# List of top-scoring protein chains for t06-100-30-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 1wiwA 290 3.53e-02 1woqA 267 1.36e-01 c.55.1.10,c.55.1.10 109462,109463 1xovA 326 1.66e-01 2fymA 431 2.55e-01 1lehA 364 2.84e-01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1zmdA 474 6.50e-01 2btvA 901 6.58e-01 2btvA e.28.1.1 43376 2gq1A 332 6.60e-01 1zc6A 305 7.03e-01 1bgvA 449 8.45e-01 1k89 c.2.1.7,c.58.1.1 30217,33865 1q1rA 431 1.31e+00 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1zk7A 467 1.38e+00 2c1xA 456 1.61e+00 1ejxC 567 1.63e+00 b.92.1.1,c.1.9.2 83184,83185 1qwkA 317 1.81e+00 c.1.7.1 96482 1cnzA 363 1.83e+00 1cnzA c.77.1.1 35061 1vf8A 377 1.86e+00 1mgtA 174 1.98e+00 1mgtA a.4.2.1,c.55.7.1 16078,33753 2a1hA 365 2.09e+00 1gk9B 557 2.12e+00 2akaB 299 2.30e+00 1ok7A 366 2.83e+00 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1ivnA 190 2.94e+00 c.23.10.5 83719 1vpbA 451 3.11e+00 1rypB 250 3.51e+00 1rypB d.153.1.4 41933 1mv8A 436 3.54e+00 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1to6A 371 3.58e+00 c.141.1.1 107170 1o17A 345 3.85e+00 a.46.2.1,c.27.1.1 80765,80766 1wyuB 474 3.92e+00 1rvkA 382 4.11e+00 c.1.11.2,d.54.1.1 97928,97929 2b59B 172 4.23e+00 1u0mA 382 4.30e+00 c.95.1.2,c.95.1.2 107557,107558 1ju2A 536 4.43e+00 c.3.1.2,d.16.1.1 77169,77170 1eu8A 409 4.51e+00 1eu8A c.94.1.1 59502 1qw9A 502 4.54e+00 b.71.1.2,c.1.8.3 96466,96467 1ia8A 289 4.99e+00 1ia8A d.144.1.7 62112 1wxrA 1048 5.08e+00 2f57A 317 5.26e+00 1r8nA 185 5.28e+00 b.42.4.1 104851 1u0fA 564 5.33e+00 1ynfA 458 5.69e+00 1qv1A 195 5.78e+00 a.39.1.5 96347 1cl8A 276 5.80e+00 1ckqA c.52.1.1 33230 1ta8A 332 5.96e+00 2afaA 425 5.99e+00 1cqxA 403 6.04e+00 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1wlsA 328 6.83e+00 1tvlA 454 7.34e+00 c.1.16.4 107366 1f8rA 498 7.35e+00 1f8rA c.3.1.2,d.16.1.5 30410,37974 1s3eA 520 7.36e+00 c.3.1.2,d.16.1.5 98426,98427 1auoA 218 7.46e+00 1auoA c.69.1.14 34716 1i4jA 110 7.84e+00 d.55.1.1 76734 1lldA 319 8.00e+00 3ldh c.2.1.5,d.162.1.1 30177,42144 1bcpD 110 8.01e+00 1bcpD b.40.2.1 25132 1l6sA 323 8.02e+00 c.1.10.3 73627 1ex0A 731 8.23e+00 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 4ubpC 570 8.24e+00 1ubpC b.92.1.1,c.1.9.2 28431,29053 2ahuA 531 8.25e+00 2gshA 414 8.34e+00 1xqwA 293 8.82e+00 1w79A 489 9.22e+00 1svb 395 9.67e+00 1svb b.1.18.4,f.10.1.1 21814,43827 2bkkA 264 9.87e+00 1a99A 344 9.89e+00 1pot c.94.1.1 35812 1d5rA 324 9.97e+00 1d5rA b.7.1.1,c.45.1.1 23181,32697 2af6A 258 