# List of top-scoring protein chains for t04-100-30-CB_burial_14_7 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 1o60A 292 2.32e-30 1jcxA 267 2.88e-28 c.1.10.4 66510 1fxqA 267 3.13e-28 1d9eA c.1.10.4 60108 1pe1A 267 3.53e-28 1fwsA 267 4.36e-28 1d9eA c.1.10.4 60063 1of8A 370 2.09e-11 1n8fA 350 2.99e-11 c.1.10.4 85397 1gg1A 350 6.15e-11 1qr7A c.1.10.4 29187 1p0kA 349 8.40e-05 c.1.4.1 87648 1a53 247 5.30e-04 1a53 c.1.2.4 28564 1igs 248 6.20e-04 1a53 c.1.2.4 28565 1aj2 282 2.53e-03 1aj2 c.1.21.1 29665 1thfD 253 2.53e-03 1thfD c.1.2.1 28535 1vc4A 254 3.46e-03 1vh7A 265 3.68e-03 1o5kA 306 3.99e-03 1pii 452 4.09e-03 1pii c.1.2.4 28559 c.1.2.4 28563 1ofgA 381 5.07e-03 1ofgA c.2.1.3 30064 d.81.1.5 39979 1h6dA 433 5.34e-03 c.2.1.3 65656 d.81.1.5 65657 1p5dX 463 8.08e-03 1k2yX 463 8.26e-03 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1gox 370 1.69e-02 1gox c.1.4.1 28607 1zfjA 491 1.69e-02 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1vhcA 224 2.38e-02 1rvgA 305 2.59e-02 1pymA 295 2.87e-02 1pymA c.1.12.7 29308 1rvkA 382 2.88e-02 1p4cA 380 3.37e-02 1eyeA 280 3.47e-02 1aj2 c.1.21.1 29672 1ak5 503 3.47e-02 1ak5 c.1.5.1 28639 1euaA 213 3.60e-02 1fwrA c.1.10.1 29155 1jclA 260 3.95e-02 c.1.10.1 66501 1uasA 362 4.14e-02 b.71.1.1 88388 c.1.8.1 88389 1p1xA 260 4.30e-02 2tpsA 227 4.34e-02 2tpsA c.1.3.1 28591 1ojxA 263 4.85e-02 1qcwA 410 5.08e-02 1gox c.1.4.1 28622 1gteA 1025 6.92e-02 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1h7wA 1025 7.34e-02 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1brt 277 7.56e-02 1brt c.69.1.12 34699 1eceA 358 8.44e-02 1eceA c.1.8.3 28813 1kbjA 412 1.02e-01 c.1.4.1 72280 1vi9A 299 1.10e-01 1qopA 268 1.11e-01 2tysA c.1.2.4 28570 1fc4A 401 1.14e-01 1bs0A c.67.1.4 59760 1dvjA 246 1.23e-01 1dvjA c.1.2.3 28546 1s2wA 295 1.44e-01 1broA 277 1.60e-01 1brt c.69.1.12 34700 1km4A 247 1.74e-01 c.1.2.3 72740 1v02A 565 1.85e-01 1e4iA 447 1.91e-01 1e70M c.1.8.4 59225 1j6oA 268 1.96e-01 c.1.9.12 77088 1me8A 503 2.18e-01 c.1.5.1 79028 1ub3A 220 2.43e-01 c.1.10.1 88395 1mzhA 225 2.45e-01 c.1.10.1 79698 1ucsA 64 2.61e-01 b.85.1.1 88466 1m3uA 264 2.74e-01 c.1.12.8 84784 1bf6A 291 2.79e-01 1pscA c.1.9.3 29065 1ad1A 266 2.83e-01 1aj2 c.1.21.1 29668 2tysA 268 2.99e-01 2tysA c.1.2.4 28572 1nsj 205 3.11e-01 1nsj c.1.2.4 28560 1bag 425 3.56e-01 1bag b.71.1.1 27720 c.1.8.1 28707 1i60A 278 3.61e-01 c.1.15.4 71118 1pbgA 468 3.62e-01 1e70M c.1.8.4 28946 1h49A 512 3.64e-01 c.1.8.4 83477 1ktbA 405 4.37e-01 b.71.1.1 72960 c.1.8.1 72961 