# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 1dvoA 152 5.24e-16 1dvoA a.136.1.1 19623 1ve3A 227 8.95e-01 1cleA 534 1.47e+00 1thg c.69.1.17 34771 2gyqA 175 1.49e+00 1yumA 242 1.64e+00 1v4xB 146 2.55e+00 a.1.1.2 108364 1gvnA 90 2.73e+00 a.8.2.1 76353 1llfA 534 3.35e+00 c.69.1.17 78094 1x8bA 289 4.43e+00 1efyA 350 4.54e+00 1a26 a.41.1.1,d.166.1.2 17413,42275 1kk8B 139 4.56e+00 a.39.1.5 77430 1v7cA 351 4.58e+00 c.79.1.1 100446 1uj8A 77 4.78e+00 1apyB 141 4.97e+00 1apyB 1z5hA 780 5.11e+00 1wdcB 156 5.46e+00 1wdcB a.39.1.5 17302 1wyuB 474 5.82e+00 1iscA 192 5.88e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1mzbA 136 6.42e+00 a.4.5.42 91497 1svfB 38 6.76e+00 1svfB h.3.2.1 45764 1z1dA 103 7.23e+00 1txdA 385 7.51e+00 a.87.1.1,b.55.1.1 107422,107423 2c8mA 262 7.86e+00 1i0dA 332 8.33e+00 1pscA c.1.9.3 61487 2arsA 262 8.40e+00 1nekD 115 8.87e+00 f.21.2.2 80432 1dpuA 99 9.04e+00 1dpuA a.4.5.16 16150 1usyA 275 9.06e+00 1t6sA 162 9.14e+00 1vqoC 246 9.69e+00 1xk4C 113 1.01e+01 1ld8A 382 1.02e+01 a.118.6.1 73838 1vl8A 267 1.03e+01 c.2.1.2 108733 1hwxA 501 1.16e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 2ae2A 260 1.18e+01 1bdb c.2.1.2 29945 2bnxA 386 1.21e+01 1z8sA 146 1.24e+01 1sgmA 191 1.26e+01 a.4.1.9,a.121.1.1 105537,105538 1tdpA 111 1.28e+01 a.29.8.1 106781 2db9A 149 1.29e+01 1z2cB 383 1.32e+01 1jj2C 246 1.39e+01 1ffkC c.22.1.1 63087 1dbhA 354 1.45e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1jksA 294 1.46e+01 d.144.1.7 71710 1s72C 246 1.48e+01 c.22.1.1 105321 1n00A 321 1.61e+01 a.65.1.1 85241 1zupA 315 1.63e+01 1w0mA 226 1.64e+01 c.1.1.1 109027 1ydiA 263 1.69e+01 2d2jA 329 1.69e+01 1qnjA 240 1.71e+01 5ptp b.47.1.2 26238 1hzyA 332 1.71e+01 1pscA c.1.9.3 61468 1gvkB 240 1.74e+01 b.47.1.2 70610 1v3wA 173 1.76e+01 b.81.1.5 100291 1o6uA 403 1.78e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1zx0A 236 1.81e+01 1ji8A 111 1.87e+01 d.203.1.1 66733 1thg 544 1.87e+01 1thg c.69.1.17 34763 1u2zA 433 1.89e+01 c.66.1.31 107626 1tn6A 382 1.90e+01 1kgnA 329 1.90e+01 a.25.1.2 68584 1t0qA 498 1.94e+01 a.25.1.2 106220 1o9gA 250 1.94e+01 c.66.1.29 86692 2go7A 207 2.01e+01 1a6m 151 2.05e+01 1a6m a.1.1.2 15018 1yyvA 131 2.05e+01 2acvA 463 2.07e+01 1l7vA 326 2.14e+01 f.22.1.1 73672 1j55A 95 2.21e+01 a.39.1.2 77078 1rkeA 262 2.21e+01 a.24.9.1,a.24.9.1 97608,97609 2atfA 200 2.23e+01 2b5hA 200 2.23e+01 1ockA 412 2.23e+01 c.117.1.1 86802 2c07A 285 2.26e+01 2fswA 107 2.29e+01 1d8dA 377 2.32e+01 1ft1A a.118.6.1 19185 2es4D 332 2.36e+01 1wchA 315 2.37e+01 2ga1A 106 2.38e+01 1me8A 503 2.39e+01 c.1.5.1 79028 1ybhA 590 2.39e+01 1zvzA 279 2.41e+01 2bk9A 153 2.52e+01 1my6A 199 2.58e+01 a.2.11.1,d.44.1.1 85232,85233 1zoyC 140 2.59e+01 1t1uA 639 2.60e+01 1d9cA 121 2.62e+01 1d9cA