# List of top-scoring protein chains for t06-100-30-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 1mk4A 157 1.74e-03 d.108.1.1 84979 1ne9A 335 2.52e-03 d.108.1.4,d.108.1.4 91839,91840 1z4eA 153 3.39e-02 1v93A 296 3.44e-02 c.1.23.1 100532 1sqhA 312 5.08e-02 d.108.1.5 98966 2fe7A 166 7.86e-02 2aj6A 159 1.15e-01 1tiqA 180 1.46e-01 d.108.1.1 107010 2d4pA 141 3.14e-01 2fp4B 395 3.19e-01 1u0mA 382 5.60e-01 c.95.1.2,c.95.1.2 107557,107558 1s3zA 165 6.29e-01 d.108.1.1 105250 1cjwA 166 8.73e-01 1cjwA d.108.1.1 40818 1a53 247 9.60e-01 1a53 c.1.2.4 28564 1n71A 180 1.07e+00 d.108.1.1 85370 1vhsA 175 1.10e+00 d.108.1.1 100698 1qjcA 158 1.10e+00 1b6tA c.26.1.3 63328 1xtmA 175 1.12e+00 1s4iA 175 1.20e+00 2ge3A 170 1.60e+00 2aeuA 374 1.63e+00 1od6A 160 1.74e+00 c.26.1.3 86836 1yvoA 172 2.43e+00 1zbpA 273 2.91e+00 2fl4A 149 2.96e+00 1pq1A 196 3.03e+00 f.1.4.1 94986 1zbfA 142 3.04e+00 1m5wA 243 3.13e+00 c.1.24.1 84836 1puiA 210 3.54e+00 c.37.1.8 88292 2b5gA 171 3.65e+00 1m65A 245 3.74e+00 c.6.3.1 84847 1wwzA 159 3.93e+00 2c71A 216 4.04e+00 2ganA 190 4.17e+00 1zp4A 304 4.19e+00 1zu4A 320 4.23e+00 1jflA 228 4.35e+00 c.78.2.1,c.78.2.1 71656,71657 1u9iA 519 4.40e+00 2a1hA 365 4.58e+00 1z4rA 168 4.60e+00 1mf7A 194 4.62e+00 c.62.1.1 84937 2atrA 138 4.64e+00 1yx1A 264 4.70e+00 1dkuA 317 4.71e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 1yt3A 375 4.79e+00 1vqzA 341 4.80e+00 1k8kB 394 4.89e+00 c.55.1.1 68307 1b0uA 262 5.21e+00 1b0uA c.37.1.12 32370 1uok 558 5.52e+00 1uok b.71.1.1,c.1.8.1 27801,28788 1kblA 873 6.35e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1vl2A 421 6.39e+00 c.26.2.1,d.210.1.1 108708,108709 1drw 273 6.70e+00 1drw c.2.1.3,d.81.1.3 30057,39972 1zwwA 256 6.77e+00 2bllA 345 7.88e+00 1vmeA 410 8.08e+00 c.23.5.1,d.157.1.3 108893,108894 1i12A 160 8.25e+00 1i21A d.108.1.1 61515 1t95A 240 8.30e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1wo8A 126 8.35e+00 1p4cA 380 8.65e+00 c.1.4.1 94100 1bo4A 168 8.89e+00 1bo4A d.108.1.1 40798 1h09A 338 8.96e+00 b.109.1.1,c.1.8.8 83420,83421 2dbyA 368 9.55e+00 1u94A 356 9.77e+00 c.37.1.11,d.48.1.1 107743,107744 1u9lA 70 9.96e+00 a.60.4.2 107751 1gw5S 142 1.01e+01 d.110.4.2 70633 1wnaA 131 1.02e+01 1ad2 228 1.05e+01 1ad2 e.24.1.1 43353 1qlmA 316 1.09e+01 1qlmA d.147.1.1 41765 1w0mA 226 1.10e+01 c.1.1.1 109027 1v9sA 208 1.12e+01 1vk0A 206 1.14e+01 c.55.3.5 100839 1bykA 255 1.15e+01 1bykA c.93.1.1 35706 1jljA 189 1.16e+01 c.57.1.1 63169 1lvaA 258 1.16e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1cfr 285 1.18e+01 1cfr c.52.1.7 33312 1xp8A 366 1.23e+01 1ohlA 342 1.23e+01 c.1.10.3 87035 1lw7A 365 1.26e+01 c.26.1.3,c.37.1.1 74295,74296 2gs8A 317 1.28e+01 2f1rA 171 1.29e+01 1yz4A 160 1.30e+01 1p0hA 