1e55A 512 4.44e-01 1e70M c.1.8.4 28934 1qwgA 251 4.69e-01 1mumA 295 4.95e-01 c.1.12.7 85108 1ek6A 348 5.14e-01 1xel c.2.1.2 29800 1f74A 293 5.35e-01 1nal3 c.1.10.1 29079 1ufoA 238 5.75e-01 1r7aA 504 6.17e-01 1b9hA 388 6.41e-01 1b9hA c.67.1.4 34488 1ks9A 291 6.56e-01 a.100.1.7 68857 c.2.1.6 68858 1ho1A 242 6.72e-01 1ho1A c.1.24.1 61097 1hl2A 297 7.14e-01 c.1.10.1 83581 1fobA 334 7.33e-01 c.1.8.3 83255 1erzA 303 7.46e-01 1erzA d.160.1.2 59498 1a8q 274 7.98e-01 1brt c.69.1.12 34702 1ceo 343 8.13e-01 1ceo c.1.8.3 28808 1fts 295 8.47e-01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1s1pA 331 9.77e-01 1uf5A 303 1.01e+00 4pgaA 337 1.02e+00 4pgaA c.88.1.1 35565 1uf3A 228 1.04e+00 1jndA 420 1.11e+00 c.1.8.5 71757 d.26.3.1 71758 1m5wA 243 1.13e+00 c.1.24.1 84836 1ep3A 311 1.17e+00 2dorA c.1.4.1 28597 1knwA 425 1.24e+00 1php 394 1.29e+00 16pk c.86.1.1 35452 2aaa 484 1.32e+00 7taa b.71.1.1 27777 c.1.8.1 28764 1nal1 297 1.38e+00 1nal3 7taa 478 1.41e+00 7taa b.71.1.1 27778 c.1.8.1 28765 1hkhA 279 1.43e+00 1n7kA 234 1.46e+00 c.1.10.1 85374 1hg7A 66 1.47e+00 1msi b.85.1.1 28280 1gnxA 479 1.48e+00 c.1.8.4 76241 1j0hA 588 1.49e+00 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1ad4A 266 1.62e+00 1aj2 c.1.21.1 29670 1bqcA 302 1.86e+00 1bqcA c.1.8.3 28831 1sr9A 644 1.89e+00 1rj9A 304 1.93e+00 1hw6A 278 2.00e+00 1frb c.1.7.1 61296 4xis 387 2.03e+00 4xis c.1.15.3 29421 3xis 387 2.07e+00 4xis c.1.15.3 29423 1f2dA 341 2.24e+00 1f2dA c.79.1.1 35298 1h1yA 228 2.24e+00 c.1.2.2 76506 1o66A 275 2.41e+00 1din 236 2.47e+00 1din c.69.1.9 34682 1vhnA 318 2.55e+00 1uumA 372 2.59e+00 1uok 558 2.62e+00 1uok b.71.1.1 27801 c.1.8.1 28788 1eqjA 511 2.63e+00 1ejjA c.105.1.1 59495 c.76.1.3 59496 1o98A 511 2.68e+00 c.105.1.1 86684 c.76.1.3 86685 1h1nA 305 2.72e+00 c.1.8.3 70855 1q0rA 298 2.74e+00 1q7zA 566 2.92e+00 1a88A 275 3.07e+00 1brt c.69.1.12 34707 1alvA 173 3.27e+00 1alvA a.39.1.8 17370 7odcA 424 3.35e+00 7odcA b.49.2.3 26488 c.1.6.1 28650 1vypX 364 3.42e+00 1bgvA 449 3.48e+00 1k89 c.2.1.7 30217 c.58.1.1 33865 1gvfA 286 3.57e+00 c.1.10.2 70599 1gvoA 364 3.71e+00 c.1.4.1 76357 1gveA 327 3.78e+00 c.1.7.1 70597 1lwjA 441 4.10e+00 b.71.1.1 74303 c.1.8.1 74304 1qo2A 241 4.13e+00 1qo2A c.1.2.1 28533 1ads 315 4.18e+00 1frb c.1.7.1 28671 1pwmA 316 4.19e+00 1j5uA 136 4.26e+00 d.208.1.1 71584 1iyxA 432 4.36e+00 c.1.11.1 83815 d.54.1.1 83816 1h61A 364 4.43e+00 1oyc c.1.4.1 60657 1gcuA 295 4.65e+00 1gcuA c.2.1.3 30063 d.81.1.4 39978 1l8aA 886 4.69e+00 c.36.1.6 73678 c.36.1.10 73677 