# List of top-scoring protein chains for t06-100-30-o_notor2-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 1sfxA 109 8.02e-01 a.4.5.50 105505 1yyaA 250 8.95e-01 1v02A 565 1.10e+00 c.1.8.4 108194 1din 236 1.11e+00 1din c.69.1.9 34682 1vemA 516 1.47e+00 1nar 290 1.57e+00 1nar c.1.8.5 28988 1ywnA 316 1.63e+00 1zi8A 236 1.65e+00 2cfaA 217 2.00e+00 1ru0A 105 2.26e+00 1kshA 186 2.55e+00 c.37.1.8 72914 2cbuA 468 2.94e+00 1azo 232 3.35e+00 1azo c.52.1.14 33329 1wmhA 89 3.57e+00 1sh0A 510 3.74e+00 e.8.1.4 98876 2aieP 203 4.33e+00 1o17A 345 4.52e+00 a.46.2.1,c.27.1.1 80765,80766 1nmoA 247 4.61e+00 c.135.1.1 91980 1rypL 212 4.77e+00 d.153.1.4 41880 1sxrA 183 5.44e+00 d.118.1.1 106101 1gx5A 536 5.76e+00 e.8.1.4 70682 2fbaA 492 5.94e+00 2bkkA 264 6.17e+00 1b35B 255 6.65e+00 1b35B b.121.4.1 23334 1dkuA 317 6.77e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 1iicA 422 6.83e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1ikpA 613 7.03e+00 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1jkxA 212 7.55e+00 c.65.1.1 66813 1htwA 158 8.59e+00 c.37.1.18 71083 1m2kA 249 8.72e+00 c.31.1.5 84754 1k0wA 231 8.82e+00 c.74.1.1 77220 2cb2A 318 8.92e+00 1mg4A 113 9.43e+00 d.15.11.1 84953 3fruA 269 1.01e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1nzjA 298 1.02e+01 c.26.1.1 92377 2bkyA 97 1.09e+01 1g2iA 166 1.10e+01 1g2iA c.23.16.2 31438 1wzvA 155 1.11e+01 1jltA 122 1.13e+01 a.133.1.2 66867 1o50A 157 1.14e+01 d.37.1.1,d.37.1.1 92478,92479 1y8aA 332 1.17e+01 1wdyA 285 1.18e+01 1yc9A 442 1.18e+01 1vjeA 166 1.20e+01 d.185.1.2 100807 1e1hA 287 1.27e+01 d.92.1.7 83167 2bvfA 459 1.31e+01 1ev7A 317 1.39e+01 1ev7B c.52.1.9 33315 1zyiA 171 1.42e+01 1r9fA 136 1.43e+01 d.255.1.1 97257 1oyjA 231 1.48e+01 a.45.1.1,c.47.1.5 87597,87598 1nqkA 381 1.48e+01 c.1.16.4 92050 1qdeA 224 1.51e+01 1qvaA c.37.1.19 32410 1xb2B 291 1.53e+01 1xahA 354 1.54e+01 1uw4A 91 1.56e+01 d.58.7.4 100071 1jlyA 304 1.58e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1q7zA 566 1.58e+01 c.1.21.2,c.1.26.1 96090,96091 1ayx 492 1.59e+01 1ayx a.102.1.1 18825 1qd9A 124 1.59e+01 1qu9A d.79.1.1 39758 1zt2B 212 1.59e+01 1mml 265 1.61e+01 1mml e.8.1.2 43015 1g8sA 230 1.62e+01 c.66.1.3 90507 1nz0A 118 1.64e+01 d.14.1.2 86433 1dcoA 104 1.75e+01 1dcpA d.74.1.1 39680 1vmbA 140 1.78e+01 2f9dA 125 1.79e+01 1fj2A 232 1.81e+01 1auoA c.69.1.14 34720 1nnsA 326 1.84e+01 c.88.1.1 85910 2acaA 189 1.85e+01 1zzmA 