# List of top-scoring protein chains for t06-100-30-o_sep-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 1xqaA 113 8.48e-02 1swvA 267 1.78e-01 1u9aA 160 1.91e-01 1u9aA d.20.1.1 38333 1nepA 130 2.29e-01 b.1.18.7 80440 1wxcB 134 2.79e-01 2a3qA 170 3.19e-01 1h6dA 433 4.46e-01 c.2.1.3,d.81.1.5 65656,65657 2grrA 161 5.13e-01 1a8y 367 6.80e-01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1b7yA 350 9.17e-01 1pysA d.104.1.1 40776 1ov2A 99 9.77e-01 a.13.1.1 93580 1rypA 243 9.86e-01 1pmaA d.153.1.4 41932 1yovA 537 1.03e+00 2ap1A 327 1.05e+00 1g4wR 383 1.09e+00 1g4uS a.24.11.1,c.45.1.2 16644,32692 1aj8A 371 1.14e+00 1aj8A a.103.1.1 18900 1rxdA 159 1.47e+00 1wg8A 285 1.49e+00 1jl5A 454 1.50e+00 c.10.2.6 66830 1z5bA 469 1.64e+00 1vhnA 318 1.79e+00 c.1.4.1 100693 1jy2O 56 1.84e+00 h.1.8.1 67441 2aeuA 374 1.94e+00 2bpsA 81 1.95e+00 1sjiA 350 2.10e+00 2ahqA 76 2.23e+00 1t6cA 315 2.23e+00 c.55.1.8,c.55.1.8 106558,106559 1ig5A 75 2.23e+00 4icb a.39.1.1 62363 1b5pA 385 2.35e+00 c.67.1.1 90403 1wx1A 335 2.40e+00 1h2kA 349 2.42e+00 b.82.2.6 76572 1e9rA 437 2.59e+00 c.37.1.11 64827 1uujA 88 2.84e+00 a.221.1.1 108046 1ggzA 148 3.00e+00 a.39.1.5 70176 1td6A 306 3.01e+00 1tvlA 454 3.18e+00 c.1.16.4 107366 1jggA 60 3.33e+00 2hddA a.4.1.1 62950 2fi9A 128 3.48e+00 1g8iA 190 3.54e+00 1rec a.39.1.5 60363 1zo0A 126 3.56e+00 1fy7A 278 3.57e+00 1fy7A d.108.1.1 40817 1zy9A 564 3.64e+00 1omrA 201 3.73e+00 a.39.1.5 93349 2fupA 168 3.77e+00 1fseA 74 3.91e+00 1fseA a.4.6.2 60000 1akz 223 3.93e+00 3eugA c.18.1.1 31007 1jpzA 473 4.06e+00 a.104.1.1 67069 1sk4A 163 4.08e+00 d.118.1.1 105664 1gqeA 365 4.19e+00 e.38.1.1 70351 1wijA 140 4.22e+00 2al6A 375 4.67e+00 1w9yA 319 4.71e+00 1n2zA 245 4.84e+00 c.92.2.2 79865 2f46A 156 4.95e+00 1rgyA 360 5.05e+00 e.3.1.1 97456 2dfkA 402 5.21e+00 1xdfA 157 5.25e+00 1sziA 247 5.26e+00 a.24.23.1 106159 1exrA 148 5.37e+00 1cll a.39.1.5 17299 1yirA 408 5.43e+00 1upqA 123 5.46e+00 2ajrA 331 5.66e+00 2cxvA 219 5.69e+00 1gu7A 364 5.81e+00 b.35.1.2,c.2.1.1 83321,83322 1yge 839 5.95e+00 1yge a.119.1.1,b.12.1.1 19234,23634 1yoeA 322 5.98e+00 1na6A 404 6.16e+00 b.142.1.1,c.52.1.22 91748,91749 1tqgA 105 6.17e+00 a.24.10.3 107224 1uj8A 77 6.31e+00 1mkiA 330 6.32e+00 e.3.1.2 84994 1z8uA 102 6.37e+00 1r1qA 100 6.44e+00 d.93.1.1 104763 1ayaA 101 6.58e+00 1qadA d.93.1.1 40460 1ajsA 412 6.91e+00 1ajsA c.67.1.1 34276 1zb1A 392 6.92e+00 2fjlA 150 7.07e+00 1musA 477 7.19e+00 c.55.3.4 79494 