318 1.30e+01 d.108.1.1 93866 1qf8A 182 1.37e+01 1qf8A g.41.4.1 45212 1a99A 344 1.39e+01 1pot c.94.1.1 35812 1o4wA 147 1.43e+01 c.120.1.1 86629 1kpf 126 1.43e+01 1kpf d.13.1.1 37507 7a3hA 303 1.47e+01 7a3hA c.1.8.3 28817 1z41A 338 1.50e+01 1kgdA 180 1.51e+01 c.37.1.1 68582 1zy9A 564 1.51e+01 2fi9A 128 1.52e+01 1vmfA 145 1.62e+01 1lehA 364 1.63e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1p1xA 260 1.64e+01 c.1.10.1 104060 1bd3A 243 1.66e+01 1bd3A c.61.1.1 34098 1t9hA 307 1.68e+01 1usyA 275 1.72e+01 1e3oC 160 1.72e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1izcA 339 1.78e+01 c.1.12.5 83838 1tp9A 162 1.79e+01 2a5yB 549 1.82e+01 1vc4A 254 1.83e+01 c.1.2.4 100557 1iicA 422 1.83e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1zo0A 126 1.85e+01 2au3A 407 1.88e+01 1z5bA 469 1.89e+01 1exqA 154 1.90e+01 1b9dA c.55.3.2 33646 1wyzA 242 1.91e+01 1nu5A 370 1.92e+01 c.1.11.2,d.54.1.1 92183,92184 2b69A 343 1.95e+01 2gtrA 261 1.97e+01 1ltqA 301 2.00e+01 c.108.1.9,c.37.1.1 78208,78209 2b67A 204 2.00e+01 2fxuA 375 2.09e+01 1gkpA 458 2.11e+01 b.92.1.3,c.1.9.6 70231,70232 2cxaA 256 2.14e+01 1u7lA 392 2.17e+01 1nnwA 252 2.26e+01 d.159.1.5 80674 1qz5A 375 2.29e+01 c.55.1.1,c.55.1.1 96614,96615 2rslA 140 2.29e+01 2rslA c.53.1.1 33345 2cvhA 220 2.29e+01 2ftwA 521 2.34e+01 1hjrA 158 2.37e+01 1hjrA c.55.3.6 33727 2f2gA 221 2.37e+01 1nf2A 268 2.38e+01 c.108.1.10 91849 2f46A 156 2.38e+01 1w9gA 104 2.40e+01 1kaeA 434 2.48e+01 c.82.1.2 72247 1agjA 242 2.49e+01 1agjA b.47.1.1 25827 2arzA 247 2.51e+01 1l8aA 886 2.55e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1k32A 1045 2.58e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1px5A 349 2.58e+01 a.160.1.2,d.218.1.6 95277,95278 1zu0A 529 2.60e+01 1yemA 179 2.62e+01 1oi2A 366 2.67e+01 c.119.1.2 103802 1yrtA 364 2.67e+01 2faoA 309 2.78e+01 1pvtA 238 2.80e+01 c.74.1.1 95189 1mldA 314 2.80e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 2fggA 101 2.82e+01 1wdjA 187 2.91e+01 1lrzA 426 2.94e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1x8hA 228 2.96e+01 2c27A 315 3.00e+01 1hr6A 475 3.02e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 2beiA 170 3.03e+01 1qstA 160 3.03e+01 1yghA d.108.1.1 40804 2b0cA 206 3.07e+01 1wj5A 120 3.10e+01 1yx0A 159 3.10e+01 1va6A 518 3.15e+01 1h1dA 221 3.17e+01 c.66.1.1 83452 1ea5A 537 3.20e+01 2bce c.69.1.1 34592 1vliA 385 3.25e+01 b.85.1.1,c.1.10.6 108830,108831 1mkmA 249 3.26e+01 a.4.5.33,d.110.2.2 79242,79243 1gu7A 364 3.28e+01 b.35.1.2,c.2.1.1 83321,83322 1yz7A 188 3.29e+01 1y80A 210 3.35e+01 2bkkA 264 3.37e+01 1anf 370 3.40e+01 4mbp c.94.1.1 35776 1vchA 175 3.46e+01 1muwA 386 3.46e+01 c.1.15.3 79495 1b8dA 164 3.48e+01 1cpcA a.1.1.3 15665 1ujnA 348 3.48e+01 