259 1.95e+01 1vqoS 85 1.97e+01 1yvhA 329 1.97e+01 1g5bA 221 1.99e+01 1g5bA d.159.1.3 60261 1x74A 360 1.99e+01 1qzmA 94 2.03e+01 c.37.1.20 96651 2fg9A 178 2.05e+01 1jx4A 352 2.08e+01 d.240.1.1,e.8.1.7 90378,90379 4pgaA 337 2.09e+01 4pgaA c.88.1.1 35565 1yfnA 118 2.10e+01 1y4lA 121 2.11e+01 1wjxA 122 2.14e+01 1nw1A 429 2.18e+01 d.144.1.8 86286 2cz1A 206 2.19e+01 1mc2A 122 2.20e+01 a.133.1.2 74622 1vqoX 92 2.22e+01 1rl4A 188 2.23e+01 d.167.1.1 97636 1jyhA 157 2.25e+01 d.60.1.3 71956 2f1kA 279 2.28e+01 1ssqA 267 2.28e+01 b.81.1.6 105993 1jyoA 130 2.33e+01 d.198.1.1 67483 1rcqA 357 2.39e+01 b.49.2.2,c.1.6.1 104882,104883 1to4A 156 2.41e+01 b.1.8.1 107162 1e0fI 57 2.43e+01 1e0fI g.3.15.2 44377 1wnaA 131 2.48e+01 2a5dA 175 2.52e+01 1x47A 98 2.53e+01 1p7tA 731 2.53e+01 c.1.13.1 94319 2b3yA 888 2.55e+01 1geeA 261 2.59e+01 c.2.1.2 90509 1c3pA 375 2.60e+01 1c3pA c.42.1.2 32606 1xcbA 211 2.63e+01 a.4.5.38,c.2.1.12 109552,109553 1pme 380 2.64e+01 1hcl d.144.1.7 41653 1i9zA 347 2.67e+01 1i9yA d.151.1.2 62102 1ig5A 75 2.70e+01 4icb a.39.1.1 62363 1lh0A 213 2.74e+01 c.61.1.1 73896 2b7eA 59 2.81e+01 2gfaA 119 2.81e+01 1jftA 340 2.84e+01 a.35.1.5,c.93.1.1 66652,66653 2g7lA 243 2.84e+01 1yj7A 171 2.90e+01 1k8kE 178 2.91e+01 a.148.1.1 68311 1nfp 228 2.95e+01 1nfp c.1.16.2 29555 1r29A 127 2.98e+01 d.42.1.1 96856 1kr4A 125 3.01e+01 d.58.5.2 72889 1tfzA 424 3.05e+01 d.32.1.3,d.32.1.3 106886,106887 1zarA 282 3.05e+01 1n0qA 93 3.07e+01 k.37.1.1 79754 2faoA 309 3.08e+01 1seiA 130 3.09e+01 1seiA d.140.1.1 41463 1f9zA 135 3.09e+01 1qipA d.32.1.1 38484 1nthA 458 3.10e+01 c.1.25.1 80730 1sc6A 404 3.10e+01 2a97A 439 3.15e+01 1h5qA 265 3.15e+01 1cydA c.2.1.2 60643 1je5A 206 3.15e+01 1je5A b.40.4.7 62909 1sqsA 242 3.17e+01 c.23.5.5 98968 2aamA 309 3.19e+01 1zd3A 555 3.21e+01 1ujcA 161 3.24e+01 1f32A 149 3.25e+01 1f32A d.62.1.1 39539 1rlr 761 3.27e+01 1rlr a.98.1.1,c.7.1.2 18753,30679 1o5xA 248 3.28e+01 c.1.1.1 92528 1zs4A 83 3.29e+01 2ex0A 399 3.32e+01 1pbuA 162 3.33e+01 d.58.46.1 88030 1xuuA 349 3.34e+01 1e4mM 501 3.34e+01 1e70M c.1.8.4 59226 1krs 120 3.34e+01 1krs b.40.4.1 25256 1wrvA 308 3.36e+01 1f6bA 198 3.37e+01 c.37.1.8 64986 1m40A 263 3.39e+01 e.3.1.1 74437 1lv7A 257 3.40e+01 c.37.1.20 78232 1on2A 142 3.41e+01 a.4.5.24,a.76.1.1 87103,87104 1r6jA 82 3.42e+01 b.36.1.1 97151 1xrsA 516 3.44e+01 1n2sA 299 3.45e+01 c.2.1.2 79857 1t2jA 116 3.47e+01 1moq 368 3.48e+01 1moq c.80.1.1 35302 