1yvhA 329 7.22e+00 1gpr 162 7.33e+00 1gpr b.84.3.1 28267 2a08A 60 7.38e+00 1jyrA 96 7.56e+00 d.93.1.1 71969 1lngA 87 7.60e+00 d.201.1.1 74045 1wmhA 89 7.62e+00 1wp5A 323 7.64e+00 1hn0A 1021 7.66e+00 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1gs9A 165 7.79e+00 a.24.1.1 83313 1qj4A 257 7.79e+00 1qj4A c.69.1.20 34796 1sauA 115 7.84e+00 1pmmA 466 7.84e+00 c.67.1.6 94901 1nvvS 481 7.97e+00 a.117.1.1 86279 1a92A 50 8.39e+00 1a92A h.4.6.1 45791 2f3yA 148 8.41e+00 1zvaA 77 8.42e+00 2a5lA 200 8.48e+00 1nkpB 83 8.58e+00 a.38.1.1 80574 1i5pA 633 8.77e+00 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1m32A 366 8.77e+00 c.67.1.3 78508 2cs7A 55 8.79e+00 1nlwB 76 8.81e+00 a.38.1.1 80634 1vgmA 378 8.91e+00 1npeA 267 8.98e+00 b.68.5.1 92032 1ii7A 333 9.15e+00 1ii7A d.159.1.4 62415 1xawA 140 9.38e+00 1xn5A 146 9.41e+00 2cohA 202 9.46e+00 1e58A 249 9.48e+00 1qhfA c.60.1.1 59262 1qp6A 35 9.49e+00 1qp6A k.16.1.1 46443 1qgtA 149 9.49e+00 1qgtA a.62.1.1 18135 1fipA 98 9.56e+00 1fipA a.4.1.12 18980 1neu 124 9.59e+00 1neu b.1.1.1 19704 2bogX 286 9.79e+00 2gh1A 301 9.86e+00 1lvfA 110 1.01e+01 a.47.2.1 74280 1yx1A 264 1.01e+01 1qgvA 142 1.03e+01 1qgvA c.47.1.8 33056 2f2lA 167 1.04e+01 1v54E 109 1.07e+01 a.118.11.1 100326 1wdtA 665 1.09e+01 1obbA 480 1.10e+01 c.2.1.5,d.162.1.2 86760,86761 1w77A 228 1.13e+01 1xm7A 195 1.13e+01 2c60A 111 1.17e+01 1zgdA 312 1.19e+01 1w78A 422 1.19e+01 1lkkA 105 1.19e+01 1lckA d.93.1.1 40412 1ursA 402 1.20e+01 c.94.1.1 99833 1h3qA 140 1.20e+01 d.110.4.3 76652 1uwcA 261 1.20e+01 c.69.1.17 100101 1vquA 374 1.20e+01 1stzA 338 1.21e+01 a.4.5.51,d.110.2.3 106009,106010 1yzsA 121 1.21e+01 1jiwI 106 1.24e+01 1smpI b.61.2.1 63078 1ztcA 221 1.24e+01 1r4pB 70 1.25e+01 b.40.2.1 97026 2h88C 140 1.25e+01 1wgzA 510 1.25e+01 1u5uA 374 1.25e+01 1pzlA 237 1.27e+01 a.123.1.1 104393 1s1qA 145 1.29e+01 d.20.1.2 98351 1qx2A 76 1.31e+01 a.39.1.1 104622 2g7uA 257 1.31e+01 1k1fA 72 1.32e+01 a.147.1.1 68007 1kllA 130 1.33e+01 d.32.1.2 72720 2fbwC 141 1.33e+01 1q9uA 130 1.33e+01 d.129.7.1 96314 1vs0A 310 1.34e+01 1nbwA 607 1.34e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1qpcA 279 1.35e+01 1fgkA d.144.1.7 41685 1sg7A 96 1.35e+01 1xw3A 110 1.36e+01 1go4A 205 1.37e+01 d.135.1.1 70292 2es9A 115 1.37e+01 1iirA 415 1.37e+01 1iirA c.87.1.5 62453 1mai 131 1.38e+01 1mai b.55.1.1 26951 1zxq 192 1.38e+01 1zxq b.1.1.3,b.1.1.4 21657,21693 1oxwA 373 1.39e+01 c.19.1.3 87539 1k20A 310 