e.22.1.1 99460 2fh1A 344 3.48e+01 1x8gA 227 3.49e+01 1ivzA 132 3.51e+01 d.58.41.1 76863 2ew8A 249 3.58e+01 1ytvA 366 3.60e+01 1bg2 325 3.64e+01 1bg2 c.37.1.9 32189 1r5lA 262 3.67e+01 a.5.3.1,c.13.1.1 97099,97100 1obbA 480 3.70e+01 c.2.1.5,d.162.1.2 86760,86761 1m4iA 181 3.84e+01 d.108.1.1 74457 1zxxA 319 4.05e+01 1wlyA 333 4.07e+01 1x3lA 440 4.09e+01 1uanA 227 4.12e+01 c.134.1.1 99135 1zavA 180 4.12e+01 1fy7A 278 4.28e+01 1fy7A d.108.1.1 40817 2fp8A 322 4.28e+01 1uxoA 192 4.28e+01 c.69.1.31 108121 1bif 469 4.29e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1auiB 169 4.30e+01 1auiB a.39.1.5 17325 1z3xA 238 4.30e+01 1e8cA 498 4.30e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1pe1A 267 4.37e+01 c.1.10.4 94591 1zzgA 415 4.45e+01 2ae6A 166 4.49e+01 1l7dA 384 4.54e+01 c.2.1.4,c.23.12.2 77774,77775 1tzzA 392 4.56e+01 1onrA 316 4.57e+01 1onrA c.1.10.1 29169 2c78A 405 4.58e+01 1l2tA 235 4.59e+01 c.37.1.12 73514 1mhqA 148 4.60e+01 a.118.9.2 84973 1b93A 152 4.64e+01 1b93A c.24.1.2 31507 1xfcA 384 4.64e+01 1tqhA 247 4.67e+01 c.69.1.29 107225 1odkA 235 4.69e+01 c.56.2.1 86863 1wb9A 800 4.69e+01 1mtpB 43 4.74e+01 5nul 138 4.74e+01 5nul c.23.5.1 31191 1pujA 282 4.78e+01 c.37.1.8 88294 1ockA 412 4.83e+01 c.117.1.1 86802 1mbyA 88 4.83e+01 d.223.1.1 78931 1wkyA 464 4.86e+01 1yhtA 367 4.86e+01 1u5kA 244 4.94e+01 1oj4A 283 4.95e+01 d.14.1.5,d.58.26.5 93083,93084 2g40A 224 4.96e+01 1h8eD 482 5.03e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 2cy2A 174 5.04e+01 1v3vA 333 5.04e+01 b.35.1.2,c.2.1.1 108345,108346 2ck3D 482 5.08e+01 1y7qA 98 5.09e+01 1ebfA 358 5.11e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1zhvA 134 5.14e+01 2ar0A 541 5.15e+01 2basA 431 5.17e+01 1xmtA 103 5.18e+01 1a8s 273 5.32e+01 1brt c.69.1.12 34710 1nw3A 416 5.33e+01 c.66.1.31 86288 2bswA 146 5.35e+01 1w1hA 151 5.42e+01 1je0A 236 5.51e+01 c.56.2.1 66581 1imjA 210 5.56e+01 c.69.1.23 71246 1s99A 200 5.62e+01 1pgvA 197 5.62e+01 c.10.1.1 88073 1lc5A 364 5.69e+01 c.67.1.1 73827 1rz3A 201 5.72e+01 c.37.1.6 98132 1p8xA 344 5.72e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1li5A 461 5.74e+01 a.27.1.1,c.26.1.1 73912,73913 1qwgA 251 5.79e+01 c.1.27.1 96473 1gx1A 160 5.82e+01 d.79.5.1 70675 1eteA 134 5.84e+01 1eteA a.26.1.2 16869 1o0sA 605 5.84e+01 c.2.1.7,c.58.1.3 86540,86541 1h7sA 365 5.86e+01 d.14.1.3,d.122.1.2 65705,65706 1nvmB 312 5.88e+01 c.2.1.3,d.81.1.1 86251,86252 1k3yA 221 5.93e+01 a.45.1.1,c.47.1.5 77245,77246 2a19A 175 5.99e+01 1yljA 263 6.00e+01 1vfrA 218 6.01e+01 1vfrA d.90.1.1 40247 1eq2A 310 6.02e+01 1eq2A c.2.1.2 29814 1w5fA 353 6.06e+01 1atlA 202 6.11e+01 1atlA d.92.1.9 40322 1e9rA 437 6.14e+01 c.37.1.11 64827 1tf1A 198 6.17e+01 d.110.2.2 106826 1hqz1 141 