# List of top-scoring protein chains for t04-100-30-n_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 1fxoA 293 4.35e-01 1g0rA c.68.1.6 34524 2gdnA 267 4.52e-01 2h3bA 494 5.35e-01 1mp4A 292 7.56e-01 c.68.1.6 79376 1jmxA 494 8.77e-01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 2fflA 756 9.90e-01 1h12A 405 1.53e+00 a.102.1.2 83447 1xwtA 405 1.58e+00 1xw2A 405 1.64e+00 1y6hA 177 1.68e+00 1uvjA 664 1.97e+00 e.8.1.6 100045 1b65A 375 2.01e+00 1b65A d.154.1.1 42020 1t3cA 421 2.06e+00 d.92.1.7 106343 1fc6A 388 2.20e+00 1fc6A b.36.1.3,c.14.1.2 64738,64739 1d0vA 356 2.35e+00 1d0vA c.39.1.1 32476 1ynmA 247 2.53e+00 1xdpA 687 2.99e+00 1rtfB 252 3.55e+00 5ptp 1twuA 139 3.66e+00 d.32.1.8 107413 1gteA 1025 3.77e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1qksA 567 4.30e+00 1qksA a.3.1.2,b.70.2.1 15951,27710 1bs4A 168 4.43e+00 1bs4A d.167.1.1 42287 1g2aA 168 5.13e+00 d.167.1.1 65109 1xeoA 168 5.18e+00 1mc0A 368 5.95e+00 d.110.2.1,d.110.2.1 78937,78938 1u04A 771 6.17e+00 b.34.14.1,c.55.3.10 107539,107540 2aaa 484 6.19e+00 7taa b.71.1.1,c.1.8.1 27777,28764 1r6dA 337 6.73e+00 c.2.1.2 97148 1d3vA 323 6.82e+00 1d3vA c.42.1.1 32559 1zkjA 359 7.33e+00 1g6aA 271 7.34e+00 1btl e.3.1.1 42704 2b18A 164 7.37e+00 1b7gO 340 7.39e+00 1b7gO c.2.1.3,d.81.1.1 29992,39907 1pc3A 350 7.66e+00 c.94.1.1 104102 1ktaA 365 7.71e+00 e.17.1.1 77533 2fug1 438 7.81e+00 2c1xA 456 8.47e+00 1e5eA 404 8.51e+00 1ibjA c.67.1.3 59265 1bsg 266 8.65e+00 1btl e.3.1.1 42729 1kbpA 432 9.56e+00 4kbpA b.1.12.1,d.159.1.1 22349,42068 2ccqA 99 9.75e+00 1zvdA 380 1.01e+01 1un7A 400 1.01e+01 b.92.1.5,c.1.9.10 99657,99658 1ndh 272 1.05e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1fmtA 314 1.10e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1qyiA 384 1.15e+01 c.108.1.13 96595 2d1eA 248 1.16e+01 2cx9A 387 1.19e+01 1td2A 287 1.25e+01 c.72.1.5 106765 1top 162 1.30e+01 1ncx a.39.1.5 17223 6mhtA 327 1.34e+01 6mhtA c.66.1.26 34226 1lf2A 331 1.36e+01 b.50.1.2 77914 1vprA 374 1.37e+01 1k0wA 231 1.38e+01 c.74.1.1 77220 1ikoP 178 1.43e+01 b.6.1.5 71243 1poiA 317 1.45e+01 1poiA c.124.1.2 34153 1qhdA 398 1.52e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1d8hA 311 1.53e+01 1d8iA d.63.1.1 39544 1yloA 348 1.57e+01 2bx2L 517 1.57e+01 1fxlA 167 1.57e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1rlmB 271 1.59e+01 1l0lB 439 1.60e+01 d.185.1.1,d.185.1.1 84484,84485 1g5gA 481 1.64e+01 f.12.1.1,h.3.2.1 65155,65156 1p3dA 475 1.65e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1afwA 393 1.68e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1ydnA 295 1.75e+01 1nu5A 370 1.76e+01 c.1.11.2,d.54.1.1 92183,92184 1q2bA 434 1.78e+01 b.29.1.10 95624 2hbg 147 1.80e+01 2hbg a.1.1.2 15014 3sil 379 1.82e+01 3sil b.68.1.1 27542 1d0cA 444 1.84e+01 d.174.1.1 64769 1khbA 625 1.88e+01 c.91.1.1,c.109.1.1 68606,68607 1aohA 147 1.89e+01 1aohA b.2.2.2 22401 1ly1A 181 1.93e+01 c.37.1.1 74334 1yymG 