# 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 2f22A 144 3.86e-07 1rxqA 178 6.26e-03 a.213.1.1 105118 1ykdA 398 6.84e-01 2basA 431 8.21e-01 1pn0A 665 1.13e+00 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 2aorA 223 1.31e+00 1y8qA 346 1.47e+00 1hq0A 295 3.45e+00 1hzgA d.194.1.1 61122 2essA 248 3.73e+00 1e39A 571 3.85e+00 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1n2aA 201 4.03e+00 a.45.1.1,c.47.1.5 91553,91554 1muwA 386 4.19e+00 c.1.15.3 79495 1g6aA 271 4.19e+00 1btl e.3.1.1 42704 1o12A 376 4.42e+00 b.92.1.5,c.1.9.10 80758,80759 1upaA 573 4.52e+00 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1ia9A 280 4.53e+00 1ia9A d.144.1.5 62113 1ogiA 303 4.84e+00 b.43.4.2,c.25.1.1 92914,92915 1epuA 591 5.16e+00 1dn1A e.25.1.1 43358 1ew2A 513 5.27e+00 1b8jA c.76.1.1 59525 1qqcA 773 5.36e+00 1tgoA c.55.3.5,e.8.1.1 33724,43013 1kqpA 271 6.36e+00 c.26.2.1 72883 4tmkA 213 6.51e+00 5tmpA c.37.1.1 31930 1omiA 248 6.66e+00 b.82.3.3,a.4.5.4 87079,87080 1wy2A 351 6.68e+00 1ih8A 271 6.85e+00 2nsyA c.26.2.1 62377 1lf6A 684 6.95e+00 a.102.1.5,b.30.5.5 77918,77919 1o0xA 262 7.19e+00 d.127.1.1 80755 1k20A 310 7.30e+00 c.107.1.1 68027 1t1uA 639 7.51e+00 1reqA 727 7.56e+00 1reqA c.1.19.1,c.23.6.1 29620,31247 1ht6A 405 7.72e+00 b.71.1.1,c.1.8.1 83629,83630 1s5lB 510 7.88e+00 1wzlA 585 8.65e+00 1ll7A 392 9.94e+00 c.1.8.5,d.26.3.1 78085,78086 2ax8A 256 1.02e+01 1pcxA 810 1.07e+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 2bcjB 340 1.07e+01 2ax6A 256 1.11e+01 2fv1A 377 1.22e+01 2fflA 756 1.26e+01 1cp2A 269 1.31e+01 1cp2A c.37.1.10 32269 1l5jA 865 1.33e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1adoA 363 1.34e+01 1fbaA c.1.10.1 29124 1vixA 420 1.35e+01 c.56.5.4,d.58.19.1 100777,100778 1vi0A 206 1.36e+01 a.4.1.9,a.121.1.1 100720,100721 1jvnA 555 1.37e+01 c.1.2.1,c.23.16.1 67355,67356 1nw1A 429 1.38e+01 d.144.1.8 86286 1pwhA 327 1.38e+01 c.79.1.1 95224 4xis 387 1.38e+01 4xis c.1.15.3 29421 3xis 387 1.38e+01 4xis c.1.15.3 29423 1vdeA 454 1.43e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28378,40581,40582 1wybA 392 1.47e+01 2ccmA 191 1.47e+01 1t7lA 766 1.48e+01 1mhyD 521 1.52e+01 1mhyD a.25.1.2 16780 2g7sA 194 1.55e+01 1r1hA 696 1.58e+01 d.92.1.4 104756 1que 303 1.58e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1v02A 565 1.61e+01 c.1.8.4 108194 1y8qB 640 1.62e+01 1d0cA 444 1.62e+01 d.174.1.1 64769 2fgeA 995 1.67e+01 1rpnA 335 1.71e+01 c.2.1.2 97708 1bg6 359 1.71e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1y5iA 1246 1.72e+01 1ojaA 520 1.76e+01 c.3.1.2,d.16.1.5 93096,93097 1yfsA 465 1.79e+01 1ti6A 875 1.80e+01 b.52.2.2,c.81.1.1 106974,106975 1foeA 377 1.85e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1yljA 263 1.91e+01 1q06A 135 1.92e+01 a.6.1.3 95493 2bmwA 304 1.96e+01 1p9qC 256 1.99e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1zvdA 