# 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 1xf1A 926 9.29e-01 1k7iA 479 2.96e+00 b.80.7.1,d.92.1.6 77281,77282 1mi3A 322 4.62e+00 c.1.7.1 91274 1aszB 490 5.64e+00 1b8aA b.40.4.1,d.104.1.1 25241,40762 2cvxA 888 6.34e+00 1nowA 507 6.58e+00 c.1.8.6,d.92.2.1 85936,85937 1qxoA 388 6.60e+00 d.258.1.1 96539 1jndA 420 6.87e+00 c.1.8.5,d.26.3.1 71757,71758 1uteA 313 6.93e+00 1uteA d.159.1.1 42078 1aop 497 7.32e+00 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 2aaa 484 7.86e+00 7taa b.71.1.1,c.1.8.1 27777,28764 1pguA 615 8.13e+00 b.69.4.1,b.69.4.1 88069,88070 1qniA 581 8.36e+00 1qniA b.6.1.4,b.69.3.1 23042,27642 1ea9C 583 8.93e+00 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1lci 550 9.89e+00 1lci e.23.1.1 43349 1bsg 266 1.01e+01 1btl e.3.1.1 42729 1lokA 291 1.05e+01 c.56.5.4 78122 1hzoA 271 1.15e+01 e.3.1.1 71092 2bibA 547 1.16e+01 3csuA 310 1.24e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1pcxA 810 1.29e+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 1gyhA 318 1.32e+01 b.67.2.1 70757 1fepA 724 1.33e+01 1fepA f.4.3.3 43808 1m2tB 263 1.33e+01 b.42.2.1,b.42.2.1 84762,84763 1d2nA 272 1.41e+01 1d2nA c.37.1.20 32428 1iq4A 179 1.45e+01 1iq4A d.77.1.1 62641 1eu8A 409 1.47e+01 1eu8A c.94.1.1 59502 1xezA 721 1.50e+01 1wzlA 585 1.62e+01 1kqfA 1015 1.62e+01 b.52.2.2,c.81.1.1 72871,72872 1ia6A 441 1.62e+01 a.102.1.2 76738 1hvyA 288 1.63e+01 1bkpA d.117.1.1 41049 1wy2A 351 1.68e+01 1f28A 297 1.68e+01 1bkpA d.117.1.1 59608 2fdsA 352 1.72e+01 1fi8A 228 1.79e+01 5ptp b.47.1.2 26374 1y4wA 518 2.01e+01 1elvA 333 2.03e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 2bmaA 470 2.14e+01 1auiA 521 2.14e+01 1auiA d.159.1.3 42085 2fgtA 417 2.18e+01 1yljA 263 2.29e+01 2cqsA 842 2.31e+01 1r13A 148 2.33e+01 d.169.1.1,h.1.1.1 96782,96783 2b3oA 532 2.38e+01 1vr5A 547 2.45e+01 1k9sA 237 2.48e+01 c.56.2.1 68359 1ezm 301 2.53e+01 1hyt d.92.1.2 58980 1rtqA 299 2.53e+01 c.56.5.4 97819 1y3nA 490 2.57e+01 1ci9A 392 2.67e+01 e.3.1.1 64767 1q4gA 553 2.69e+01 a.93.1.2,g.3.11.1 95789,95790 1xcbA 211 2.73e+01 a.4.5.38,c.2.1.12 109552,109553 1xovA 326 2.74e+01 1cb8A 678 2.77e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 2g30A 258 2.79e+01 1vj0A 380 2.85e+01 b.35.1.2,c.2.1.1 100786,100787 1ohfA 644 2.86e+01 b.121.4.8 93014 1n82A 331 2.88e+01 c.1.8.3 91703 2b43A 526 2.98e+01 1iyeA 309 3.00e+01 e.17.1.1 83786 2bcjB 340 3.00e+01 2exrA 524 3.01e+01 1d4aA 273 3.04e+01 1d4aA c.23.5.3 31219 1qopB 396 3.07e+01 2tysB c.79.1.1 35270 1wr8A 231 3.09e+01 1e3mA 800 3.13e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1hnnA 282 3.17e+01 c.66.1.15 65895 1poiA 317 3.18e+01 1poiA c.124.1.2 34153 2bryA 497 3.19e+01 2cxaA 256 3.20e+01 1hfuA 503 3.23e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1v0wA 506 3.26e+01 d.136.1.2,d.136.1.2 108220,108221 1um0A 365 3.30e+01 d.258.1.1 107942 1xnzA 264 