1.01e+01 2bbdA 350 1.01e+01 1whsA 255 1.02e+01 1ivyA c.69.1.5 34649 1lnsA 763 1.03e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1vhxA 150 1.03e+01 c.55.3.8 100712 1icpA 376 1.05e+01 1oyc c.1.4.1 62270 1txnA 328 1.06e+01 1s9jA 341 1.06e+01 1rsgA 516 1.12e+01 2b6nA 278 1.17e+01 1iq4A 179 1.17e+01 1iq4A d.77.1.1 62641 1nkgA 508 1.23e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1qyiA 384 1.25e+01 c.108.1.13 96595 1jvbA 347 1.28e+01 b.35.1.2,c.2.1.1 77181,77182 1kolA 398 1.29e+01 b.35.1.2,c.2.1.1 77474,77475 1e5mA 416 1.32e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1x1iA 752 1.36e+01 1xr4A 509 1.37e+01 1twuA 139 1.39e+01 d.32.1.8 107413 1eu1A 780 1.39e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1pc3A 350 1.40e+01 c.94.1.1 104102 1u3wA 374 1.40e+01 1fxoA 293 1.42e+01 1g0rA c.68.1.6 34524 1su8A 636 1.48e+01 e.26.1.2 98999 1eejA 216 1.49e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1tuoA 464 1.49e+01 1v97A 1332 1.50e+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 108436,108437,108438,108439,108440,108441 1zfjA 491 1.51e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 2bcqA 335 1.52e+01 1sjdA 368 1.52e+01 c.1.11.2,d.54.1.1 105632,105633 1bf6A 291 1.52e+01 1pscA c.1.9.3 29065 1l9kA 305 1.53e+01 c.66.1.25 84569 1nthA 458 1.55e+01 c.1.25.1 80730 1mi3A 322 1.56e+01 c.1.7.1 91274 2fpqA 444 1.56e+01 1d3gA 367 1.60e+01 1d3gA c.1.4.1 28600 1dnlA 199 1.64e+01 1ci0A b.45.1.1 25753 1ryoA 327 1.65e+01 c.94.1.2 98108 1h6dA 433 1.71e+01 c.2.1.3,d.81.1.5 65656,65657 1mtzA 293 1.72e+01 c.69.1.7 79467 1rqjA 299 1.72e+01 a.128.1.1 97744 1ooyA 481 1.74e+01 c.124.1.3,c.124.1.2 93388,93389 1yydA 357 1.75e+01 1qy6A 274 1.75e+01 b.47.1.1 96574 2sak 121 1.84e+01 2sak d.15.5.1 37711 2bjfA 329 1.85e+01 1uuqA 440 1.91e+01 c.1.8.3 100015 1t13A 158 1.91e+01 2bjbA 462 1.94e+01 1j7gA 144 1.96e+01 c.110.1.1 84130 2cw6A 298 1.97e+01 1sazA 381 2.01e+01 1qysA 106 2.02e+01 k.41.1.1 96603 1l0qA 391 2.05e+01 b.1.3.1,b.69.2.3 77644,77645 2f4nA 273 2.07e+01 1y0zA 330 2.14e+01 1vbvA 105 2.15e+01 1g3kA 174 2.16e+01 1nedA d.153.1.4 41989 2ez3A 302 2.16e+01 1sffA 426 2.24e+01 c.67.1.4 105482 1zcdA 388 2.29e+01 4bcl 366 2.30e+01 4bcl b.75.1.1 27968 1d7uA 433 2.33e+01 2dkb c.67.1.4 34439 2c1lA 358 2.33e+01 2bg9A 370 2.35e+01 1jsdB 176 2.38e+01 h.3.1.1 63259 1eh8A 207 2.40e+01 1sfe a.4.2.1,c.55.7.1 16077,33752 1sg6A 393 2.42e+01 e.22.1.1 105522 2ffeA 311 2.43e+01 1nnfA 309 2.45e+01 c.94.1.1 85903 2bce 581 2.48e+01 2bce c.69.1.1 34625 