6.19e+01 2fmlA 273 6.20e+01 2aq2B 237 6.21e+01 1j93A 353 6.23e+01 c.1.22.1 66454 1j5sA 463 6.23e+01 c.1.9.8 71580 1eg5A 384 6.24e+01 1ecxA c.67.1.3 34429 1o9gA 250 6.25e+01 c.66.1.29 86692 1jc4A 148 6.30e+01 1jc4A d.32.1.4 62863 1ve6A 582 6.35e+01 1qwkA 317 6.45e+01 c.1.7.1 96482 1fm0D 81 6.45e+01 1fmaD d.15.3.1 37642 1yp1A 202 6.49e+01 1o6zA 303 6.55e+01 c.2.1.5,d.162.1.1 81107,81108 1v6tA 255 6.65e+01 2gjlA 328 6.76e+01 1urjA 1136 6.79e+01 1n4kA 381 6.81e+01 a.118.22.1,b.42.6.1 79992,79993 1ceo 343 6.81e+01 1ceo c.1.8.3 28808 1nv8A 284 6.81e+01 c.66.1.30 86224 1u69A 163 6.86e+01 d.32.1.7 107699 1o4yA 288 6.88e+01 b.29.1.2 92473 1oh0A 131 6.93e+01 d.17.4.3 87004 1ixcA 294 6.93e+01 a.4.5.37,c.94.1.1 83764,83765 1ynpA 317 6.94e+01 1i4wA 353 6.94e+01 c.66.1.24 66028 1ukfA 188 6.94e+01 d.3.1.10 99488 2czlA 272 6.98e+01 1q35A 320 7.01e+01 c.94.1.1 95661 1qo7A 394 7.01e+01 1qo7A c.69.1.11 34697 2b5dX 528 7.01e+01 2frnA 278 7.02e+01 2ge7A 108 7.14e+01 2bogX 286 7.16e+01 1auoA 218 7.18e+01 1auoA c.69.1.14 34716 1vkcA 158 7.27e+01 1ra6A 461 7.28e+01 e.8.1.4 104879 1zbqA 327 7.33e+01 1t4oA 117 7.35e+01 d.50.1.1 106425 1d5rA 324 7.38e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1wfxA 186 7.41e+01 1lu4A 136 7.42e+01 c.47.1.10 91124 1bn7A 294 7.42e+01 1bn6A c.69.1.8 34677 1fthA 122 7.49e+01 d.150.1.2 60028 1k3sA 113 7.64e+01 d.198.1.1 68120 1wouA 123 7.70e+01 c.47.1.16 109471 1j5wA 298 7.72e+01 d.104.1.1 71589 1wohA 305 7.76e+01 c.42.1.1 109446 1wz3A 96 7.76e+01 1np6A 174 7.78e+01 c.37.1.10 85954 2f2hA 773 7.87e+01 1v7rA 186 7.88e+01 c.51.4.1 100482 1s8nA 205 7.94e+01 c.23.1.1 105374 1po5A 476 7.97e+01 a.104.1.1 94963 2bhoA 130 8.00e+01 2b8nA 429 8.01e+01 2c8vA 288 8.09e+01 1zvdA 380 8.10e+01 1earA 147 8.16e+01 b.107.1.1,d.58.38.1 64875,64876 1f0yA 302 8.19e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1khyA 148 8.21e+01 a.174.1.1 77410 1xttA 216 8.22e+01 1vyrA 364 8.23e+01 c.1.4.1 108906 2bsjA 133 8.25e+01 1ej0A 180 8.26e+01 1ej0A c.66.1.2 34179 1o04A 500 8.29e+01 c.82.1.1 86508 2bh7A 261 8.29e+01 2c5qA 240 8.29e+01 1q2yA 140 8.34e+01 d.108.1.1 95655 1xkpC 143 8.43e+01 1y8oB 128 8.46e+01 1uqvA 85 8.51e+01 a.60.1.2 99798 1pea 385 8.53e+01 1pea c.93.1.1 35662 1t6aA 126 8.60e+01 d.129.8.1 106555 1es9A 232 8.61e+01 1wab c.23.10.3 31340 1y8aA 332 8.62e+01 2db2A 119 8.64e+01 2fuvA 549 8.64e+01 1xo0A 324 8.70e+01 1f5nA 592 8.74e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 2cwkA 160 8.75e+01 1llfA 534 8.76e+01 c.69.1.17 78094 1ppfE 218 8.78e+01 1a7s b.47.1.2 26234 1vg8A 207 8.82e+01 c.37.1.8 108606 1pl8A 356 8.83e+01 b.35.1.2,c.2.1.1 94878,94879 1bia 321 8.85e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1khtA 192 8.96e+01 c.37.1.1 84401