# List of top-scoring protein chains for t04-100-30-alpha 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 1jnyA 435 5.23e-08 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1f60A 458 6.75e-06 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1ha3A 405 5.60e-05 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1exmA 405 1.01e-04 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1g7sA 594 1.51e-04 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1d2eA 397 2.99e-04 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1d1nA 99 2.98e-03 1d1nA b.43.3.1 25718 1b5fB 87 1.20e-01 1b5fB 1h2rL 534 3.64e-01 1h2rL e.18.1.1 43298 1uvqB 198 3.90e-01 1e79A 510 4.15e-01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1ubkL 534 4.97e-01 e.18.1.1 88422 1f1gA 154 5.27e-01 b.1.8.1 76153 1jcv 153 5.73e-01 1mfmA b.1.8.1 22279 1e3dB 542 6.85e-01 1h2rL e.18.1.1 59189 1h8eA 510 6.86e-01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1ghqB 134 7.03e-01 1ghqB g.18.1.1 60522 g.18.1.1 60523 1kbvA 327 9.01e-01 b.6.1.3 68395 b.6.1.3 68396 1kxgA 152 1.32e+00 b.22.1.1 73145 1ejeA 192 1.37e+00 1ejeA b.45.1.2 25757 1aun 208 1.55e+00 1thv b.25.1.1 23900 1aym2 261 1.57e+00 1aym2 1be9A 119 1.83e+00 1pdr b.36.1.1 24774 1ly2A 130 2.12e+00 g.18.1.1 74335 g.18.1.1 74336 1s0uA 408 2.24e+00 1kjqA 391 2.25e+00 b.84.2.1 72616 c.30.1.1 72617 d.142.1.2 72618 1kk1A 410 2.58e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1l1qA 186 2.61e+00 c.61.1.1 77653 1eyzA 392 2.77e+00 1ez1A b.84.2.1 28246 c.30.1.1 31653 d.142.1.2 41498 1ae9A 179 2.79e+00 1ae9A d.163.1.1 42153 1tib 269 2.93e+00 3tgl c.69.1.17 34738 1k0sA 151 3.23e+00 b.40.7.1 67969 1kay 381 3.26e+00 1ba1 c.55.1.1 33385 c.55.1.1 33386 1p32A 209 3.28e+00 1p32A d.25.1.1 38379 1gnyA 153 3.30e+00 b.18.1.11 65404 1lvwA 295 3.74e+00 c.68.1.6 84723 1j0hA 588 3.95e+00 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1yaiA 151 3.97e+00 1yaiA b.1.8.1 22289 1lfo 128 4.08e+00 1hmt b.60.1.2 27223 1r0uA 148 4.08e+00 1k4nA 192 4.20e+00 d.32.1.5 72059 1n0uA 842 4.23e+00 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1pjxA 314 5.16e+00 1bupA 386 5.21e+00 1ba1 c.55.1.1 33377 c.55.1.1 33378 1sdwA 314 5.63e+00 1hxn 219 5.85e+00 1hxn b.66.1.1 27529 1lx7A 253 6.00e+00 c.56.2.1 74329 1lw6I 64 6.19e+00 d.40.1.1 74294 1a7tA 232 6.21e+00 1a7tA d.157.1.1 42041 1pvmA 184 6.25e+00 1e1aA 314 6.31e+00 1e1aA b.68.6.1 59155 1dar 691 6.35e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1o7iA 119 6.65e+00 b.40.4.3 86642 1nd4A 264 6.66e+00 1i8dA 213 7.18e+00 b.43.4.3 61953 b.43.4.3 61954 1ckmA 330 7.39e+00 1ckmA b.40.4.6 25358 d.142.2.3 41585 1bio 228 7.44e+00 5ptp b.47.1.2 26314 1phm 310 7.70e+00 1phm b.121.1.2 59015 b.121.1.2 59016 1gt6A 269 8.10e+00 c.69.1.17 76342 1ten 90 8.11e+00 1ten b.1.2.1 21990 1rxyA 253 8.37e+00 1oalA 151 8.58e+00 b.1.8.1 86739 1g2qA 187 8.58e+00 c.61.1.1 65117 1g9oA 91 8.91e+00 1pdr b.36.1.1 60400 1k82A 268 8.97e+00 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1oi6A 205 9.23e+00 1eazA 125 9.53e+00 b.55.1.1 70113 1nb5I 98 