380 2.02e+01 1e9gA 286 2.03e+01 1wgjA b.40.5.1 59393 1s3eA 520 2.04e+01 c.3.1.2,d.16.1.5 98426,98427 1nni1 174 2.04e+01 1w6kA 732 2.04e+01 1cem 363 2.08e+01 1cem a.102.1.2 18826 1f4lA 551 2.10e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1td6A 306 2.11e+01 1dar 691 2.13e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1n9eA 787 2.20e+01 b.30.2.1,d.17.2.1,d.17.2.1 91708,91709,91710 1eemA 241 2.21e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1xrhA 351 2.26e+01 1tf5A 844 2.29e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 2a74A 643 2.31e+01 1phnB 172 2.34e+01 1qgwC a.1.1.3 15642 1ypyA 184 2.34e+01 1dd9A 338 2.34e+01 1dd9A e.13.1.1 43254 2bw3A 534 2.40e+01 2b43A 526 2.42e+01 1mo9A 523 2.44e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1ei6A 406 2.44e+01 c.76.1.4 90443 1gwuA 309 2.53e+01 a.93.1.1 83351 1hlb 158 2.60e+01 1hlb a.1.1.2 15625 1anv 356 2.60e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17890,45365,45371 1fiy 883 2.61e+01 1fiy c.1.12.3 29307 1qmeA 702 2.61e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1hjsA 332 2.64e+01 c.1.8.3 83492 1xioA 261 2.66e+01 1k1aA 241 2.68e+01 d.211.1.1 67992 1n2sA 299 2.72e+01 c.2.1.2 79857 1uohA 226 2.78e+01 d.211.1.1 99690 1udc 338 2.78e+01 1xel c.2.1.2 29785 2bogX 286 2.83e+01 1x3lA 440 2.83e+01 1vns 609 2.84e+01 1vns a.111.1.3 19061 1u04A 771 2.85e+01 b.34.14.1,c.55.3.10 107539,107540 2fp4B 395 2.93e+01 1f44A 324 2.96e+01 a.60.9.1,d.163.1.1 64982,64983 1su4A 994 2.97e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1yyhA 253 2.99e+01 1w2fA 276 3.00e+01 d.143.1.3 109125 1r6uA 437 3.15e+01 c.26.1.1 97163 2d2jA 329 3.16e+01 1fw1A 216 3.24e+01 a.45.1.1,c.47.1.5 60051,60052 1hd7A 318 3.24e+01 1bix d.151.1.1 41780 7atjA 308 3.27e+01 1bgp a.93.1.1 18673 1nktA 922 3.28e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 85830,85831,85832,85833 1edqA 540 3.30e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1j1nA 492 3.34e+01 c.94.1.1 83978 2c3mA 1231 3.38e+01 2bl0C 142 3.44e+01 1d8wA 426 3.45e+01 1de5A c.1.15.2 29394 1sr7A 259 3.57e+01 a.123.1.1 105957 1suuA 312 3.57e+01 b.68.10.1 99006 2fgtA 417 3.60e+01 1pfvA 551 3.62e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1gc5A 467 3.70e+01 1gc5A c.72.1.3 60429 1lycA 343 3.75e+01 a.93.1.1 74344 5csmA 256 3.75e+01 5csmA a.130.1.2 19494 1tffA 234 3.85e+01 d.3.1.11 106854 1elvA 333 3.87e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1ufoA 238 3.87e+01 c.69.1.27 99344 1xahA 354 3.92e+01 1hcuA 503 3.97e+01 a.102.2.1 65796 1tltA 319 4.01e+01 c.2.1.3,d.81.1.5 107135,107136 1y0pA 571 4.04e+01 4dpvZ 584 4.07e+01 2cas b.121.5.2 23377 1zaiA 363 4.11e+01 1mplA 349 4.24e+01 e.3.1.1 79387 1zrsA 317 4.24e+01 1bf6A 291 4.25e+01 1pscA c.1.9.3 29065 2aumA 317 4.27e+01 2a67A 167 4.27e+01 1tqnA 486 4.28e+01 a.104.1.1 107238 1qv9A 283 4.33e+01 c.127.1.1 96356 2bshA 125 