1o4rA 108 3.55e+01 d.93.1.1 92469 2fhzA 109 3.55e+01 1bykA 255 3.56e+01 1bykA c.93.1.1 35706 1s99A 200 3.58e+01 2b8nA 429 3.60e+01 2cbiA 594 3.60e+01 1uvqA 197 3.62e+01 b.1.1.2,d.19.1.1 100062,100063 2agyA 361 3.63e+01 1lf6A 684 3.64e+01 a.102.1.5,b.30.5.5 77918,77919 1x0vA 354 3.68e+01 1gycA 499 3.69e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1j0hA 588 3.73e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1a8y 367 3.73e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1bb8 71 3.73e+01 2bb8 d.10.1.1 37478 1vajA 214 3.73e+01 2bkdN 134 3.73e+01 1xg5A 279 3.75e+01 1o7iA 119 3.77e+01 b.40.4.3 86642 1wzlA 585 3.77e+01 1m22A 503 3.80e+01 c.117.1.1 78464 2bvcA 486 3.87e+01 2ervA 150 3.87e+01 1d3gA 367 3.94e+01 1d3gA c.1.4.1 28600 1rypI 222 3.98e+01 d.153.1.4 41877 1d8hA 311 3.99e+01 1d8iA d.63.1.1 39544 1dbqA 289 4.01e+01 1qpzA c.93.1.1 35666 1djrD 103 4.06e+01 3chbD b.40.2.1 24865 1reqA 727 4.09e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1q0rA 298 4.14e+01 c.69.1.28 95508 2a26A 50 4.15e+01 1jfzA 154 4.21e+01 a.149.1.1 66655 1d7uA 433 4.29e+01 2dkb c.67.1.4 34439 1rxdA 159 4.32e+01 1x1iA 752 4.33e+01 1o3yA 166 4.33e+01 c.37.1.8 86618 1weoA 93 4.37e+01 1iv3A 152 4.37e+01 d.79.5.1 76828 1mwwA 128 4.37e+01 d.80.1.4 91483 1vhcA 224 4.37e+01 c.1.10.1 100661 2czlA 272 4.38e+01 1gxuA 91 4.41e+01 d.58.10.1 76378 1ug6A 431 4.42e+01 c.1.8.4 88490 1i3zA 103 4.42e+01 d.93.1.1 83667 2aplA 157 4.43e+01 1xs1A 193 4.43e+01 1oo0A 147 4.46e+01 d.232.1.1 87182 1qgdA 662 4.46e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1cqmA 101 4.48e+01 1ris d.58.14.1 39321 1s8iA 121 4.48e+01 a.133.1.2 98735 1k1aA 241 4.48e+01 d.211.1.1 67992 2fdiA 211 4.51e+01 1t0hA 132 4.54e+01 b.34.2.1 106207 1ufkA 254 4.55e+01 c.66.1.39 99340 1nuyA 337 4.58e+01 e.7.1.1 86213 2cxxA 190 4.58e+01 2aexA 346 4.60e+01 1b9oA 123 4.62e+01 3lzt d.2.1.2 36597 1ftrA 296 4.63e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1nzaA 103 4.63e+01 d.58.5.2 86444 2trxA 108 4.63e+01 1thx c.47.1.1 32719 2gaiA 633 4.63e+01 1sddA 306 4.65e+01 b.6.1.3,b.6.1.3 105431,105432 1k8kB 394 4.67e+01 c.55.1.1 68307 1dzfA 215 4.68e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1xrkA 124 4.69e+01 1q0xH 221 4.70e+01 b.1.1.1,b.1.1.2 95517,95518 2aenA 164 4.71e+01 2gtrA 261 4.76e+01 1mgtA 174 4.79e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1btn 106 4.80e+01 1btn b.55.1.1 26952 2brcA 214 4.83e+01 