# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 2f22A 144 2.88e-13 1rxqA 178 1.85e-07 a.213.1.1 105118 1qpcA 279 3.81e-01 1fgkA d.144.1.7 41685 1yz1A 174 7.04e-01 2g7sA 194 9.32e-01 1txoA 237 1.05e+00 1poiA 317 1.54e+00 1poiA c.124.1.2 34153 1ufoA 238 1.65e+00 c.69.1.27 99344 1c52 131 1.80e+00 1c52 a.3.1.1 15810 1u2xA 474 2.36e+00 c.72.1.3 107622 1kqfB 294 3.22e+00 d.58.1.5,f.23.22.1 75900,75901 1m12A 84 3.89e+00 a.64.1.1 84745 1f44A 324 4.07e+00 a.60.9.1,d.163.1.1 64982,64983 1p68A 102 4.86e+00 k.8.1.1 94158 4crxA 322 5.16e+00 4crxA a.60.9.1,d.163.1.1 18095,42155 1xo0A 324 5.55e+00 1xd7A 145 5.58e+00 a.4.5.55 109566 1gk9B 557 6.22e+00 1hu4A 288 6.56e+00 1hu4A 1n5dA 288 6.61e+00 c.2.1.2 80030 2b7aA 293 6.74e+00 1tjlA 151 7.55e+00 a.2.14.1,g.39.1.13 107027,107028 1vjzA 341 7.96e+00 c.1.8.3 100838 1fe0A 68 8.42e+00 1cc8A d.58.17.1 39345 1e3aB 560 8.70e+00 1ajqB 1ab8A 220 8.71e+00 1azsA d.58.29.1 39414 1vjxA 157 8.76e+00 a.25.1.1 100837 1wmaA 276 9.10e+00 2awaA 390 9.73e+00 1muwA 386 1.02e+01 c.1.15.3 79495 1iyxA 432 1.02e+01 c.1.11.1,d.54.1.1 83815,83816 2g03A 194 1.06e+01 4xis 387 1.16e+01 4xis c.1.15.3 29421 2a65A 519 1.22e+01 1ucpA 91 1.25e+01 a.77.1.5 99186 1lst 239 1.29e+01 1lst c.94.1.1 35755 1mtpA 323 1.34e+01 e.1.1.1 85107 1hlb 158 1.37e+01 1hlb a.1.1.2 15625 1gx3A 284 1.42e+01 d.3.1.5 70678 1y81A 138 1.46e+01 1m1nA 491 1.47e+01 c.92.2.3 78417 830cA 168 1.48e+01 1ck7A d.92.1.11 40400 3xis 387 1.48e+01 4xis c.1.15.3 29423 1ww9A 392 1.50e+01 1mwpA 96 1.52e+01 1mwpA d.170.2.1 42453 1hkxA 147 1.55e+01 d.17.4.7 83567 1ezfA 340 1.56e+01 1ezfA a.128.1.2 19440 1n2aA 201 1.65e+01 a.45.1.1,c.47.1.5 91553,91554 1ix9A 205 1.65e+01 a.2.11.1,d.44.1.1 76899,76900 1w6tA 444 1.69e+01 1b6rA 355 1.71e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1tffA 234 1.72e+01 d.3.1.11 106854 1h3fA 432 1.77e+01 c.26.1.1,d.66.1.4 76631,76632 7atjA 308 1.77e+01 1bgp a.93.1.1 18673 1pa2A 306 1.87e+01 1bgp a.93.1.1 18693 1vb5A 276 1.88e+01 1d0vA 356 1.92e+01 1d0vA c.39.1.1 32476 1xc3A 302 1.92e+01 1e85A 127 1.95e+01 1bbhA a.24.3.2 16549 1gwuA 309 1.96e+01 a.93.1.1 83351 2fflA 756 2.04e+01 1vmeA 410 2.04e+01 c.23.5.1,d.157.1.3 108893,108894 1io7A 368 2.05e+01 1f4tA a.104.1.1 18971 1sfe 180 2.05e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 2bcgG 453 2.06e+01 1qgjA 300 2.06e+01 1bgp a.93.1.1 18691 1fvrA 327 2.15e+01 d.144.1.7 60047 1vlwA 217 2.17e+01 c.1.10.1 108868 1i0hA 205 2.18e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1w5rA 278 2.19e+01 1sknP 92 2.23e+01 1sknP a.37.1.1 17127 1paz 123 2.30e+01 1bqk b.6.1.1 22878 1yfsA 465 2.30e+01 1l5oA 356 2.40e+01 c.39.1.1 77711 1eca 136 2.42e+01 1flp a.1.1.2 15209 2etjA 250 2.47e+01 1jl3A 139 2.48e+01 c.44.1.1 66826 1nni1 174 2.49e+01 1u59A 287 2.56e+01 d.144.1.7 107681 1jf8A 131 2.59e+01 c.44.1.1 66621 1wa3A 205 2.59e+01 1b06A 210 2.68e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1qlwA 328 2.75e+01 1qlwA c.69.1.15 34722 1t2bA 397 2.78e+01 1azsB 212 