1qpaA 345 2.49e+01 1arv a.93.1.1 18585 2gdjA 264 2.52e+01 2govA 195 2.54e+01 1xd8A 289 2.54e+01 1q45A 391 2.55e+01 c.1.4.1 95780 1wb0A 445 2.58e+01 1mrg 263 2.64e+01 1mrj d.165.1.1 42183 1dgfA 497 2.65e+01 1cf9A e.5.1.1 42782 2a6aA 218 2.75e+01 1w2fA 276 2.77e+01 d.143.1.3 109125 1mugA 168 2.82e+01 1mugA c.18.1.2 31030 2bsxA 253 2.85e+01 1at0 145 2.86e+01 1at0 b.86.1.1 28374 1pmmA 466 2.87e+01 c.67.1.6 94901 2aaoA 166 2.88e+01 1tf5A 844 2.94e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1y60A 169 3.01e+01 1xknA 355 3.04e+01 1x9pA 523 3.06e+01 1k3yA 221 3.06e+01 a.45.1.1,c.47.1.5 77245,77246 1womA 271 3.07e+01 1musA 477 3.08e+01 c.55.3.4 79494 1qntA 176 3.11e+01 1sfe a.4.2.1,c.55.7.1 16074,33749 1vkdA 338 3.11e+01 b.67.2.4 108644 2bpa1 426 3.14e+01 2bpa1 1jndA 420 3.16e+01 c.1.8.5,d.26.3.1 71757,71758 1r0mA 375 3.20e+01 c.1.11.2,d.54.1.1 104747,104748 1m5q1 130 3.29e+01 1ixh 321 3.30e+01 1ixh c.94.1.1 35761 1zkpA 268 3.32e+01 2bl0C 142 3.41e+01 2ab0A 205 3.41e+01 1neiA 60 3.43e+01 d.253.1.1 91843 1uz8B 212 3.44e+01 b.1.1.1,b.1.1.2 108168,108169 1nb8A 353 3.45e+01 d.3.1.9 80385 2bhvA 246 3.46e+01 1uv4A 293 3.51e+01 1gzsB 165 3.53e+01 a.168.1.1 76425 2biwA 490 3.66e+01 1xezA 721 3.68e+01 1ypfA 336 3.68e+01 1rypA 243 3.69e+01 1pmaA d.153.1.4 41932 1k8kA 418 3.69e+01 c.55.1.1,c.55.1.1 68305,68306 1c93A 265 3.71e+01 2ebn c.1.8.5 28998 1pguA 615 3.75e+01 b.69.4.1,b.69.4.1 88069,88070 1efyA 350 3.78e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1zkiA 133 3.79e+01 1k6dA 220 3.80e+01 c.124.1.2 72082 1nrwA 288 3.86e+01 c.108.1.10 86128 1p2xA 159 3.86e+01 a.40.1.1 104062 1hxiA 121 3.91e+01 1hxiA a.118.8.1 61366 2bwrA 401 3.91e+01 1wmwA 330 3.95e+01 1d3cA 686 3.95e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1umkA 275 3.97e+01 1x0rA 249 3.98e+01 1yc5A 246 4.00e+01 1dqzA 280 4.03e+01 1dqyA c.69.1.3 34638 2g8mA 264 4.06e+01 1uayA 242 4.06e+01 c.2.1.2 88390 1ztpA 251 4.06e+01 2dh4A 340 4.10e+01 1v8bA 479 4.10e+01 1mveA 243 4.12e+01 b.29.1.2 85140 1augA 215 4.17e+01 1a2zA c.56.4.1 33798 1kjvA 284 4.18e+01 b.1.1.2,d.19.1.1 77421,77422 2a2kA 175 4.19e+01 1efvA 315 4.20e+01 1efvA c.26.2.3,c.31.1.2 31633,31728 2gjgA 248 4.26e+01 1io0A 185 4.26e+01 c.10.1.1 76753 2bs3A 656 4.30e+01 1o1zA 234 4.34e+01 c.1.18.3 86555 1r9jA 673 4.34e+01 1lfkA 398 4.38e+01 a.104.1.1 77926 1hzdA 272 4.41e+01 c.14.1.3 65969 1ja9A 274 4.44e+01 c.2.1.2 62817 1nu5A 370 4.47e+01 c.1.11.2,d.54.1.1 92183,92184 1qfgA 725 4.50e+01 1by5A f.4.3.3 43803 1xd3A 