2affB 44 4.85e+01 1zy9A 564 4.86e+01 1j1tA 233 4.86e+01 b.29.1.18 90771 1kqpA 271 4.88e+01 c.26.2.1 72883 1t95A 240 4.90e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1dqpA 230 4.95e+01 1dqnA c.61.1.1 34069 1zlqA 502 4.98e+01 1fc4A 401 5.02e+01 1bs0A c.67.1.4 59760 1tjyA 316 5.03e+01 c.93.1.1 107062 1zuwA 272 5.03e+01 2acy 98 5.12e+01 2acy d.58.10.1 39298 1vlaA 150 5.14e+01 d.227.1.2 108735 1r7mA 235 5.16e+01 1q0vA 81 5.19e+01 j.105.1.1 95514 1qahA 136 5.23e+01 d.79.1.1 96338 1el6A 219 5.28e+01 1el6B d.182.1.1 42606 2fcjA 119 5.34e+01 1ufwA 95 5.37e+01 d.58.7.1 99358 1f35A 162 5.37e+01 1f35A b.94.1.1 59628 2a6pA 208 5.37e+01 1ti5A 46 5.38e+01 2f4mA 295 5.40e+01 1pwgA 349 5.40e+01 e.3.1.1 104340 2ganA 190 5.41e+01 1zl0A 311 5.45e+01 1gudA 288 5.49e+01 c.93.1.1 83326 1xdnA 277 5.51e+01 1v72A 356 5.52e+01 1lo7A 141 5.53e+01 d.38.1.1 74144 1fvpA 231 5.53e+01 1nfp c.1.16.2 29556 1mg7A 417 5.54e+01 d.14.1.6,d.58.26.6 84954,84955 1yewC 289 5.54e+01 1wsrA 375 5.54e+01 1bd3A 243 5.67e+01 1bd3A c.61.1.1 34098 1jb0D 138 5.71e+01 1jb0D d.187.1.1 62823 3chbD 104 5.73e+01 3chbD b.40.2.1 24970 1rypF 233 5.76e+01 1rypF d.153.1.4 41937 1b5eA 246 5.79e+01 1b5eA d.117.1.1 41056 1mr3F 181 5.83e+01 c.37.1.8 79422 1g8aA 227 5.83e+01 c.66.1.3 90506 1ixcA 294 5.84e+01 a.4.5.37,c.94.1.1 83764,83765 1qfxA 460 5.86e+01 1qfxA c.60.1.2 33994 1em8A 147 5.91e+01 c.128.1.1 90457 1nv8A 284 5.99e+01 c.66.1.30 86224 1qusA 322 6.08e+01 1ltm d.2.1.6 36991 1crzA 403 6.09e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 2g1uA 155 6.13e+01 1dbfA 127 6.17e+01 2chsA d.79.1.2 39761 1vjzA 341 6.17e+01 c.1.8.3 100838 1xd3A 230 6.21e+01 1wkqA 164 6.27e+01 c.97.1.2 109393 1bia 321 6.29e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 2agaA 190 6.31e+01 1utyA 187 6.31e+01 b.147.1.1 108036 1o7nA 449 6.32e+01 b.33.1.2,d.129.3.3 81162,81163 2gasA 307 6.32e+01 1mhqA 148 6.36e+01 a.118.9.2 84973 1jwqA 179 6.41e+01 c.56.5.6 90921 1ayl 541 6.42e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1n4wA 504 6.46e+01 c.3.1.2,d.16.1.1 91676,91677 1guuA 52 6.47e+01 a.4.1.3 83332 2fswA 107 6.54e+01 1ztsA 139 6.59e+01 1qf5A 431 6.60e+01 1adeA c.37.1.10 32212 1oo2A 119 6.61e+01 b.3.4.1 93372 2fd6U 276 6.62e+01 1zd9A 188 6.63e+01 1a78A 134 6.65e+01 1c1lA b.29.1.3 24212 1z2lA 423 6.71e+01 1onwA 390 6.74e+01 b.92.1.7,c.1.9.13 87172,87173 1q8iA 783 6.83e+01 c.55.3.5,e.8.1.1 96208,96209 1ii7A 333 6.85e+01 