2.80e+01 1azsA d.58.29.1 39423 1eemA 241 2.97e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1r2rA 248 2.98e+01 c.1.1.1 96875 1jb0A 755 3.00e+01 1jb0A f.29.1.1 62820 1bco 327 3.00e+01 1bco b.48.1.1,c.55.3.3 26431,33676 2gz4A 207 3.01e+01 1oj6A 151 3.07e+01 a.1.1.2 93088 1u3eM 174 3.11e+01 d.4.1.3,d.285.1.1 107640,107641 1ug6A 431 3.11e+01 c.1.8.4 88490 1lj8A 493 3.13e+01 a.100.1.9,c.2.1.6 90392,90393 2ah6A 208 3.16e+01 2g8yA 385 3.17e+01 1t6sA 162 3.27e+01 2f6hX 419 3.32e+01 1j5uA 136 3.34e+01 d.208.1.1 71584 1ji7A 89 3.40e+01 a.60.1.1 71682 1dnlA 199 3.42e+01 1ci0A b.45.1.1 25753 1rfmA 344 3.45e+01 c.122.1.1 97385 1z6aA 500 3.46e+01 2gsfA 373 3.46e+01 1riqA 465 3.50e+01 a.203.1.1,d.104.1.1 97516,97517 2c0hA 353 3.52e+01 1ii2A 524 3.52e+01 c.91.1.1,c.109.1.1 66146,66147 1r71A 178 3.64e+01 a.4.14.1 104823 1g79A 218 3.64e+01 1ci0A b.45.1.1 25752 1zxxA 319 3.66e+01 1gwiA 411 3.79e+01 a.104.1.1 76364 2bkkA 264 3.80e+01 1hu3A 260 3.85e+01 1hu3A a.118.1.14 19137 1t6jA 714 3.85e+01 1z3iX 644 3.85e+01 1uk5A 111 3.95e+01 a.7.7.1 99487 1wu3I 161 3.95e+01 1rxwA 336 3.95e+01 a.60.7.1,c.120.1.2 98059,98060 1pbgA 468 4.10e+01 1e70M c.1.8.4 28946 2arhA 203 4.11e+01 3nul 130 4.23e+01 3nul d.110.1.1 40891 1ezvF 125 4.28e+01 1be3F f.27.1.1 59550 1msk 331 4.28e+01 1msk d.173.1.1 42495 1te6A 439 4.31e+01 c.1.11.1,d.54.1.1 106797,106798 2avtA 378 4.35e+01 1fgkA 310 4.39e+01 1fgkA d.144.1.7 41693 1gqpA 221 4.51e+01 b.18.1.9 70372 1e9gA 286 4.55e+01 1wgjA b.40.5.1 59393 1xjuA 163 4.55e+01 1lrzA 426 4.57e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1j3gA 187 4.60e+01 d.118.1.1 77075 1nz6A 101 4.69e+01 a.2.3.1 86441 1lkkA 105 4.70e+01 1lckA d.93.1.1 40412 1j9yA 385 4.72e+01 1j9yA c.1.8.3 62791 1cleA 534 4.77e+01 1thg c.69.1.17 34771 1ad2 228 4.80e+01 1ad2 e.24.1.1 43353 1rypK 198 4.80e+01 d.153.1.4 41879 1bqk 124 4.81e+01 1bqk b.6.1.1 22889 2b81A 323 4.85e+01 1gpmA 525 4.86e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2fgoA 82 4.87e+01 1alvA 173 4.93e+01 1alvA a.39.1.8 17370 1ukvG 453 4.93e+01 c.3.1.3,c.3.1.3,d.16.1.6 107915,107916,107917 1sumB 235 4.96e+01 a.7.12.1 106025 1pv1A 299 5.04e+01 1rkeA 262 5.06e+01 a.24.9.1,a.24.9.1 97608,97609 2akzA 439 5.06e+01 2bg1A 494 5.07e+01 1a41 234 5.07e+01 1a41 d.163.1.2 42174 1j1uA 306 5.10e+01 c.26.1.1 83980 1z63A 500 5.13e+01 2amyA 246 5.17e+01 1a0fA 201 5.18e+01 1a0fA a.45.1.1,c.47.1.5 17737,33031 1vj1A 363 5.24e+01 b.35.1.2,c.2.1.1 100794,100795 3thiA 371 5.26e+01 2thiA c.94.1.1 35792 1wuiL 534 5.26e+01 1tuhA 156 5.27e+01 d.17.4.11 107345 2fl7A 232 5.29e+01 1e5eA 404 5.29e+01 1ibjA c.67.1.3 59265 1gkzA 388 5.36e+01 a.29.5.1,d.122.1.4 65268,65269 1tikA 213 5.40e+01 c.23.5.3 107003 1pbwA 216 5.40e+01 1pbwA a.116.1.1 19103 1o7fA 469 5.60e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1ceo 343 5.71e+01 1ceo c.1.8.3 28808 1jipA 403 5.76e+01 a.104.1.1 66748 2g3kA 94 5.78e+01 1b43A 340 5.80e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1fiy 883 5.82e+01 