9.53e+00 d.17.1.2 80381 1a3k 137 9.77e+00 1a3k b.29.1.3 24218 1b65A 375 9.84e+00 1b65A d.154.1.1 42020 1ip9A 85 9.98e+00 1ip9A d.15.2.2 62638 1bbpA 173 1.01e+01 1bbpA b.60.1.1 27147 1shbA 104 1.01e+01 1fmk d.93.1.1 40425 1bdo 80 1.08e+01 1bdo b.84.1.1 28214 1sbxA 106 1.09e+01 1ecrA 309 1.09e+01 1ecrA e.2.1.1 42678 1crb 134 1.10e+01 1hmt b.60.1.2 27220 1jy4A 35 1.14e+01 k.35.1.1 71938 1k2eA 156 1.14e+01 d.113.1.1 72010 1qvbA 481 1.16e+01 1qvbA c.1.8.4 28983 1rwrA 301 1.18e+01 1hh2P 344 1.19e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1bvqA 141 1.20e+01 1bvqA d.38.1.1 38542 1ofnA 205 1.21e+01 1ei5A 520 1.24e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1lo7A 141 1.25e+01 d.38.1.1 74144 1efvB 255 1.27e+01 1efvB c.26.2.3 31634 1cl1A 395 1.28e+01 1cl2A c.67.1.3 34395 1mexL 213 1.29e+01 1nbwA 607 1.30e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 4bcl 366 1.33e+01 4bcl b.75.1.1 27968 8fabA 212 1.35e+01 8fabA b.1.1.1 19772 b.1.1.2 20882 1i0cA 60 1.37e+01 1aojA b.34.2.1 61485 1ogsA 497 1.39e+01 b.71.1.2 86997 c.1.8.3 86998 1j9qA 341 1.40e+01 1nif b.6.1.3 62765 b.6.1.3 62766 1efvA 315 1.44e+01 1efvA c.26.2.3 31633 c.31.1.2 31728 1g8lA 411 1.45e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1dseA 292 1.47e+01 1ryc a.93.1.1 59130 1lvmA 229 1.50e+01 b.47.1.3 78243 1am2 199 1.55e+01 1am2 b.86.1.2 28381 1mp9A 198 1.55e+01 1qz5A 375 1.57e+01 1ollA 188 1.58e+01 1gr3A 160 1.58e+01 b.22.1.1 65476 1pwaA 162 1.63e+01 1oacA 727 1.67e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1e30A 155 1.68e+01 1rcy b.6.1.1 23016 1cq3A 233 1.72e+01 1cq3A b.27.1.1 23923 1gadO 330 1.73e+01 1dssG c.2.1.3 29950 d.81.1.1 39865 1j6zA 376 1.78e+01 1yagA c.55.1.1 62667 c.55.1.1 62668 1hr0W 71 1.83e+01 1ah9 b.40.4.5 25329 1xsoA 150 1.85e+01 1mfmA b.1.8.1 22273 1fmtA 314 1.86e+01 1fmtA b.46.1.1 25758 c.65.1.1 34174 1g99A 408 1.87e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1euvB 86 1.89e+01 1a5r d.15.1.1 37598 1pbe 394 1.91e+01 1pbe c.3.1.2 30338 d.16.1.2 37869 1q5hA 147 1.91e+01 1kkeA 210 1.94e+01 b.21.1.2 68669 b.83.1.2 68670 1pmi 440 1.95e+01 1pmi b.82.1.3 28114 1mjuL 219 1.95e+01 1rurL 217 1.96e+01 1i07A 60 2.04e+01 1aojA b.34.2.1 61477 2eng 210 2.04e+01 2eng b.52.1.1 26895 1vjnA 220 2.05e+01 1dun 134 2.08e+01 1dun b.85.4.1 28371 1ka1A 357 2.12e+01 e.7.1.1 68369 2fmr 65 2.13e+01 2fmr d.51.1.1 38808 1ugiA 84 2.14e+01 1ugiA d.17.5.1 38125 1paqA 189 2.15e+01 1pyaB 228 2.15e+01 1pyaB 1ncwL 219 2.16e+01 b.1.1.1 85557 b.1.1.2 85558 1iznA 286 2.17e+01 e.43.1.1 83847 1k0iA 394 2.19e+01 c.3.1.2 67942 d.16.1.2 67943 1cc1L 498 2.19e+01 1h2rL e.18.1.1 43301 1khiA 176 2.33e+01 b.34.5.2 77408 b.40.4.5 77409 1itwA 741 2.34e+01 c.77.1.2 76793 1ksiA 642 2.36e+01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1ifrA 121 2.38e+01 b.1.16.1 71203 1kcvL 214 2.38e+01 b.1.1.1 72317 b.1.1.2 72318 1ubeA 349 2.38e+01 c.37.1.11 88412 d.48.1.1 88413 1htp 131 2.39e+01 1htp b.84.1.1 28220 1kzkA 99 2.40e+01 b.50.1.1 73371 1gcqC 70 2.40e+01 1gcpA b.34.2.1 60436 1rcy 151 2.40e+01 1rcy b.6.1.1 23018 2phlA 397 