93 6.18e+01 1cyo d.120.1.1 41065 1ncs 47 6.21e+01 1ncs g.37.1.1 45040 1p4cA 380 6.22e+01 c.1.4.1 94100 1vxrA 537 6.28e+01 2bce c.69.1.1 34595 1g3fA 117 6.30e+01 1g3fA g.52.1.1 45378 1thx 115 6.42e+01 1thx c.47.1.1 32732 1ry3A 64 6.45e+01 j.106.1.1 98084 2f6mB 109 6.48e+01 1w9gA 104 6.49e+01 1snlA 103 6.50e+01 a.39.1.7 105820 2az0A 73 6.51e+01 1ux5A 411 6.63e+01 a.207.1.1 100144 1mhlA 108 6.69e+01 1d2vA a.93.1.2 18699 1ea5A 537 6.71e+01 2bce c.69.1.1 34592 1j3kA 280 6.72e+01 c.71.1.1 84070 2a6cA 83 6.73e+01 1yzsA 121 6.83e+01 1zm7A 230 6.96e+01 1pc6A 146 6.97e+01 d.262.1.1 94430 1zzgA 415 6.97e+01 1ut7A 171 7.00e+01 b.143.1.1 99906 1wmbA 260 7.02e+01 1xg1A 67 7.02e+01 1ih7A 903 7.03e+01 1clqA c.55.3.5,e.8.1.1 62375,62376 2aw4Q 117 7.06e+01 1cxpA 104 7.08e+01 1d2vA a.93.1.2 18695 1d2vA 104 7.08e+01 1d2vA a.93.1.2 18697 3pviA 157 7.17e+01 3pviA c.52.1.6 33300 1gg6B 131 7.29e+01 5ptp 1ef1C 90 7.32e+01 1ef1C a.137.5.1 19642 1sc3B 88 7.34e+01 1ua4A 455 7.39e+01 c.72.1.3 99128 1vqoP 149 7.40e+01 1xw3A 110 7.42e+01 2occH 85 7.46e+01 2occH a.51.1.1 17796 1qidA 537 7.49e+01 2bce c.69.1.1 34593 3lck 271 7.54e+01 1fmk d.144.1.7 41686 1scmB 145 7.57e+01 1wdcB a.39.1.5 17304 1inlA 296 7.65e+01 c.66.1.17 66220 1ibcB 88 7.81e+01 1pauB 1v54H 85 7.87e+01 a.51.1.1 100329 2g7lA 243 7.93e+01 1z3eB 73 7.96e+01 1qapA 296 7.99e+01 1qpoA c.1.17.1,d.41.2.1 29559,38595 1nekC 129 7.99e+01 f.21.2.2 80431 1k8bA 52 8.06e+01 d.241.1.1 72171 1jy3N 53 8.12e+01 h.1.8.1 67446 1np6A 174 8.15e+01 c.37.1.10 85954 2b2yA 187 8.24e+01 2ge7A 108 8.26e+01 2dhqA 146 8.27e+01 2dhqA c.23.13.1 31382 1o0yA 260 8.37e+01 c.1.10.1 80756 2u1a 88 8.42e+01 2u1a d.58.7.1 39164 1cc1L 498 8.43e+01 1h2rL e.18.1.1 43301 2ct5A 73 8.43e+01 1eyuA 157 8.44e+01 3pviA c.52.1.6 33304 2f6rA 281 8.58e+01 2pviA 157 8.58e+01 3pviA c.52.1.6 33302 1vl2A 421 8.63e+01 c.26.2.1,d.210.1.1 108708,108709 1xjjA 644 8.63e+01 1aksA 125 8.63e+01 5ptp b.47.1.2 25969 1aab 83 8.71e+01 1cktA a.21.1.1 16420 1oe0A 230 8.72e+01 c.37.1.1 92788 2viuB 175 8.94e+01 1hgeB h.3.1.1 45676 2bx9A 53 8.97e+01 2bf9A 36 9.00e+01