3.41e+01 1t4gA 322 3.42e+01 a.60.4.1,c.37.1.11 106418,106419 1o26A 232 3.45e+01 d.207.1.1 86566 1rypB 250 3.47e+01 1rypB d.153.1.4 41933 1ps9A 671 3.49e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1x7dA 350 3.55e+01 1k32A 1045 3.60e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1y0zA 330 3.62e+01 1f75A 249 3.66e+01 1f75A c.101.1.1 59662 2bdvA 231 3.68e+01 1sgvA 316 3.73e+01 b.122.1.1,d.265.1.2 98858,98859 1qazA 351 3.74e+01 1qazA a.102.3.1 18848 1jvbA 347 3.79e+01 b.35.1.2,c.2.1.1 77181,77182 1v58A 241 3.83e+01 c.47.1.9,d.17.3.1 108371,108372 1g8fA 511 3.84e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1epwA 1290 3.87e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1dywA 173 3.88e+01 2cpl b.62.1.1 27505 1i1kA 309 3.94e+01 1daaA e.17.1.1 61533 1l5aA 436 4.01e+01 c.43.1.2,c.43.1.2 75923,75924 1qr6A 584 4.02e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1fo4A 1332 4.03e+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 1r0mA 375 4.05e+01 c.1.11.2,d.54.1.1 104747,104748 1zkjA 359 4.06e+01 1ji1A 637 4.11e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1nofA 383 4.18e+01 b.71.1.2,c.1.8.3 92020,92021 1mkrA 294 4.19e+01 a.93.1.1 84997 1ig8A 486 4.19e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1ig3A 263 4.23e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1uby 367 4.24e+01 1uby a.128.1.1 19435 1u3dA 509 4.32e+01 a.99.1.1,c.28.1.1 107638,107639 1kbjA 412 4.34e+01 c.1.4.1 72280 2a2pA 129 4.36e+01 3pcgM 238 4.36e+01 3pchM b.3.6.1 22742 1to6A 371 4.37e+01 c.141.1.1 107170 2essA 248 4.41e+01 1bw0A 416 4.44e+01 1bw0A c.67.1.1 34385 1v5vA 401 4.45e+01 1ep0A 185 4.45e+01 1dzrA b.82.1.1 28080 1tif 78 4.46e+01 1tif d.15.8.1 37836 1peqA 714 4.46e+01 a.98.1.1,c.7.1.2 104131,104132 1sl8A 191 4.55e+01 1qh4A 380 4.60e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 2ghsA 326 4.62e+01 1o12A 376 4.63e+01 b.92.1.5,c.1.9.10 80758,80759 2bivA 243 4.63e+01 1w2xA 758 4.66e+01 c.14.1.4,c.14.1.4 109134,109135 1iysA 262 4.68e+01 e.3.1.1 90723 1vl1A 232 4.70e+01 c.124.1.1 108707 1y0pA 571 4.72e+01 1mhyD 521 4.75e+01 1mhyD a.25.1.2 16780 1nd4A 264 4.76e+01 d.144.1.6 91815 1m98A 317 4.78e+01 a.175.1.1,d.17.4.6 78866,78867 1p1xA 260 4.88e+01 c.1.10.1 104060 2gu3A 136 4.89e+01 1b8aA 438 4.97e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 2c1xA 456 5.08e+01 2sli 679 5.14e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1t7lA 766 5.17e+01 1k07A 263 5.18e+01 d.157.1.1 77218 1ass 159 5.19e+01 1a6dA c.8.5.2 30818 1atiA 505 5.19e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1ydnA 295 5.21e+01 1chmA 401 5.22e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1v04A 355 5.22e+01 b.68.6.2 100240 1mc0A 368 5.22e+01 d.110.2.1,d.110.2.1 78937,78938 1vl2A 421 5.25e+01 c.26.2.1,d.210.1.1 108708,108709 1jqeA 292 5.28e+01 c.66.1.19 71789 1w3jA 468 5.31e+01 c.1.8.4 