313 1.97e+01 1fgs 428 1.99e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1dt9A 437 1.99e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 2a1hA 365 2.01e+01 1w7lA 422 2.02e+01 c.67.1.1 109226 2ervA 150 2.06e+01 1xkzA 255 2.09e+01 1nqeA 594 2.10e+01 f.4.3.3 86027 1ytvA 366 2.12e+01 1rliA 184 2.14e+01 c.23.5.6 97647 3htsB 102 2.15e+01 2hts a.4.5.22 16175 1f0cA 305 2.16e+01 1c8oA e.1.1.1 42676 1rfs 139 2.17e+01 1rfs b.33.1.1 24434 2ffcA 353 2.20e+01 1vns 609 2.21e+01 1vns a.111.1.3 19061 1dixA 208 2.22e+01 1bk7A d.124.1.1 41122 2dpmA 284 2.22e+01 2dpmA c.66.1.28 34246 1g87A 614 2.25e+01 a.102.1.2,b.2.2.2 83275,83276 1gbg 214 2.27e+01 1axkA b.29.1.2 24171 1tu1A 148 2.28e+01 d.107.1.3 107316 1qopB 396 2.30e+01 2tysB c.79.1.1 35270 1uteA 313 2.32e+01 1uteA d.159.1.1 42078 1jf9A 408 2.41e+01 1c0nA c.67.1.3 62931 1aym3 238 2.53e+01 1aym3 1up8A 598 2.57e+01 a.111.1.2 99710 1f5nA 592 2.62e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1ga8A 311 2.64e+01 1ga8A c.68.1.4 34516 1g55A 343 2.66e+01 1g55A c.66.1.26 34247 2bvyA 475 2.66e+01 1x0cA 549 2.66e+01 1hr6B 443 2.73e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1wruA 379 2.83e+01 1wp5A 323 2.98e+01 1kutA 230 2.98e+01 d.143.1.1 73017 2ghsA 326 2.99e+01 1ve4A 206 2.99e+01 1c3hA 137 3.03e+01 b.22.1.1 90405 1vl2A 421 3.06e+01 c.26.2.1,d.210.1.1 108708,108709 1rl4A 188 3.07e+01 d.167.1.1 97636 1c8zA 265 3.12e+01 1c8zA d.23.1.1 38375 1j7xA 302 3.14e+01 c.14.1.2 66425 1r85A 379 3.16e+01 c.1.8.3 104839 2g30A 258 3.30e+01 1dbhA 354 3.30e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1dkiA 371 3.37e+01 1dkiA d.3.1.1 37090 2fr1A 486 3.38e+01 1ssqA 267 3.42e+01 b.81.1.6 105993 1tqyA 424 3.44e+01 c.95.1.1,c.95.1.1 107245,107246 1ru8A 232 3.48e+01 c.26.2.1 97849 1k0fA 277 3.51e+01 c.92.2.2 71974 1edzA 320 3.51e+01 1ee9A c.2.1.7,c.58.1.2 30287,33935 2ez3A 302 3.53e+01 1k07A 263 3.63e+01 d.157.1.1 77218 1c2pA 576 3.64e+01 1quvA e.8.1.4 43117 1o0uA 429 3.67e+01 c.118.1.1 80743 1sxgA 280 3.68e+01 1zyeA 220 3.75e+01 1i50A 1733 3.76e+01 e.29.1.2 61754 1nfkA 325 3.76e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 1gg4A 452 3.76e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1rpnA 335 3.77e+01 c.2.1.2 97708 1sqnA 261 3.77e+01 a.123.1.1 105944 1k32A 1045 3.78e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1tltA 319 3.84e+01 c.2.1.3,d.81.1.5 107135,107136 1f5mA 180 3.89e+01 1f5mB d.110.2.1 40895 1umkA 275 3.99e+01 1lw6E 281 4.00e+01 c.41.1.1 74293 1gvjA 146 4.01e+01 a.4.5.21 90525 2cwsA 237 4.05e+01 1mhyD 521 4.06e+01 1mhyD a.25.1.2 16780 1pcxA 810 4.10e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 2biqA 219 4.11e+01 2fp4B 395 4.12e+01 1u1jA 765 4.15e+01 c.1.22.2,c.1.22.2 107590,107591 1jmcA 246 4.19e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1u1hA 765 4.20e+01 c.1.22.2,c.1.22.2 107580,107581 1xwfA 431 4.23e+01 2cjtA 131 4.28e+01 1yp1A 202 4.32e+01 1qfmA 710 