1.39e+01 c.107.1.1 68027 2d2sA 235 1.41e+01 1t7lA 766 1.41e+01 1h97A 147 1.42e+01 1h97A a.1.1.2 60812 1thtA 305 1.42e+01 1thtA c.69.1.13 34711 1vggA 161 1.43e+01 1a41 234 1.43e+01 1a41 d.163.1.2 42174 1kveB 77 1.43e+01 1kveB 1wvqA 167 1.43e+01 2bh8A 101 1.43e+01 1vmeA 410 1.45e+01 c.23.5.1,d.157.1.3 108893,108894 1suuA 312 1.46e+01 b.68.10.1 99006 2bycA 137 1.48e+01 1gpjA 404 1.48e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2cglA 489 1.49e+01 1h3oB 76 1.53e+01 a.22.1.3 76645 1ylxA 103 1.54e+01 1u19A 349 1.54e+01 1wzvA 155 1.55e+01 1vf6A 83 1.55e+01 a.194.1.1 100600 1ldfA 281 1.58e+01 f.19.1.1 73845 1sxrA 183 1.60e+01 d.118.1.1 106101 1sflA 238 1.60e+01 1jflA 228 1.62e+01 c.78.2.1,c.78.2.1 71656,71657 1zvkA 358 1.62e+01 1p1lA 102 1.62e+01 d.58.5.2 87695 1euvB 86 1.63e+01 1a5r d.15.1.1 37598 1gyhA 318 1.65e+01 b.67.2.1 70757 1a6q 382 1.69e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 2cunA 410 1.71e+01 1uvqA 197 1.74e+01 b.1.1.2,d.19.1.1 100062,100063 1em9A 154 1.76e+01 1d1dA a.73.1.1 18333 1q1vA 70 1.76e+01 a.159.4.1 104479 1s3sG 127 1.77e+01 d.15.1.2 98457 1yf9A 171 1.77e+01 1zcjA 463 1.78e+01 1hs7A 97 1.78e+01 1hs7A a.47.2.1 61236 1gmjA 84 1.81e+01 h.4.8.1 65310 2iugA 120 1.83e+01 2fj6A 82 1.83e+01 1ykuA 136 1.83e+01 1go4E 100 1.84e+01 h.1.22.1 70296 1p5zB 263 1.85e+01 c.37.1.1 87815 1hcd 118 1.86e+01 1hce b.42.5.2 25624 1g4iA 123 1.86e+01 1poa a.133.1.2 60241 2fa8A 105 1.88e+01 1r0uA 148 1.88e+01 b.60.1.5 96741 1vknA 351 1.89e+01 c.2.1.3,d.81.1.1 108676,108677 1n4xH 120 1.90e+01 b.1.1.1 85324 1iomA 377 1.93e+01 a.103.1.1 83698 2evaA 307 1.93e+01 1xx1A 285 1.95e+01 1ub0A 258 1.96e+01 c.72.1.2 88394 2d81A 318 1.98e+01 1yxmA 303 1.99e+01 1ln1A 214 2.00e+01 d.129.3.2 74038 1avsA 90 2.02e+01 1cll a.39.1.5 17226 1tjoA 182 2.02e+01 1twiA 434 2.02e+01 b.49.2.3,c.1.6.1 107399,107400 1btkA 169 2.04e+01 1btkA b.55.1.1 26959 1u58A 253 2.06e+01 1yliA 153 2.06e+01 1z2mA 155 2.06e+01 1ehyA 294 2.08e+01 1ehyA c.69.1.11 34693 1yzmA 51 2.08e+01 1li5A 461 2.09e+01 a.27.1.1,c.26.1.1 73912,73913 1v4pA 157 2.09e+01 1zczA 464 2.10e+01 1qnrA 344 2.10e+01 1qnoA c.1.8.3 28834 1gwiA 411 2.11e+01 a.104.1.1 76364 2dgkA 452 2.12e+01 1xk7A 408 2.13e+01 2bkkA 264 2.14e+01 1o04A 500 2.14e+01 c.82.1.1 86508 2ghcX 261 2.16e+01 1ki1B 352 2.18e+01 a.87.1.1,b.55.1.1 72497,72498 1shuX 182 2.19e+01 c.62.1.1 98882 2fymA 431 2.21e+01 1twuA 139 2.23e+01 d.32.1.8 107413 1ty0A 211 2.26e+01 b.40.2.2,d.15.6.1 