c.48.1.1 73679 4cpv 109 4.71e+00 1a75A a.39.1.4 17198 1j96A 323 4.77e+00 c.1.7.1 71616 1pzgA 331 4.87e+00 1nofA 383 5.15e+00 1hrdA 449 5.20e+00 1k89 c.2.1.7 30219 c.58.1.1 33867 1d3gA 367 5.37e+00 1d3gA c.1.4.1 28600 1upaA 573 5.58e+00 1lc0A 294 5.63e+00 c.2.1.3 73823 d.81.1.4 73824 1np3A 338 5.65e+00 a.100.1.2 85946 c.2.1.6 85947 1v93A 296 5.83e+00 1qycA 308 5.92e+00 1fkx 349 6.00e+00 1a4mA c.1.9.1 29018 1pxgA 382 6.03e+00 1nu5A 370 6.13e+00 1qfeA 252 6.15e+00 1qfeA c.1.10.1 29167 1us0A 316 6.20e+00 1ub0A 258 6.21e+00 c.72.1.2 88394 1f8fA 371 6.24e+00 b.35.1.2 83246 c.2.1.1 83247 1nq7A 244 6.40e+00 1d2fA 390 6.45e+00 1d2fA c.67.1.3 34411 1qorA 327 6.48e+00 1qorA b.35.1.2 24766 c.2.1.1 29782 1n8nA 212 6.57e+00 1o1zA 234 6.62e+00 c.1.18.3 86555 1lt8A 406 6.65e+00 c.1.26.1 78186 1l2uA 245 6.66e+00 c.1.2.3 73516 1muwA 386 6.71e+00 c.1.15.3 79495 1p35A 299 6.99e+00 1p35A b.28.1.1 23925 2bc2A 227 7.19e+00 1a7tA d.157.1.1 42031 1xyzA 347 7.27e+00 1taxA c.1.8.3 28804 1h0hA 977 7.64e+00 b.52.2.2 76435 c.81.1.1 76436 1nvmA 345 7.67e+00 a.5.7.1 86249 c.1.10.5 86250 1fmtA 314 7.83e+00 1fmtA b.46.1.1 25758 c.65.1.1 34174 1lc5A 364 8.02e+00 c.67.1.1 73827 2pgd 482 8.03e+00 2pgd a.100.1.1 18778 c.2.1.6 30190 1m6jA 261 8.11e+00 c.1.1.1 78693 1m45A 148 8.12e+00 a.39.1.5 78598 1emvB 134 8.17e+00 1bxiB d.4.1.1 37135 1vjrA 271 8.38e+00 1qgoA 264 8.51e+00 1qgoA c.92.1.2 35596 1fyeA 229 9.61e+00 1fyeA c.23.16.4 31477 1j79A 347 9.70e+00 1j79A c.1.9.4 62675 1rpxA 230 9.75e+00 1rpxA c.1.2.2 28536 1edg 380 9.78e+00 1edg c.1.8.3 28807 1uroA 367 9.89e+00 1uroA c.1.22.1 29675 1k77A 260 9.95e+00 c.1.15.5 72096 5rubA 490 9.97e+00 1burA c.1.14.1 29382 d.58.9.1 39288 1l2tA 235 1.01e+01 c.37.1.12 73514 1ofuA 320 1.03e+01 c.32.1.1 86972 d.79.2.1 86973 1r3sA 367 1.03e+01 1a8s 273 1.05e+01 1brt c.69.1.12 34710 1hl9A 449 1.08e+01 1mqoA 227 1.10e+01 1lzlA 323 1.10e+01 c.69.1.2 78306 1udxA 416 1.11e+01 4pfk 319 1.12e+01 3pfk c.89.1.1 35582 1vizA 240 1.12e+01 1cg2A 393 1.15e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1jvnA 555 1.15e+01 c.1.2.1 67355 c.23.16.1 67356 1sviA 195 1.17e+01 1cqxA 403 1.17e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1a4mA 349 1.20e+01 1a4mA c.1.9.1 29014 1g8iA 190 1.21e+01 1rec a.39.1.5 60363 1a0cA 438 1.25e+01 1a0cA c.1.15.3 29529 1thtA 305 1.25e+01 1thtA c.69.1.13 34711 1igwA 434 1.26e+01 c.1.12.7 62370 1h5qA 265 1.26e+01 1cydA c.2.1.2 60643 1n0qA 93 1.27e+01 k.37.1.1 79754 1hx0A 496 1.29e+01 b.71.1.1 61346 c.1.8.1 61347 1fr2B 134 1.29e+01 d.4.1.1 