a.26.1.3 16901 1iakB 185 2.64e+01 1iakB b.1.1.2,d.19.1.1 21626,38200 1hbwA 57 2.65e+01 1hbwA h.1.3.1 60928 1f37A 110 2.74e+01 1f37A c.47.1.11 33088 1xwiA 322 2.77e+01 2ffsA 157 2.79e+01 1bc8C 93 2.80e+01 1awcA a.4.5.21 16168 1bzpA 153 2.82e+01 1a6m a.1.1.2 15020 1gcvB 136 2.84e+01 1cg5B a.1.1.2 15589 1erd 40 2.92e+01 1erd a.10.1.1 16362 3pviA 157 2.94e+01 3pviA c.52.1.6 33300 1xteA 154 3.05e+01 1p3qQ 54 3.08e+01 a.5.2.4 87748 2pviA 157 3.11e+01 3pviA c.52.1.6 33302 1tu5A 746 3.15e+01 2flsA 132 3.16e+01 1ljoA 77 3.16e+01 b.38.1.1 73941 1tkiA 321 3.22e+01 1tkiA d.144.1.7 41638 1rykA 69 3.25e+01 a.60.11.1 98105 1xtnA 120 3.30e+01 1t01A 255 3.31e+01 a.24.9.1,a.24.9.1 106188,106189 1no1A 126 3.31e+01 a.179.1.1 85913 1k8tA 510 3.35e+01 e.41.1.1 68316 1ki1B 352 3.38e+01 a.87.1.1,b.55.1.1 72497,72498 1nm8A 616 3.42e+01 c.43.1.3,c.43.1.3 85872,85873 1mll 154 3.44e+01 1a6m a.1.1.2 15057 1f53A 84 3.45e+01 1f53A b.11.1.4 23632 1olmA 403 3.53e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 2ahxA 617 3.53e+01 2gsfA 373 3.56e+01 2fokA 579 3.59e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1w33A 181 3.65e+01 1xahA 354 3.65e+01 2bdwA 362 3.69e+01 2cxxA 190 3.70e+01 1qqcA 773 3.72e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1uzcA 71 3.76e+01 a.159.2.1 100222 1ji0A 240 3.77e+01 c.37.1.12 71665 2d2mB 142 3.81e+01 1q5dA 419 3.86e+01 a.104.1.1 95891 1vl6A 388 3.99e+01 c.2.1.7,c.58.1.3 108724,108725 1jj2I 145 4.00e+01 1ffkG c.21.1.1 63094 1mlg 154 4.04e+01 1a6m a.1.1.2 15104 2gl5A 410 4.05e+01 1a78A 134 4.06e+01 1c1lA b.29.1.3 24212 1sz2A 332 4.08e+01 2spl 154 4.09e+01 1a6m a.1.1.2 15047 1qhfA 240 4.12e+01 1qhfA c.60.1.1 33960 1n5nA 180 4.13e+01 d.167.1.1 85336 1q18A 332 4.22e+01 c.55.1.7,c.55.1.7 104470,104471 1z9bA 135 4.23e+01 2erbA 125 4.26e+01 1pmzA 86 4.31e+01 a.39.1.10 104195 12asA 330 4.38e+01 12asA d.104.1.1 40783 1r2fA 319 4.38e+01 1r2fA a.25.1.2 16800 1hlvA 131 4.38e+01 a.4.1.7,a.4.1.7 65854,65855 1ak5 503 4.51e+01 1ak5 c.1.5.1 28639 1u35C 120 4.56e+01 1qj4A 257 4.56e+01 1qj4A c.69.1.20 34796 8tlnE 316 4.56e+01 1hyt d.92.1.2 59075 2d9iA 96 4.58e+01 2tmnE 316 4.61e+01 1hyt d.92.1.2 59055 2pth 193 4.62e+01 2pth c.56.3.1 33793 1zckA 154 4.68e+01 1lv7A 257 4.68e+01 c.37.1.20 78232 2dpmA 284 4.76e+01 2dpmA c.66.1.28 34246 1wa5C 960 4.82e+01 153l 185 4.83e+01 153l d.2.1.5 36984 1mod 154 4.85e+01 1a6m a.1.1.2 15107 1rxdA 159 4.93e+01 1qhtA 775 4.95e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1paqA 189 4.96e+01 a.118.1.14 94413 1bg1A 722 4.98e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1ywnA 316 5.01e+01 2d8aA 348 5.07e+01 1jp4A 308 5.07e+01 1jp4A e.7.1.1 63223 2mgb 154 5.16e+01 1a6m a.1.1.2 15102 1ufbA 127 5.28e+01 a.24.16.3 99331 1i6lA 328 5.44e+01 c.26.1.1 