2.41e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1iq8A 582 2.42e+01 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1ln1A 214 2.43e+01 d.129.3.2 74038 1nkr 201 2.44e+01 1nkr b.1.1.4 21799 b.1.1.4 21800 1sacA 204 2.44e+01 1sacA b.29.1.5 24237 1pbyA 489 2.47e+01 3nul 130 2.54e+01 3nul d.110.1.1 40891 1cdy 178 2.55e+01 1cdy b.1.1.1 19719 b.1.1.3 21658 1nu5A 370 2.55e+01 1j2zA 270 2.59e+01 1o9gA 250 2.62e+01 c.66.1.29 86692 1gjwA 637 2.63e+01 b.71.1.1 60582 c.1.8.1 60583 1pn0A 665 2.63e+01 1hpcA 131 2.65e+01 1htp b.84.1.1 28221 1dtdA 303 2.68e+01 1aye c.56.5.1 33823 1usuB 170 2.69e+01 1difA 99 2.70e+01 1fmb b.50.1.1 26503 1hdmA 201 2.71e+01 1iakA b.1.1.2 21583 d.19.1.1 38157 1dxrH 258 2.71e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 1tetL 216 2.72e+01 32c2A b.1.1.1 19902 b.1.1.2 20996 1j71A 334 2.74e+01 1eagA b.50.1.2 62669 1qhdA 398 2.84e+01 1qhdA a.115.1.2 63324 b.19.1.1 63325 2fbjL 213 2.84e+01 8fabA b.1.1.1 19850 b.1.1.2 20954 1forL 210 2.85e+01 8fabA b.1.1.1 19988 b.1.1.2 21044 1a41 234 2.86e+01 1a41 d.163.1.2 42174 1agjA 242 2.88e+01 1agjA b.47.1.1 25827 1ew4A 106 2.91e+01 1ew4A d.82.2.1 40023 1nnxA 109 2.93e+01 1mmsA 140 2.98e+01 1mmsA a.4.7.1 16247 d.47.1.1 38766 1ckaA 57 2.98e+01 1ckaA b.34.2.1 24459 2bpa2 175 2.99e+01 2bpa2 1pg4A 652 2.99e+01 e.23.1.1 88067 1mlbA 214 3.01e+01 8fabA b.1.1.1 20050 b.1.1.2 21092 1fo8A 343 3.01e+01 1foaA c.68.1.10 59927 1njkA 156 3.07e+01 d.38.1.1 85818 1iw7C 1119 3.09e+01 e.29.1.1 71474 1chmA 401 3.22e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 1cyx 205 3.24e+01 1cyx b.6.1.2 23023 1ihnA 113 3.25e+01 1ihnA c.103.1.1 62388 1fw9A 164 3.28e+01 1fw9A d.190.1.1 60059 1vj1A 363 3.28e+01 1vybA 238 3.29e+01 1qwrA 319 3.29e+01 1opbA 135 3.31e+01 1hmt b.60.1.2 27216 1ifc 132 3.32e+01 b.60.1.2 27173 2sns 149 3.36e+01 1snc b.40.1.1 24860 1shdA 107 3.36e+01 1fmk d.93.1.1 40440 1l8fA 207 3.40e+01 b.52.1.1 84537 1g2bA 62 3.40e+01 1tud b.34.2.1 24488 1luzA 88 3.42e+01 b.40.4.5 74271 1v3wA 173 3.42e+01 1mdc 133 3.45e+01 1hmt b.60.1.2 27198 1e6oL 212 3.47e+01 32c2A b.1.1.1 20494 b.1.1.2 21452 1kblA 873 3.47e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1j1lA 290 3.52e+01 1qqgA 264 3.54e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1earA 147 3.55e+01 b.107.1.1 64875 d.58.38.1 64876 1eyqA 222 3.59e+01 1eypA d.36.1.1 38534 1q9rA 219 3.63e+01 1od5A 492 3.65e+01 b.82.1.2 86832 b.82.1.2 86833 1jhdA 396 3.67e+01 b.122.1.3 66712 c.26.1.5 66713 1iyhA 198 3.67e+01 a.45.1.1 83790 c.47.1.5 83791 1gpeA 587 3.70e+01 1gpeA c.3.1.2 30387 d.16.1.1 37951 1f0lA 535 3.75e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1mveA 243 3.76e+01 b.29.1.2 85140 1d7cA 190 3.79e+01 1d7bA b.1.9.1 22309 1o5uA 101 3.79e+01 2sfa 191 3.80e+01 1qq4A b.47.1.1 25815 1nh0A 99 3.83e+01 1idaA 99 3.85e+01 1fmb b.50.1.1 26715 1gw0A 559 3.87e+01 b.6.1.3 70623 b.6.1.3 70624 b.6.1.3 70625 1g8mA 593 3.91e+01 1g8mA c.24.1.3 60371 c.97.2.1 60372 1sgpE 185 3.94e+01 1qq4A b.47.1.1 25816 1sek 378 3.95e+01 1sek e.1.1.1 42675 1qgxA 357 4.00e+01 1qgxA e.7.1.1 42973