83257 1pda 315 1.29e+01 1pda c.94.1.1 35751 d.50.2.1 38794 1rcuA 195 1.33e+01 1mdl 359 1.36e+01 2mnr c.1.11.2 29247 d.54.1.1 38891 1hdcA 253 1.38e+01 1e6wA c.2.1.2 29862 1kw4A 89 1.40e+01 a.60.1.2 73077 1bu7A 455 1.41e+01 1bu7A a.104.1.1 18937 1hruA 188 1.43e+01 1hruA d.115.1.1 40926 1b5tA 275 1.44e+01 1b5tA c.1.23.1 29676 1i0dA 332 1.45e+01 1pscA c.1.9.3 61487 1q7bA 244 1.48e+01 1jx6A 342 1.48e+01 c.93.1.1 67406 1a48 306 1.48e+01 1a48 d.143.1.1 41590 1hzyA 332 1.49e+01 1pscA c.1.9.3 61468 1ll7A 392 1.50e+01 c.1.8.5 78085 d.26.3.1 78086 1m1nB 522 1.50e+01 c.92.2.3 78418 2mnr 357 1.52e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1mjfA 281 1.52e+01 c.66.1.17 79198 1vkfA 188 1.57e+01 1ru8A 232 1.58e+01 1s6yA 450 1.59e+01 1kv5A 250 1.61e+01 c.1.1.1 73052 1b6g 310 1.62e+01 1b6g c.69.1.8 34661 1d2kA 392 1.63e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1ten 90 1.65e+01 1ten b.1.2.1 21990 1on0A 158 1.65e+01 d.108.1.1 87095 1eswA 500 1.65e+01 1cwyA c.1.8.1 59500 1smd 496 1.66e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1j1iA 296 1.70e+01 c.69.1.10 83977 1ec7A 446 1.72e+01 1bqg c.1.11.2 29218 d.54.1.1 38862 1k1xA 659 1.85e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 7aatA 401 1.85e+01 1ajsA c.67.1.1 34250 1an9A 340 1.87e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1s0aA 429 1.92e+01 1li4A 432 1.92e+01 c.2.1.4 84616 c.23.12.3 84617 1f6yA 262 1.98e+01 1f6yA c.1.21.2 29673 1iq8A 582 2.00e+01 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1tpfA 250 2.03e+01 1amk c.1.1.1 28467 1gtkA 313 2.04e+01 c.94.1.1 76346 d.50.2.1 76347 1mk4A 157 2.05e+01 d.108.1.1 84979 2pvbA 107 2.05e+01 1a75A a.39.1.4 17205 1o94A 729 2.09e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1jflA 228 2.11e+01 c.78.2.1 71656 c.78.2.1 71657 1rfmA 344 2.12e+01 1b74A 254 2.15e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1k6dA 220 2.15e+01 c.63.1.2 72082 1kwgA 645 2.16e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1jpzA 473 2.17e+01 a.104.1.1 67069 1ede 310 2.18e+01 1b6g c.69.1.8 34662 1ujnA 348 2.20e+01 1mucA 373 2.20e+01 1mucA c.1.11.2 29236 d.54.1.1 38880 1aa8A 347 2.24e+01 1an9A c.4.1.2 30619 d.16.1.3 37906 1dosA 358 2.24e+01 1dosA c.1.10.2 29175 1lqaA 346 2.26e+01 c.1.7.1 84674 1ujpA 271 2.28e+01 1djnA 729 2.28e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1ipaA 274 2.31e+01 c.116.1.1 71254 d.79.3.3 71255 1jpmA 366 2.32e+01 c.1.11.2 67031 d.54.1.1 67032 1vjzA 341 2.33e+01 1obdA 306 2.33e+01 d.143.1.1 86767 1ii7A 333 2.36e+01 