4.34e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 2f6uA 234 4.40e+01 1apyB 141 4.40e+01 1apyB 2a6hD 1524 4.41e+01 1kaeA 434 4.41e+01 c.82.1.2 72247 1cr5A 189 4.45e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1zbpA 273 4.45e+01 1sh7A 284 4.51e+01 1sdiA 213 4.57e+01 a.198.1.1 105437 1ta9A 450 4.57e+01 1sznA 417 4.58e+01 b.71.1.1,c.1.8.1 106162,106163 1egnA 434 4.59e+01 1celA b.29.1.10 59411 1sr4A 206 4.61e+01 b.42.2.1 105948 1ojjA 402 4.61e+01 b.29.1.10 93130 2b7kA 200 4.61e+01 1g1sA 162 4.61e+01 d.169.1.1,g.3.11.1 65100,65101 1bb9 115 4.64e+01 1bb9 b.34.2.1 24554 1ua7A 422 4.65e+01 b.71.1.1,c.1.8.1 107759,107760 1kewA 361 4.65e+01 c.2.1.2 68544 1kwfA 363 4.65e+01 a.102.1.2 73078 1cb8A 678 4.72e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1sy3A 184 4.72e+01 b.60.1.1 106110 1wnfA 328 4.74e+01 1qxrA 189 4.81e+01 b.82.1.7 96552 1oflA 481 4.82e+01 b.80.1.4 103934 1je6A 275 4.85e+01 b.1.1.2,d.19.1.1 71638,71639 1fnc 314 4.96e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1ogsA 497 4.96e+01 b.71.1.2,c.1.8.3 86997,86998 1x82A 190 4.99e+01 2blnA 305 5.04e+01 1ex7A 186 5.05e+01 1gky c.37.1.1 59537 1amx 180 5.10e+01 1amx b.2.3.1 22410 1vpmA 169 5.10e+01 2gjlA 328 5.17e+01 1dd9A 338 5.18e+01 1dd9A e.13.1.1 43254 1itwA 741 5.22e+01 c.77.1.2 76793 1twfA 1733 5.31e+01 2cwzA 141 5.32e+01 1eo9B 241 5.35e+01 3pchM b.3.6.1 22826 1mnaA 298 5.37e+01 c.69.1.22 79322 2a14A 263 5.40e+01 1qy5A 269 5.41e+01 d.122.1.1 96573 1zdrA 164 5.41e+01 1ifrA 121 5.41e+01 b.1.16.1 71203 1mkaA 171 5.44e+01 1mkaA d.38.1.2 38543 2afwA 329 5.52e+01 2a77H 222 5.53e+01 1eejA 216 5.60e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1ooyA 481 5.63e+01 c.124.1.3,c.124.1.2 93388,93389 1h09A 338 5.68e+01 b.109.1.1,c.1.8.8 83420,83421 1gctA 245 5.70e+01 5ptp b.47.1.2 26021 2gx9A 129 5.71e+01 1ei6A 406 5.80e+01 c.76.1.4 90443 1hdhA 536 5.80e+01 c.76.1.2 65805 1mmiA 366 5.81e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1xvjA 109 5.84e+01 1nt0A 286 5.86e+01 b.23.1.1,b.23.1.1,g.3.11.1 86143,86144,86145 1c44A 123 5.93e+01 1qndA d.106.1.1 40795 1qh5A 260 5.96e+01 1qh5A d.157.1.2 42057 2b0jA 358 6.03e+01 1fnoA 417 6.08e+01 d.58.19.1,c.56.5.4 70145,75841 1vj0A 380 6.10e+01 b.35.1.2,c.2.1.1 100786,100787 1ra0A 430 6.12e+01 1c8uA 285 6.12e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1hrdA 449 6.13e+01 1k89 c.2.1.7,c.58.1.1 30219,33867 2cz2A 223 6.20e+01 1zk4A 251 6.23e+01 1ivg 388 6.24e+01 2qwc b.68.1.1 27578 1a4iA 301 6.31e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1wqaA 455 6.35e+01 1f5vA 240 6.37e+01 1bkjA d.90.1.1 40255 1fjrA 195 6.38e+01 1fjrA b.102.1.1 59855 1xnzA 264 6.38e+01 1dmtA 696 6.45e+01 1dmtA d.92.1.4 40296 1dfmA 223 6.59e+01 1d2iA c.52.1.5 33295 1i2mA 216 6.61e+01 1byuA c.37.1.8 61568 2gwdA 449 6.69e+01 1g1tA 157 6.70e+01 d.169.1.1,g.3.11.1 65104,65105 1atiA 505 6.75e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 2gk4A 232 6.76e+01 