4.33e+01 1tvzA 388 4.34e+01 c.95.1.2,c.95.1.2 107367,107368 2aunA 317 4.34e+01 1vqqA 646 4.38e+01 1r71A 178 4.41e+01 a.4.14.1 104823 1htjF 210 4.41e+01 1htjF a.91.1.1 61254 1kn1B 161 4.42e+01 a.1.1.3 77456 2aqjA 538 4.45e+01 1hqsA 423 4.46e+01 1iso c.77.1.1 61154 1krhA 338 4.47e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1jboB 172 4.47e+01 a.1.1.3 84151 1j5yA 187 4.57e+01 a.4.5.1,d.94.2.1 71592,71593 2aaoA 166 4.60e+01 1b9hA 388 4.60e+01 1b9hA c.67.1.4 34488 1vykA 149 4.61e+01 1scfA 273 4.61e+01 1exzA a.26.1.2 16873 1h5uA 842 4.62e+01 1a8i c.87.1.4 60655 1mtpA 323 4.63e+01 e.1.1.1 85107 1pguA 615 4.65e+01 b.69.4.1,b.69.4.1 88069,88070 1ofdA 1520 4.66e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1ovlA 271 4.68e+01 a.123.1.1 87455 1dekA 241 4.73e+01 1dekA c.37.1.1 31842 1tml 286 4.77e+01 1tml c.6.1.1 30656 1nz6A 101 4.84e+01 a.2.3.1 86441 1nk4A 580 4.86e+01 c.55.3.5,e.8.1.1 91923,91924 2occE 109 4.89e+01 2occE a.118.11.1 19224 1kmiZ 214 4.91e+01 h.4.11.1 72752 1u24A 337 4.91e+01 1e5eA 404 4.95e+01 1ibjA c.67.1.3 59265 1ni5A 433 5.04e+01 c.26.2.5,d.229.1.1 80533,80534 1o5hA 214 5.05e+01 a.191.1.1 92497 1ctn 540 5.06e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 1g8kA 825 5.08e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1jvsA 400 5.10e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1q1rA 431 5.15e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 2f3yA 148 5.16e+01 1qniA 581 5.20e+01 1qniA b.6.1.4,b.69.3.1 23042,27642 1vgoA 253 5.22e+01 1cpo 299 5.23e+01 1cpo a.39.3.1,a.39.3.1 17390,17391 1ex0A 731 5.24e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1b4vA 504 5.28e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1vjxA 157 5.30e+01 a.25.1.1 100837 1acc 735 5.36e+01 1acc f.11.1.1 43828 1ps9A 671 5.36e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1j5uA 136 5.41e+01 d.208.1.1 71584 1i37A 260 5.44e+01 1a28A a.123.1.1 61583 1vgmA 378 5.48e+01 1t9xA 1049 5.52e+01 1uwkA 557 5.56e+01 e.51.1.1 108065 1fobA 334 5.57e+01 c.1.8.3 83255 1y7wA 291 5.58e+01 1qgrA 876 5.63e+01 1qgrA a.118.1.1 19119 1k94A 165 5.67e+01 a.39.1.8 68333 1zbyA 294 5.68e+01 1u6tA 121 5.70e+01 1f6dA 376 5.71e+01 1f6dA c.87.1.3 35467 1yzyA 413 5.76e+01 1lucB 324 5.77e+01 1lucA c.1.16.1 29548 1xkyA 301 5.81e+01 1k7kA 221 5.82e+01 c.51.4.1 72104 1wdaA 670 5.89e+01 b.2.9.1,b.6.1.6,d.126.1.5 109243,109244,109245 2lbp 346 5.94e+01 2liv c.93.1.1 35709 2h0uA 217 5.95e+01 1up8A 598 5.96e+01 a.111.1.2 99710 1g99A 408 6.06e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1w2yA 229 6.08e+01 a.204.1.1 109140 1vjjA 692 6.14e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1kfuL 699 6.22e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1qusA 322 6.25e+01 1ltm d.2.1.6 36991 1i6aA 219 6.26e+01 c.94.1.1 61827 1apyB 141 6.28e+01 1apyB 1vmeA 410 6.30e+01 c.23.5.1,d.157.1.3 108893,108894 