1ii7A d.159.1.4 62415 1pvdA 537 2.42e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1sjdA 368 2.44e+01 1n0wA 243 2.45e+01 c.37.1.11 79772 1mv8A 436 2.46e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1uwsA 489 2.46e+01 1pyfA 312 2.49e+01 1frb 315 2.50e+01 1frb c.1.7.1 28665 1jyeA 349 2.52e+01 c.93.1.1 67455 1eny 268 2.52e+01 1eny c.2.1.2 29910 2tmdA 729 2.57e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1qj5A 429 2.58e+01 1dtyA c.67.1.4 34493 1ahxA 396 2.61e+01 1ajsA c.67.1.1 34293 1jj2F 119 2.61e+01 1ffkE d.79.3.1 63091 1px5A 349 2.65e+01 1ve9A 347 2.70e+01 1nxqA 251 2.71e+01 c.2.1.2 86388 1h4pA 408 2.71e+01 3ullA 132 2.76e+01 3ullA b.40.4.3 25282 1jztA 246 2.78e+01 c.104.1.1 63319 1k6xA 352 2.80e+01 c.2.1.2 68238 1dkuA 317 2.80e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1el6A 219 2.81e+01 1el6B d.182.1.1 42606 1c0pA 363 2.81e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1j31A 262 2.84e+01 1h05A 146 2.88e+01 c.23.13.1 76433 1a59 378 2.92e+01 1aj8A a.103.1.1 18902 1rx0A 393 2.94e+01 1pjcA 361 2.99e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1jg8A 347 3.05e+01 1jg8A c.67.1.1 62946 1d2eA 397 3.08e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1k07A 263 3.09e+01 d.157.1.1 77218 1sdsA 117 3.12e+01 1hdoA 206 3.12e+01 1he2A c.2.1.2 60965 1qhoA 686 3.19e+01 1cxlA b.1.18.2 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1m7xA 617 3.22e+01 b.1.18.2 78749 b.71.1.1 78750 c.1.8.1 78751 1aep 161 3.22e+01 1aep a.63.1.1 18139 1uuqA 440 3.26e+01 1oi7A 288 3.32e+01 c.2.1.8 87049 c.23.4.1 87050 1oxxK 353 3.32e+01 1qghA 156 3.33e+01 1qghA a.25.1.1 16728 1imjA 210 3.34e+01 c.69.1.23 71246 1m6sA 347 3.35e+01 c.67.1.1 78701 1bx4A 345 3.36e+01 1bx4A c.72.1.1 34935 1gowA 489 3.37e+01 1qvbA c.1.8.4 28981 2pfkA 320 3.37e+01 3pfk c.89.1.1 35577 1q3oA 109 3.43e+01 1r6xA 395 3.44e+01 1l3iA 192 3.46e+01 c.66.1.22 77676 1jdc 429 3.51e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1mvcA 240 3.54e+01 a.123.1.1 79499 1qvzA 237 3.55e+01 1d4oA 184 3.56e+01 1d4oA c.31.1.4 31748 1esc 306 3.61e+01 1esc c.23.10.1 31334 1v1rA 400 3.63e+01 1d4fA 431 3.64e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1byb 495 3.65e+01 1byb c.1.8.1 28790 2myr 501 3.66e+01 1gqnA 252 3.74e+01 1itcA 516 3.77e+01 b.3.1.1 83705 c.1.8.1 83706 1q9jA 422 3.80e+01 1ituA 369 3.82e+01 c.1.9.7 71423 1iupA 282 3.85e+01 c.69.1.10 76815 1h3gA 601 3.95e+01 1gt6A 269 3.97e+01 c.69.1.17 76342 1mdoA 393 3.98e+01 c.67.1.4 79013 1kyhA 276 3.98e+01 c.72.1.4 73222