1gky 187 6.77e+01 1gky c.37.1.1 31839 1dqgA 135 6.90e+01 1dqgA b.42.2.2 25579 1b6rA 355 6.91e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1y1nA 291 6.95e+01 1y5eA 169 6.95e+01 1f1xA 322 6.97e+01 d.32.1.3,d.32.1.3 83208,83209 1o26A 232 6.98e+01 d.207.1.1 86566 1cwvA 492 6.99e+01 1cwvA b.1.14.1,b.1.14.1,b.1.14.1,b.1.14.1,d.169.1.3 22373,22374,22375,22376,42442 1nijA 318 7.01e+01 c.37.1.10,d.237.1.1 85741,85742 2an3A 289 7.01e+01 1xl7A 612 7.02e+01 1z7wA 322 7.05e+01 1ek6A 348 7.06e+01 1xel c.2.1.2 29800 2g9zA 348 7.10e+01 1q98A 165 7.15e+01 c.47.1.10 96253 2ptd 298 7.17e+01 2plc c.1.18.2 29605 2fwhA 134 7.19e+01 1esl 162 7.20e+01 1esl d.169.1.1,g.3.11.1 42353,44225 1rgyA 360 7.28e+01 e.3.1.1 97456 1y8oB 128 7.28e+01 1g73C 121 7.29e+01 1g3fA g.52.1.1 45375 1to6A 371 7.31e+01 c.141.1.1 107170 1rypB 250 7.31e+01 1rypB d.153.1.4 41933 1xo7A 166 7.33e+01 2adbA 148 7.39e+01 1t94A 459 7.41e+01 d.240.1.1,e.8.1.7 106701,106702 1hnnA 282 7.43e+01 c.66.1.15 65895 1ze3C 205 7.45e+01 1mwwA 128 7.49e+01 d.80.1.4 91483 1erxA 184 7.49e+01 1np1A b.60.1.1 27164 1jfzA 154 7.54e+01 a.149.1.1 66655 1ox6A 555 7.55e+01 c.1.2.1,c.23.16.1 87505,87506 2b3oA 532 7.56e+01 1vr0A 247 7.56e+01 1vh5A 148 7.57e+01 d.38.1.5 100642 1qbkB 890 7.58e+01 1qbkB a.118.1.1 19127 1fo4A 1332 7.63e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1iq6A 134 7.63e+01 d.38.1.4 76755 1eur 365 7.64e+01 1eut b.68.1.1 27607 1koiA 184 7.64e+01 b.60.1.1 68725 2gj8A 172 7.67e+01 1o59A 355 7.69e+01 b.18.1.22,b.18.1.22 92495,92496 1q87A 221 7.79e+01 e.47.1.1 96192 1cem 363 7.83e+01 1cem a.102.1.2 18826 1ehiA 377 7.87e+01 1iow c.30.1.2,d.142.1.1 31716,41484 2aq2B 237 7.88e+01 1w8oA 601 7.89e+01 1rq2A 382 7.91e+01 c.32.1.1,d.79.2.1 105048,105049 1ocxA 182 7.98e+01 b.81.1.3 86814 1pfzA 380 8.05e+01 1smrA b.50.1.2 26881 1xfsA 178 8.06e+01 d.129.3.5 109589 1lrzA 426 8.12e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1ri6A 343 8.17e+01 b.69.11.1 97503 1xv5A 401 8.18e+01 1gof 639 8.33e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 6cel 434 8.34e+01 1celA b.29.1.10 24279 1ef1A 294 8.36e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1jtaA 361 8.40e+01 b.80.1.1 71859 1ep0A 185 8.41e+01 1dzrA b.82.1.1 28080 4xis 387 8.46e+01 4xis c.1.15.3 29421 3xis 387 8.47e+01 4xis c.1.15.3 29423 1gpiA 431 8.49e+01 b.29.1.10 65450 1uylA 236 8.50e+01 d.122.1.1 108147 1pvc3 238 8.53e+01 1aym3 1szqA 483 8.55e+01 e.44.1.1 99045 1ivnA 190 8.56e+01 c.23.10.5 83719 1ei5A 520 8.58e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1x8qA 184 8.60e+01 1rz2A 254 8.60e+01 b.100.1.1 105130 1uasA 362 8.67e+01 b.71.1.1,c.1.8.1 88388,88389 1j1tA 233 8.76e+01 b.29.1.18 90771 1of5B 184 8.77e+01 d.17.4.2 86934 1xcrA 316 8.77e+01 2gk9A 426 8.84e+01 1tf1A 198 8.85e+01 d.110.2.2 106826 1smlA 269 8.86e+01 1smlA d.157.1.1 42053 1mtzA 293 8.91e+01 c.69.1.7 79467 1d4aA 273 8.92e+01 1d4aA c.23.5.3 31219 1y08A 323 8.98e+01