1fiy c.1.12.3 29307 1rkbA 173 5.83e+01 1eiwA 111 5.87e+01 1eiwA c.23.3.1 31130 1qf5A 431 5.87e+01 1adeA c.37.1.10 32212 1fobA 334 5.88e+01 c.1.8.3 83255 1r9gA 216 5.89e+01 c.23.16.1 97258 1yirA 408 5.92e+01 1wnlA 235 6.01e+01 1w78A 422 6.01e+01 1j7lA 264 6.02e+01 d.144.1.6 62697 1q1fA 151 6.02e+01 a.1.1.2 104476 1ixmA 192 6.05e+01 1ixmA d.123.1.1 41114 1mwmA 320 6.07e+01 c.55.1.1,c.55.1.1 79580,79581 1vns 609 6.10e+01 1vns a.111.1.3 19061 1f7uA 607 6.13e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 2co5A 99 6.19e+01 1i6lA 328 6.22e+01 c.26.1.1 66041 2d1eA 248 6.28e+01 1kb9G 125 6.28e+01 f.27.1.1 77322 1q7zA 566 6.28e+01 c.1.21.2,c.1.26.1 96090,96091 2c5rA 67 6.29e+01 1t0fA 276 6.44e+01 1xrhA 351 6.53e+01 1llfA 534 6.67e+01 c.69.1.17 78094 1yseA 141 6.77e+01 1el5A 389 6.78e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1dl2A 511 6.81e+01 1dl2A a.102.2.1 18844 1mdbA 539 6.88e+01 e.23.1.1 79008 2cr9A 139 6.94e+01 1zesA 125 6.95e+01 1g0uL 241 6.96e+01 d.153.1.4 41894 1e3aA 260 7.04e+01 1ajqA d.153.1.2 41838 1f3aA 222 7.04e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1ydiA 263 7.10e+01 1s83A 223 7.13e+01 b.47.1.2 98718 1y8qB 640 7.16e+01 1pgyA 47 7.20e+01 a.5.2.1 94696 1z8oA 404 7.23e+01 1t8sA 484 7.26e+01 c.56.2.1 106679 2daqA 110 7.30e+01 8rucI 123 7.32e+01 1rboC d.73.1.1 39629 1oatA 439 7.35e+01 2dkb c.67.1.4 34461 1bi5A 389 7.35e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1fm4A 159 7.36e+01 1bv1 d.129.3.1 76186 1uk8A 282 7.38e+01 c.69.1.10 107907 1c4oA 664 7.44e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 2bptA 861 7.50e+01 1dpo 223 7.51e+01 5ptp b.47.1.2 25975 1wqwA 235 7.53e+01 1n81A 186 7.58e+01 a.185.1.1 85388 1b00A 127 7.60e+01 3chy c.23.1.1 31122 1qh8A 478 7.62e+01 1qguA c.92.2.3 35633 2gyqA 175 7.69e+01 1ubkL 534 7.69e+01 e.18.1.1 88422 1iw7C 1119 7.72e+01 e.29.1.1 71474 1izmA 184 7.75e+01 a.199.1.1 90725 1t01A 255 7.77e+01 a.24.9.1,a.24.9.1 106188,106189 1uteA 313 7.77e+01 1uteA d.159.1.1 42078 1u1jA 765 7.80e+01 c.1.22.2,c.1.22.2 107590,107591 2dhqA 146 7.88e+01 2dhqA c.23.13.1 31382 1qo7A 394 7.89e+01 1qo7A c.69.1.11 34697 2g6tA 306 7.92e+01 1l1lA 739 7.97e+01 c.7.1.4 73470 1r5qA 102 8.01e+01 a.186.1.1 97103 1smlA 269 8.06e+01 1smlA d.157.1.1 42053 1dq3A 454 8.10e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1hs6A 611 8.12e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1q06A 135 8.16e+01 a.6.1.3 95493 1yge 839 8.20e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1jihA 531 8.25e+01 d.240.1.1,e.8.1.7 90374,90375 1d2rA 326 8.32e+01 1d2rB c.26.1.1 31572 1y9qA 192 8.34e+01 2avuE 192 8.35e+01 1wxiA 275 8.42e+01 2ae5B 528 8.43e+01 2b1xA 470 8.56e+01 1qgrA 876 8.63e+01 1qgrA a.118.1.1 19119 2gpiA 91 8.66e+01 1y0hA 105 8.67e+01 1wlzA 105 8.72e+01 1zzgA 415 8.77e+01 1r4vA 171 8.81e+01 a.197.1.1 97049 2aioA 269 8.84e+01 1jeyB 565 8.88e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 1y791 680 8.94e+01 2cqsA 842 8.95e+01 2avpA 70 8.95e+01