1ii7A d.159.1.4 62415 1nlnA 204 6.86e+01 d.3.1.7 91962 1zd0A 150 6.89e+01 1yhvA 297 6.90e+01 1up8A 598 6.97e+01 a.111.1.2 99710 1j09A 468 7.00e+01 a.97.1.1,c.26.1.1 77025,77026 1sgoA 139 7.01e+01 d.82.3.1 98857 1w8sA 263 7.02e+01 1xqaA 113 7.03e+01 1fy7A 278 7.09e+01 1fy7A d.108.1.1 40817 1zejA 293 7.09e+01 1u6zA 513 7.22e+01 1g2yA 32 7.24e+01 a.34.2.1 17003 1t0qC 86 7.24e+01 d.15.12.1 106222 1ww9A 392 7.24e+01 1wcgA 464 7.26e+01 1zxxA 319 7.31e+01 1fehA 574 7.32e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1h65A 270 7.39e+01 c.37.1.8 65640 1wp5A 323 7.46e+01 1sq5A 308 7.48e+01 c.37.1.6 105882 1tiqA 180 7.48e+01 d.108.1.1 107010 1pl4A 198 7.51e+01 a.2.11.1,d.44.1.1 94854,94855 1yz1A 174 7.52e+01 2f0aA 98 7.53e+01 2czrA 226 7.58e+01 1b3tA 147 7.58e+01 1b3tA d.58.8.1 39228 1tkiA 321 7.60e+01 1tkiA d.144.1.7 41638 1oheA 348 7.63e+01 c.45.1.1,c.45.1.1 87013,87014 2axtH 66 7.65e+01 2bc4A 211 7.69e+01 2a5hA 416 7.72e+01 1b93A 152 7.76e+01 1b93A c.24.1.2 31507 2bjvA 265 7.77e+01 1jykA 254 7.77e+01 c.68.1.13 67458 1g8iA 190 7.79e+01 1rec a.39.1.5 60363 2fnoA 248 7.80e+01 1p1lA 102 7.81e+01 d.58.5.2 87695 1umgA 362 7.83e+01 d.280.1.1 107956 1i6lA 328 7.87e+01 c.26.1.1 66041 1xniA 118 7.88e+01 1vc1A 110 7.89e+01 c.13.2.1 108493 1yqsA 349 7.90e+01 1jbwA 428 7.91e+01 c.59.1.2,c.72.2.2 62860,62861 1p9yA 121 7.94e+01 d.241.2.1 94402 1z57A 339 7.94e+01 1b00A 127 7.97e+01 3chy c.23.1.1 31122 1q5yA 85 8.03e+01 d.58.18.4 95950 1eumA 165 8.05e+01 1eumA a.25.1.1 59507 2cy2A 174 8.10e+01 2exrA 524 8.10e+01 1t6t1 118 8.13e+01 1xi1A 575 8.13e+01 2b20A 403 8.15e+01 1i4yA 114 8.19e+01 2mhr a.24.4.1 61738 1l8bA 190 8.19e+01 d.86.1.1 73683 1w9cA 321 8.20e+01 2freA 200 8.23e+01 1whrA 124 8.36e+01 2ddrA 306 8.36e+01 1z8uA 102 8.39e+01 1gnxA 479 8.40e+01 c.1.8.4 76241 1lxjA 104 8.49e+01 d.58.48.1 84736 1vjqA 79 8.49e+01 k.43.1.1 100830 1nkgA 508 8.52e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1hf8A 289 8.57e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1zbpA 273 8.59e+01 1s6cA 183 8.60e+01 a.39.1.5 98594 2fulA 178 8.66e+01 1zgzA 122 8.74e+01 1vhnA 318 8.76e+01 c.1.4.1 100693 1brwA 433 8.79e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2f57A 317 8.80e+01 1ztuA 341 8.85e+01 1r8sA 164 8.89e+01 c.37.1.8 97247 1t5iA 172 8.90e+01 c.37.1.19 106450 1z4eA 153 8.94e+01 1z7aA 308 8.94e+01 2bnlA 136 8.95e+01 1z2uA 150 8.95e+01 1uv4A 293 8.96e+01 1ykhB 132 8.96e+01