107440,107441 1uliB 187 2.28e+01 d.17.4.4 107923 1yq2A 1024 2.30e+01 1hywA 68 2.30e+01 1hywA d.186.1.1 61425 1zhcA 76 2.35e+01 1ootA 60 2.35e+01 b.34.2.1 93386 2bwfA 77 2.36e+01 1o5kA 306 2.38e+01 c.1.10.1 92504 1w3iA 293 2.38e+01 c.1.10.1 109152 2ftxA 90 2.40e+01 1lu4A 136 2.42e+01 c.47.1.10 91124 1zkjA 359 2.44e+01 1vqoM 195 2.44e+01 1dq3A 454 2.48e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1jdc 429 2.50e+01 1jdc b.71.1.1,c.1.8.1 27789,28776 1flmA 122 2.51e+01 1axj b.45.1.1 25747 1sx7A 164 2.52e+01 1x1rA 178 2.53e+01 1mlwA 301 2.53e+01 d.178.1.1 79289 2g50A 530 2.53e+01 1d9cA 121 2.53e+01 1d9cA a.26.1.3 16901 1n82A 331 2.55e+01 c.1.8.3 91703 2f96A 224 2.56e+01 1cpq 129 2.57e+01 1cpq a.24.3.2 16556 1r71A 178 2.59e+01 a.4.14.1 104823 1u2eA 289 2.61e+01 1qf8A 182 2.63e+01 1qf8A g.41.4.1 45212 1l6pA 125 2.63e+01 b.1.17.1 73626 2db0A 253 2.64e+01 1r8sA 164 2.64e+01 c.37.1.8 97247 1z21A 112 2.64e+01 1kr4A 125 2.65e+01 d.58.5.2 72889 1i76A 163 2.68e+01 1hfc d.92.1.11 61877 1l7yA 94 2.69e+01 d.15.1.6 73676 1z06A 189 2.69e+01 1g4yB 101 2.70e+01 1g4yB f.15.1.1 60251 1pmi 440 2.73e+01 1pmi b.82.1.3 28114 1wu4A 396 2.74e+01 1c7gA 456 2.76e+01 c.67.1.2 90415 1wpnA 188 2.77e+01 1ro0A 216 2.77e+01 d.264.1.2 97664 1vqoV 71 2.78e+01 1l8nA 679 2.81e+01 c.1.8.10,d.92.2.2 84564,84565 1i7nA 309 2.82e+01 c.30.1.5,d.142.1.3 83681,83682 1f7zA 233 2.83e+01 5ptp b.47.1.2 59681 1qipA 183 2.86e+01 1qipA d.32.1.1 38470 1r8iA 213 2.88e+01 a.8.7.1 97239 1vctA 205 2.92e+01 1guxA 218 2.97e+01 1guxA a.74.1.3 18388 1ywzA 175 2.99e+01 1yckA 175 3.00e+01 1oafA 261 3.02e+01 a.93.1.1 86734 1uyrA 737 3.03e+01 c.14.1.4,c.14.1.4 100188,100189 7aatA 401 3.06e+01 1ajsA c.67.1.1 34250 1ah7 245 3.06e+01 1ah7 a.124.1.1 19339 1m4vA 204 3.07e+01 b.40.2.2,d.15.6.1 74459,74460 2f7fA 494 3.12e+01 2fauA 341 3.12e+01 1c44A 123 3.13e+01 1qndA d.106.1.1 40795 1y88A 199 3.16e+01 1h32B 138 3.16e+01 a.3.1.1 76620 1eqfA 280 3.19e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1ucpA 91 3.20e+01 a.77.1.5 99186 1ww9A 392 3.21e+01 2az0A 73 3.21e+01 1dofA 403 3.24e+01 1c3cA a.127.1.1 19429 1jatA 155 3.24e+01 1u9aA d.20.1.1 62818 1y44A 320 3.26e+01 1o54A 277 3.27e+01 c.66.1.13 92482 2f02A 323 3.33e+01 1i9zA 347 3.35e+01 1i9yA d.151.1.2 62102 1q4gA 553 3.35e+01 a.93.1.2,g.3.11.1 95789,95790 1z77A 200 3.35e+01 1odoA 408 3.36e+01 a.104.1.1 92783 1opjA 293 3.38e+01 d.144.1.7 87230 1zxtA 76 3.39e+01 2a4aA 281 3.39e+01 1uv7A 110 