230 4.50e+01 1wrvA 308 4.50e+01 2gupA 292 4.51e+01 1iejA 332 4.52e+01 1nnt c.94.1.2 62328 1xl7A 612 4.66e+01 2f2sA 406 4.76e+01 2cybA 323 4.77e+01 1nbwA 607 4.81e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1pyaB 228 4.90e+01 1pyaB 1jl0A 334 4.99e+01 1jenA d.156.1.1 63155 1ztcA 221 5.05e+01 1h9oA 112 5.06e+01 1qadA d.93.1.1 60837 2gmyA 153 5.08e+01 1io1A 398 5.08e+01 1io1A e.32.1.1 62611 1yw5A 177 5.10e+01 1o7fA 469 5.11e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1fy7A 278 5.12e+01 1fy7A d.108.1.1 40817 1ry6A 360 5.12e+01 c.37.1.9 98090 1kqfB 294 5.12e+01 d.58.1.5,f.23.22.1 75900,75901 1i0dA 332 5.14e+01 1pscA c.1.9.3 61487 1oq1A 223 5.18e+01 b.29.1.17 93408 1ig8A 486 5.18e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1epwA 1290 5.19e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1g5aA 628 5.22e+01 b.71.1.1,c.1.8.1 65152,65153 1u8xX 472 5.24e+01 c.2.1.5,d.162.1.2 107741,107742 2cqsA 842 5.24e+01 1f0nA 285 5.27e+01 1dqyA c.69.1.3 34636 1gwuA 309 5.30e+01 a.93.1.1 83351 1xdwA 331 5.32e+01 2b6dA 345 5.33e+01 7aatA 401 5.34e+01 1ajsA c.67.1.1 34250 1k7hA 476 5.41e+01 c.76.1.1 72101 1b12A 248 5.42e+01 1b12A b.87.1.2 28388 1s7iA 124 5.43e+01 d.58.4.9 105353 1bquA 215 5.50e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 1khqA 212 5.55e+01 d.3.1.1 90964 1yi8A 351 5.56e+01 1qx4A 274 5.64e+01 b.43.4.2,c.25.1.1 104624,104625 1x3mA 415 5.71e+01 1a12A 413 5.71e+01 1a12A b.69.5.1 27663 1xypA 190 5.74e+01 1axkA b.29.1.11 24327 1ak0 270 5.78e+01 1ak0 a.124.1.2 19345 1d2vA 104 5.78e+01 1d2vA a.93.1.2 18697 1j31A 262 5.87e+01 d.160.1.2 90808 1eg3A 261 5.87e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1opd 85 5.88e+01 1ptf d.94.1.1 40560 1sawA 225 5.94e+01 1id0A 152 5.97e+01 d.122.1.3 66111 1ryp1 222 6.02e+01 1ryp1 1w9pA 433 6.04e+01 1csh 435 6.06e+01 1csh a.103.1.1 18880 1sz2A 332 6.06e+01 2f6hX 419 6.08e+01 1iicA 422 6.10e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1j0hA 588 6.13e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1yoeA 322 6.14e+01 2gfhA 260 6.20e+01 1i4dA 224 6.23e+01 h.4.7.1 61682 1xhkA 187 6.25e+01 2g8oA 264 6.28e+01 1ypvA 313 6.29e+01 2essA 248 6.31e+01 2dg5A 366 6.37e+01 2akzA 439 6.41e+01 1vkcA 158 6.43e+01 1f1mA 164 6.47e+01 1ggqA a.24.12.1 59598 8abp 306 6.52e+01 8abp c.93.1.1 35647 1ybzA 91 6.53e+01 1yf2A 425 6.54e+01 1yp1A 202 6.55e+01 1xnaA 183 6.57e+01 1xnaA b.18.1.8 23773 1u9iA 519 6.59e+01 1u59A 287 6.60e+01 d.144.1.7 107681 1v30A 124 6.62e+01 1vdnA 162 6.65e+01 