109156 1mvwB 145 5.36e+01 i.15.1.1 79524 1vpmA 169 5.41e+01 2fnuA 375 5.43e+01 1g72A 573 5.44e+01 4aahA b.70.1.1 27680 1dciA 275 5.46e+01 1dciA c.14.1.3 30918 1h0hA 977 5.48e+01 b.52.2.2,c.81.1.1 76435,76436 1amy 403 5.51e+01 1jdc b.71.1.1,c.1.8.1 27799,28786 1kdgA 546 5.53e+01 c.3.1.2,d.16.1.1 77337,77338 1pmzA 86 5.54e+01 a.39.1.10 104195 1vh5A 148 5.59e+01 d.38.1.5 100642 1y8tA 324 5.62e+01 1poiB 260 5.72e+01 1poiB c.124.1.3 34155 2fp8A 322 5.72e+01 1ut9A 609 5.73e+01 a.102.1.2,b.1.18.2 99912,99913 1kjvA 284 5.76e+01 b.1.1.2,d.19.1.1 77421,77422 1vlmA 219 5.77e+01 c.66.1.41 108836 1qlaA 656 5.77e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1rqbA 539 5.79e+01 a.5.7.2,c.1.10.5 105057,105058 1ga6A 372 5.80e+01 1ga1A c.41.1.2 32556 2gxfA 142 5.81e+01 2gjlA 328 5.82e+01 1hbq 183 5.84e+01 1aqb b.60.1.1 27078 1w2wB 191 5.87e+01 1nrfA 262 5.90e+01 e.3.1.1 92086 1ujmA 342 5.91e+01 1wp5A 323 5.95e+01 1qwdA 177 5.96e+01 b.60.1.1 96471 1e6pA 499 6.00e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 1olmA 403 6.00e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1n4kA 381 6.03e+01 a.118.22.1,b.42.6.1 79992,79993 1htyA 1015 6.03e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1mijA 152 6.03e+01 a.4.1.1 79150 2ax9A 256 6.06e+01 1dzlA 505 6.08e+01 1dzlA b.121.6.1 23586 1jakA 512 6.09e+01 c.1.8.6,d.92.2.1 66472,66473 2phlA 397 6.09e+01 1dgwA b.82.1.2,b.82.1.2 28082,28083 1esiA 262 6.11e+01 1skf e.3.1.1 42682 1k8wA 327 6.12e+01 b.122.1.1,d.265.1.2 83094,90388 1vzyA 291 6.15e+01 2gfhA 260 6.16e+01 1i60A 278 6.16e+01 c.1.15.4 71118 1ksiA 642 6.17e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1b5qA 472 6.17e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1fehA 574 6.22e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1wl4A 397 6.30e+01 1ecpA 238 6.31e+01 1ecpA c.56.2.1 33775 1iqcA 308 6.37e+01 a.3.1.5,a.3.1.5 66266,66267 1t5oA 351 6.38e+01 c.124.1.5 106459 1a48 306 6.38e+01 1a48 d.143.1.1 41590 1up6A 416 6.39e+01 c.2.1.5,d.162.1.2 107976,107977 1yasA 257 6.45e+01 1qj4A c.69.1.20 34801 1mzjA 339 6.48e+01 c.95.1.2,c.95.1.2 79700,79701 1z70X 311 6.48e+01 1ec7A 446 6.49e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1hp5A 512 6.49e+01 1hp4A c.1.8.6,d.92.2.1 61113,61114 1pieA 419 6.66e+01 d.14.1.5,d.58.26.7 94706,94707 2c07A 285 6.67e+01 1hrdA 449 6.68e+01 1k89 c.2.1.7,c.58.1.1 30219,33867 1nuyA 337 6.68e+01 e.7.1.1 86213 1rlmA 271 6.72e+01 1ep3B 262 6.73e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1vkpA 383 6.75e+01 d.126.1.6 108686 1vj5A 555 6.76e+01 c.108.1.2,c.69.1.11 100799,100800 1h5qA 265 6.77e+01 1cydA c.2.1.2 60643 1o17A 345 6.81e+01 a.46.2.1,c.27.1.1 80765,80766 1p3cA 215 6.88e+01 b.47.1.1 93996 1i1iP 681 6.89e+01 1i1iP d.92.1.5 40297 1yqzA 438 6.93e+01 2blnA 305 6.97e+01 2anpA 291 6.97e+01 2a8lA 420 7.00e+01 1q35A 320 7.03e+01 c.94.1.1 95661 1su4A 