3.40e+01 d.67.4.1 100040 1w6sB 74 3.41e+01 1qxyA 252 3.42e+01 d.127.1.1 96565 1xbbA 291 3.44e+01 1d1qA 161 3.47e+01 1dg9A c.44.1.1 32642 1ztpA 251 3.48e+01 2b8nA 429 3.49e+01 1fjlA 81 3.51e+01 2hddA a.4.1.1 16017 8rucI 123 3.52e+01 1rboC d.73.1.1 39629 1t6fA 37 3.52e+01 h.1.28.1 106565 1qhxA 178 3.55e+01 1qhsA c.37.1.3 31936 1g8kA 825 3.56e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1p5fA 189 3.57e+01 c.23.16.2 94142 2fp7A 54 3.57e+01 1btn 106 3.58e+01 1btn b.55.1.1 26952 1l8dA 112 3.60e+01 h.4.12.1 73687 1wnyA 186 3.60e+01 1g94A 448 3.64e+01 b.71.1.1,c.1.8.1 65169,65170 1yw5A 177 3.65e+01 2ffsA 157 3.68e+01 2ga9D 469 3.73e+01 2bcfA 276 3.74e+01 1o26A 232 3.74e+01 d.207.1.1 86566 1udzA 182 3.76e+01 b.51.1.1 99239 1dpo 223 3.80e+01 5ptp b.47.1.2 25975 2df7A 458 3.81e+01 2cybA 323 3.82e+01 1ci4A 89 3.84e+01 1qckA a.60.5.1 17970 1zklA 353 3.85e+01 1tt8A 164 3.85e+01 1ail 73 3.86e+01 1ail a.16.1.1 16381 1yn3A 98 3.87e+01 1zsoA 164 3.90e+01 1wdcC 156 3.94e+01 1wdcC a.39.1.5 17317 2c6cA 707 3.95e+01 1f3vA 179 3.97e+01 1f3vA d.58.22.1 39382 1wycA 392 3.98e+01 2sqcA 631 3.98e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1umqA 81 4.00e+01 a.4.1.12 99625 1nr4A 71 4.02e+01 d.9.1.1 92077 1yz4A 160 4.04e+01 1mwvA 714 4.04e+01 a.93.1.3,a.93.1.3 85161,85162 1jigA 146 4.05e+01 a.25.1.1 71685 1ppjD 241 4.06e+01 a.3.1.3,f.23.11.1 104258,104259 4ubpA 101 4.06e+01 1ubpA d.8.1.1 37352 1usmA 80 4.07e+01 d.74.1.1 99876 2ga1A 106 4.08e+01 1ckmA 330 4.08e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 7odcA 424 4.10e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1ecrA 309 4.12e+01 1ecrA e.2.1.1 42678 2aotA 292 4.12e+01 1xffA 240 4.13e+01 d.153.1.1 109580 1qyaA 307 4.14e+01 d.21.1.2,d.21.1.2 104653,104654 1pytA 94 4.15e+01 1pytA d.58.3.1 39064 1kl9A 182 4.18e+01 b.40.4.5 72681 2c31A 568 4.21e+01 1vjlA 164 4.22e+01 d.257.1.1 100822 1luzA 88 4.24e+01 b.40.4.5 74271 1ng2A 193 4.25e+01 b.34.2.1,b.34.2.1 85660,85661 1rgzA 363 4.26e+01 e.3.1.1 97457 2fikA 287 4.26e+01 1jalA 363 4.27e+01 c.37.1.8,d.15.10.2 84138,84139 2c0rA 362 4.28e+01 2cr9A 139 4.29e+01 1t2bA 397 4.31e+01 1o0yA 260 4.33e+01 c.1.10.1 80756 1oewA 329 4.34e+01 b.50.1.2 86924 1bhdA 118 4.34e+01 1bkrA a.40.1.1 17398 1r48A 35 4.35e+01 h.4.15.1 96981 1jatB 138 4.39e+01 1jatB d.20.1.1 62819 1z83A 196 4.40e+01 1yxcA 292 4.41e+01 1t0qB 330 4.42e+01 a.25.1.2 106221 1g6aA 271 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