1lurA 339 6.73e+01 b.30.5.4 84717 1b43A 340 6.73e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1v54G 85 6.79e+01 f.23.2.1 100328 1zxmA 400 6.84e+01 1ydyA 356 6.85e+01 1i60A 278 6.85e+01 c.1.15.4 71118 1d4tA 104 6.89e+01 1d4tA d.93.1.1 40537 1jb7B 260 6.92e+01 1otcB b.40.4.3 62839 1so7A 382 6.96e+01 1xuqA 212 6.98e+01 1f2vA 219 6.98e+01 1f2vA c.23.17.1 59627 1rypL 212 7.01e+01 d.153.1.4 41880 1cvrA 435 7.03e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1go4A 205 7.12e+01 d.135.1.1 70292 1lrzA 426 7.13e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1p0fA 373 7.13e+01 b.35.1.2,c.2.1.1 87642,87643 1ht6A 405 7.15e+01 b.71.1.1,c.1.8.1 83629,83630 1t5oA 351 7.26e+01 c.124.1.5 106459 1jovA 270 7.26e+01 b.30.5.7 84192 1yovA 537 7.26e+01 1t61A 229 7.28e+01 d.169.1.6,d.169.1.6 106529,106530 1aop 497 7.30e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1tn3 137 7.33e+01 1htn d.169.1.1 42423 1vkmA 297 7.34e+01 c.138.1.1 108670 1q9rB 222 7.45e+01 b.1.1.1,b.1.1.2 96307,96308 1hyeA 313 7.46e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1v71A 323 7.49e+01 2al3A 90 7.50e+01 1rypI 222 7.54e+01 d.153.1.4 41877 1vg0A 650 7.59e+01 c.3.1.3,d.16.1.6 108596,108597 2c0hA 353 7.64e+01 1w2yA 229 7.64e+01 a.204.1.1 109140 1zvnA 99 7.68e+01 1pb7A 292 7.70e+01 c.94.1.1 88025 1yn8A 59 7.88e+01 1m3sA 186 7.95e+01 c.80.1.3 78573 1up8A 598 7.96e+01 a.111.1.2 99710 1z96A 40 8.03e+01 1bgp 309 8.10e+01 1bgp a.93.1.1 18690 1efdN 266 8.10e+01 1efdN c.92.2.1 35597 1p2zA 968 8.12e+01 b.121.2.2,b.121.2.2 93962,93963 1jatA 155 8.13e+01 1u9aA d.20.1.1 62818 1qy5A 269 8.21e+01 d.122.1.1 96573 1mp8A 281 8.26e+01 d.144.1.7 91384 3eipA 84 8.27e+01 3eipA d.26.2.1 38434 2c1vA 338 8.28e+01 1kdgA 546 8.31e+01 c.3.1.2,d.16.1.1 77337,77338 2acaA 189 8.34e+01 1vzoA 355 8.35e+01 d.144.1.7 108971 1ockA 412 8.35e+01 c.117.1.1 86802 1dqeA 137 8.37e+01 1dqeA a.39.2.1 17388 1auiB 169 8.37e+01 1auiB a.39.1.5 17325 2cb2A 318 8.38e+01 1lml 478 8.45e+01 1lml d.92.1.3 40295 1yh3A 256 8.45e+01 2f91A 237 8.52e+01 1qw2A 102 8.54e+01 d.249.1.1 96456 1svpA 161 8.58e+01 1svpA b.47.1.3 26384 1arb 268 8.60e+01 1arb b.47.1.1 25766 1h4pA 408 8.62e+01 c.1.8.3 90617 1w66A 232 8.62e+01 2bkxA 242 8.62e+01 1dpe 507 8.72e+01 1dpe c.94.1.1 35799 1gngX 39 8.77e+01 1odfA 290 8.80e+01 c.37.1.6 92782 2gdzA 267 8.86e+01 2d1eA 248 8.94e+01 1npsA 88 8.95e+01 1prs b.11.1.1 23622 1huxA 270 8.95e+01 1huxA c.55.1.5 61278 2b18A 164 8.97e+01 1t6cA 315 8.99e+01 c.55.1.8,c.55.1.8 106558,106559