994 7.05e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 2b0mA 393 7.06e+01 1o7tA 309 7.07e+01 c.94.1.1 86645 1fy7A 278 7.08e+01 1fy7A d.108.1.1 40817 1pyaB 228 7.17e+01 1pyaB 1r6vA 671 7.19e+01 1i19A 561 7.20e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 2b5eA 504 7.21e+01 1l6rA 227 7.23e+01 c.108.1.10 77768 1qwkA 317 7.24e+01 c.1.7.1 96482 1goiA 499 7.28e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1qmeA 702 7.30e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2g8yA 385 7.30e+01 1wdyA 285 7.34e+01 1zdzA 302 7.37e+01 1qh5A 260 7.38e+01 1qh5A d.157.1.2 42057 1fu1A 203 7.40e+01 1fu1B b.59.1.1,h.1.11.1 27076,45630 1wdcC 156 7.40e+01 1wdcC a.39.1.5 17317 2a6hD 1524 7.42e+01 1j1nA 492 7.45e+01 c.94.1.1 83978 1sw5B 275 7.45e+01 c.94.1.1 106070 2jdxA 385 7.49e+01 1jdw d.126.1.2 41139 1kv7A 488 7.55e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1top 162 7.56e+01 1ncx a.39.1.5 17223 1bf2 750 7.62e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 3sil 379 7.62e+01 3sil b.68.1.1 27542 1meoA 209 7.64e+01 c.65.1.1 79035 1ctt 294 7.67e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1qqyA 130 7.69e+01 3lzt d.2.1.2 36586 1yifA 533 7.72e+01 1x0rA 249 7.75e+01 1riqA 465 7.78e+01 a.203.1.1,d.104.1.1 97516,97517 1j58A 385 7.82e+01 b.82.1.2 71531 1y0yA 353 7.88e+01 1y8aA 332 7.88e+01 1zjkA 403 7.88e+01 1jqgA 433 7.88e+01 c.56.5.1,d.58.3.1 71791,71792 1a4iA 301 7.88e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 2d0oA 610 7.91e+01 1qydA 313 7.92e+01 c.2.1.2 96583 1iloA 77 7.93e+01 c.47.1.1 66205 2fug1 438 8.00e+01 1zzmA 259 8.02e+01 1jmcA 246 8.05e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1h1nA 305 8.08e+01 c.1.8.3 70855 1jb7A 495 8.09e+01 1otcA b.40.4.3,b.40.4.3,b.40.4.3 62836,62837,62838 1xpxA 163 8.12e+01 1jhdA 396 8.15e+01 b.122.1.3,c.26.1.5 66712,66713 1ei6A 406 8.19e+01 c.76.1.4 90443 1fc4A 401 8.20e+01 1bs0A c.67.1.4 59760 1uumA 372 8.23e+01 c.1.4.1 100010 1ble 163 8.23e+01 1ble c.38.1.1 32475 1j7xA 302 8.24e+01 c.14.1.2 66425 1h09A 338 8.25e+01 b.109.1.1,c.1.8.8 83420,83421 1hgxA 183 8.28e+01 1tc1A c.61.1.1 34027 1fts 295 8.32e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 1nzoA 363 8.34e+01 b.105.1.1,e.3.1.1 92383,92384 2as0A 396 8.34e+01 1yhtA 367 8.35e+01 1wyuB 474 8.40e+01 1erjA 393 8.43e+01 1erjA b.69.4.1 27660 1ru8A 232 8.46e+01 c.26.2.1 97849 1gpeA 587 8.48e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 2aq5A 402 8.49e+01 1t7rA 269 8.50e+01 a.123.1.1 106635 1u04A 771 8.51e+01 b.34.14.1,c.55.3.10 107539,107540 1v7oA 165 8.52e+01 d.67.1.2 100480 1jdw 423 8.54e+01 1jdw d.126.1.2 41129 1xtlA 175 8.61e+01 2gkeA 274 8.62e+01 1theA 260 8.65e+01 1theB d.3.1.1 37056 1qyiA 384 8.71e+01 c.108.1.13 96595 1po5A 476 8.80e+01 a.104.1.1 94963 2b0jA 358 8.82e+01 1dqpA 230 8.84e+01 1dqnA c.61.1.1 34069 2cx9A 387 8.84e+01 1yu3A 381 8.92e+01