1mpxA 615 6.36e+01 b.18.1.13,c.69.1.21 85041,85042 1oy3D 282 6.43e+01 d.211.1.1 87554 1w6sA 599 6.47e+01 1aky 221 6.52e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1gpeA 587 6.54e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1f4qA 165 6.55e+01 1alvA a.39.1.8 17360 1uu1A 335 6.55e+01 c.67.1.1 99993 1wteA 272 6.70e+01 1ou0A 207 6.77e+01 c.23.17.1 93536 2b6hA 192 6.80e+01 1d5tA 433 6.86e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1kqfB 294 6.87e+01 d.58.1.5,f.23.22.1 75900,75901 1ed5A 444 6.88e+01 1nseA d.174.1.1 42530 1t56A 216 6.91e+01 a.4.1.9,a.121.1.1 106428,106429 3chbD 104 6.93e+01 3chbD b.40.2.1 24970 2gyqA 175 6.95e+01 2b5eA 504 6.98e+01 1uteA 313 7.02e+01 1uteA d.159.1.1 42078 1cqxA 403 7.07e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1rw6A 210 7.07e+01 a.47.4.1 105113 1ryp1 222 7.08e+01 1ryp1 2gnoA 305 7.12e+01 1g72A 573 7.13e+01 4aahA b.70.1.1 27680 1w3uA 362 7.13e+01 1a0fA 201 7.15e+01 1a0fA a.45.1.1,c.47.1.5 17737,33031 1cpcB 172 7.23e+01 1qgwC a.1.1.3 15644 1k0dA 260 7.24e+01 a.45.1.1,c.47.1.5 67930,67931 2bh4X 134 7.25e+01 1a0tP 413 7.27e+01 1a0tP f.4.3.2 43794 2ez6A 221 7.38e+01 1wdyA 285 7.38e+01 1tuhA 156 7.39e+01 d.17.4.11 107345 1bsg 266 7.45e+01 1btl e.3.1.1 42729 2a65A 519 7.48e+01 1ks9A 291 7.53e+01 a.100.1.7,c.2.1.6 68857,68858 2cb2A 318 7.54e+01 1z7aA 308 7.58e+01 1o7eA 276 7.63e+01 e.3.1.1 92622 2pgd 482 7.65e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1whrA 124 7.71e+01 1h6pA 203 7.72e+01 a.146.1.1 60690 1ad2 228 7.78e+01 1ad2 e.24.1.1 43353 1epwA 1290 7.80e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1nzeA 149 7.83e+01 a.24.18.1 92374 1qhfA 240 7.88e+01 1qhfA c.60.1.1 33960 1bkdS 439 7.92e+01 1bkdS a.117.1.1 19111 1p3dA 475 7.92e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2d8aA 348 7.95e+01 1b8gA 429 8.00e+01 1b8gA c.67.1.4 34499 1aj2 282 8.06e+01 1aj2 c.1.21.1 29665 1db3A 372 8.13e+01 1db3A c.2.1.2 29813 1sgvA 316 8.17e+01 b.122.1.1,d.265.1.2 98858,98859 2a8lA 420 8.23e+01 1lrv 244 8.25e+01 1lrv a.118.1.5 19146 1z53A 294 8.26e+01 1gw0A 559 8.34e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 2bx2L 517 8.37e+01 1d1vA 444 8.37e+01 1nseA d.174.1.1 59101 1bw0A 416 8.42e+01 1bw0A c.67.1.1 34385 1yqsA 349 8.51e+01 1ryp2 233 8.53e+01 1ryp2 1txoA 237 8.62e+01 1p5sA 203 8.62e+01 a.40.1.1 94147 1djnA 729 8.62e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1bouB 302 8.63e+01 1bouB c.56.6.1 33859 1k0eA 453 8.70e+01 d.161.1.1 67938 2fq9A 225 8.77e+01 1bu6O 501 8.77e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1sziA 247 8.79e+01 a.24.23.1 106159 1r2zA 274 8.81e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1iapA 211 8.82e+01 a.91.1.1 62119 1n1cA 217 8.85e+01 a.184.1.1 85254 1gnwA 211 8.94e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1e6bA 221 8.95e+01 1e6bA a.45.1.1,c.47.1.5 59294,59295