66041 2d69A 430 5.45e+01 1w61A 414 5.49e+01 1v6sA 390 5.51e+01 c.86.1.1 100424 1gbs 185 5.52e+01 153l d.2.1.5 36986 1tca 317 5.59e+01 1tca c.69.1.17 34726 4icb 76 5.67e+01 4icb a.39.1.1 17145 2fneA 117 5.67e+01 1q6uA 245 5.71e+01 d.26.1.1 95998 1d2rA 326 5.77e+01 1d2rB c.26.1.1 31572 1p4cA 380 5.83e+01 c.1.4.1 94100 1vhmA 195 5.89e+01 d.110.2.1 100691 1wznA 252 5.94e+01 1gewA 356 5.96e+01 1gewA c.67.1.1 60470 1uujA 88 5.97e+01 a.221.1.1 108046 1fgkA 310 6.01e+01 1fgkA d.144.1.7 41693 1ymtA 246 6.16e+01 1mba 147 6.17e+01 2fal a.1.1.2 15149 1sxjE 354 6.21e+01 a.80.1.1,c.37.1.20 106089,106090 103m 154 6.24e+01 1a6m a.1.1.2 15124 1eswA 500 6.27e+01 1cwyA c.1.8.1 59500 1k9uA 78 6.29e+01 a.39.1.10 84348 1g71A 347 6.34e+01 1g71A d.264.1.1 43268 2cwxA 430 6.36e+01 1hw1A 239 6.37e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1otsA 465 6.42e+01 f.20.1.1 87415 1y8cA 246 6.54e+01 1va6A 518 6.55e+01 1q6hA 224 6.55e+01 d.26.1.1 95975 1aa6 715 6.65e+01 2napA b.52.2.2,c.81.1.1 26916,35324 2iv2X 715 6.66e+01 1gjnA 153 6.68e+01 a.1.1.2 70191 1ta9A 450 6.72e+01 1yasA 257 6.72e+01 1qj4A c.69.1.20 34801 1fiqB 350 6.76e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1v02A 565 6.77e+01 c.1.8.4 108194 1ig5A 75 6.78e+01 4icb a.39.1.1 62363 1m2dA 110 6.84e+01 c.47.1.11 78476 1q8dA 108 6.88e+01 a.228.1.1 104554 1zclA 180 7.01e+01 5cytR 104 7.04e+01 1ycc a.3.1.1 15878 1dwtA 153 7.04e+01 1a6m a.1.1.2 15190 1ldfA 281 7.05e+01 f.19.1.1 73845 1r5zA 323 7.12e+01 f.40.1.1 97135 1r7jA 95 7.14e+01 a.4.5.49 104836 1qz4A 213 7.17e+01 a.198.1.1 96613 1sviA 195 7.31e+01 c.37.1.8 106048 2a9fA 398 7.42e+01 1n3hA 207 7.42e+01 b.55.1.2 91564 2g39A 497 7.45e+01 1q60A 99 7.45e+01 1ps1A 337 7.46e+01 1ps1A a.128.1.4 19450 2c30A 321 7.47e+01 2frfA 153 7.62e+01 2mgg 154 7.63e+01 1a6m a.1.1.2 15069 1x3kA 152 7.65e+01 1mym 154 7.71e+01 1a6m a.1.1.2 15054 1jpaA 312 7.72e+01 d.144.1.7 67011 1ga0A 364 7.79e+01 1gceA e.3.1.1 60410 1wmgA 103 7.79e+01 1p94A 76 7.83e+01 a.43.1.3 94380 1dqeA 137 7.91e+01 1dqeA a.39.2.1 17388 2c1vA 338 7.94e+01 1k94A 165 7.94e+01 a.39.1.8 68333 1etxA 98 7.98e+01 1fipA a.4.1.12 18978 1php 394 8.01e+01 16pk c.86.1.1 35452 1xriA 151 8.19e+01 1nqkA 381 8.22e+01 c.1.16.4 92050 1ucrA 78 8.23e+01 a.4.5.45 99188 1j75A 67 8.27e+01 a.4.5.19 62673 2anuA 255 8.27e+01 1zgmA 248 8.33e+01 2fnoA 248 8.33e+01 1b67A 68 8.34e+01 1a7w a.22.1.2 16474 1t5oA 351 8.37e+01 c.124.1.5 106459 1ignA 246 8.49e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1y9zA 441 8.63e+01 1v6cA 441 8.72e+01 7fd1A 106 8.77e+01 1a6l d.58.1.2 38953 1jadA 251 8.85e+01 h.4.10.1 66461 1qvbA 481 8.88e+01 1qvbA c.1.8.4 28983 1vm7A 311 8.92e+01 c.72.1.1 108884 1dixA 208 8.94e+01 1bk7A d.124.1.1 41122 1mp1A 111 8.99e+01 a.188.1.1 91382