# List of top-scoring protein chains for t04-100-30-CB_burial_14_7-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 2bcgY 206 5.61e-20 1ukvY 206 6.10e-20 c.37.1.8 107918 1r2qA 170 1.86e-19 c.37.1.8 96874 1x3sA 195 2.49e-19 1ek0A 170 2.50e-19 1ctqA c.37.1.8 32076 1huqA 164 2.99e-19 1byuA c.37.1.8 32020 3rabA 169 4.08e-19 1ctqA c.37.1.8 32018 1z0jA 170 4.81e-19 2a5jA 191 5.33e-19 1r4aA 165 5.63e-19 c.37.1.8 96986 1mr3F 181 6.74e-19 c.37.1.8 79422 2a5dA 175 7.39e-19 2gf9A 189 8.05e-19 1yzqA 170 8.93e-19 1uptA 171 9.03e-19 c.37.1.8 99767 2f9lA 199 1.04e-18 1oivA 191 1.07e-18 c.37.1.8 93076 2bmeA 186 1.09e-18 1hurA 180 1.21e-18 1hurA c.37.1.8 32052 1oixA 191 2.14e-18 1o3yA 166 2.50e-18 c.37.1.8 86618 1uptC 170 2.55e-18 c.37.1.8 99769 1vg8A 207 2.69e-18 c.37.1.8 108606 1r8sA 164 3.41e-18 c.37.1.8 97247 1z08A 170 3.94e-18 1yzgA 179 4.77e-18 2g6bA 180 5.56e-18 1kshA 186 5.96e-18 c.37.1.8 72914 1fzqA 181 7.78e-18 1hurA c.37.1.8 32060 1s8fA 177 1.06e-17 c.37.1.8 105370 1z06A 189 1.61e-17 2b6hA 192 1.67e-17 1wmsA 177 1.95e-17 c.37.1.8 109414 1zj6A 187 2.19e-17 1zd9A 188 4.72e-17 1ky3A 182 1.34e-16 c.37.1.8 73193 1z2aA 168 3.76e-16 1i2mA 216 9.11e-16 1byuA c.37.1.8 61568 1kao 167 9.96e-16 1ctqA c.37.1.8 32014 2a9kA 187 1.02e-15 1u8zA 168 3.07e-15 1ctqA 166 1.01e-14 1ctqA c.37.1.8 31965 2fn4A 181 1.05e-14 1x1rA 178 1.73e-14 2erxA 172 2.97e-14 2eryA 172 3.88e-14 1xtqA 177 5.62e-14 1kmqA 184 1.52e-13 c.37.1.8 84412 1tx4B 178 1.71e-13 1ctqA c.37.1.8 32045 1f6bA 198 1.86e-13 c.37.1.8 64986 1mh1 186 2.79e-13 1eesA c.37.1.8 32002 2atxA 194 5.60e-13 2atvA 196 7.62e-13 2c2hA 192 1.02e-12 1nf3A 195 1.25e-12 c.37.1.8 85594 1m7bA 184 5.91e-12 c.37.1.8 74572 2gjsA 176 3.06e-11 2bmjA 178 2.72e-09 1lnzA 342 6.92e-07 b.117.1.1,c.37.1.8 78112,78113 1udxA 416 2.04e-06 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1mkyA 439 2.88e-06 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 2cxxA 190 3.89e-06 1wf3A 301 4.71e-06 1nrjB 218 7.08e-06 c.37.1.8 86125 1svsA 353 2.19e-05 c.37.1.8 106051 1cipA 353 4.11e-05 1cipA a.66.1.1,c.37.1.8 18210,32093 1tag 324 1.20e-04 1cipA a.66.1.1,c.37.1.8 18197,32080 1egaA 301 1.59e-04 1egaA c.37.1.8,d.52.3.1 32150,38836 1tadA 324 1.79e-04 1cipA a.66.1.1,c.37.1.8 18194,32077 1sviA 195 2.09e-04 c.37.1.8 106048 1zcbA 362 3.06e-04 1puiA 210 7.11e-03 c.37.1.8 88292 1g7sA 594 9.42e-03 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1pujA 282 1.28e-02 c.37.1.8 88294 1l4uA 176 5.04e-02 c.37.1.2 73568 1kk1A 410 8.78e-02 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1jnyA 435 9.70e-02 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1h65A 270 1.02e-01 c.37.1.8 65640 1ye8A 178 2.58e-01 1dar 691 3.13e-01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1ni3A 392 4.74e-01 c.37.1.8,d.15.10.2 80531,80532 1t9hA 307 5.79e-01 1z6gA 218 6.28e-01 1efm 393 7.74e-01 1efcA c.37.1.8 64732 1s0uA 408 8.18e-01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1tq4A 413 8.57e-01 c.37.1.8 107201 1d2nA 272 1.23e+00 1d2nA c.37.1.20 32428 1jalA 363 1.27e+00 c.37.1.8,d.15.10.2 84138,84139 1ha3A 405 1.33e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1nsf 273 1.37e+00 1d2nA c.37.1.20 32429 2ax4A 198 1.41e+00 1yqtA 538 1.59e+00 1gky 187 1.64e+00 1gky c.37.1.1 31839 1nksA 194 1.66e+00 1nksA c.37.1.1 31886 1lv7A 257 1.69e+00 c.37.1.20 78232 1ex7A 186 1.81e+00 1gky c.37.1.1 59537 2b8wA 328 1.82e+00 1f5nA 592 2.13e+00 1dg3A a.114.1.1,c.37.1.8 19077,32152 2bjvA 265 2.17e+00 1z47A 355 2.40e+00 2cbzA 237 2.52e+00 2acvA 463 3.29e+00 1va4A 279 3.34e+00 c.69.1.12 108458 2bbsA 290 3.35e+00 1xmiA 291 3.41e+00 1fts 295 3.48e+00 1ng1 a.24.13.1,c.37.1.10 16968,32279 1p3jA 217 3.78e+00 c.37.1.1,g.41.2.1 94022,94023 1oxsC 353 3.85e+00 b.40.6.3,c.37.1.12 87519,87520 1oxxK 353 4.01e+00 b.40.6.3,c.37.1.12 93715,93716 1dv1A 449 4.08e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1jbkA 195 4.55e+00 c.37.1.20 71631 1h8eD 482 5.06e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1qhxA 178 5.13e+00 1qhsA c.37.1.3 31936 1viaA 175 5.21e+00 c.37.1.2 100754 1e79D 482 5.23e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 2ck3D 482 5.31e+00 1htwA 158 5.45e+00 c.37.1.18 71083 1ki9A 192 5.84e+00 c.37.1.1 84404 1zl0A 311 6.13e+00 1dbfA 127 6.19e+00 2chsA d.79.1.2 39761 1g291 372 6.25e+00 1g291 1d2eA 397 6.79e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1e94F 449 6.83e+00 1do0A c.37.1.20 32443 2aunA 317 6.85e+00 2c78A 405 7.00e+00 1exmA 405 7.02e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2cvbA 188 7.04e+00 1vmeA 410 7.10e+00 c.23.5.1,d.157.1.3 108893,108894 1in4A 334 7.11e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 1rkbA 173 7.12e+00 1ihuA 589 7.37e+00 c.37.1.10,c.37.1.10 62394,62395 2akaB 299 7.42e+00 1nijA 318 7.50e+00 c.37.1.10,d.237.1.1 85741,85742 2aumA 317 7.69e+00 1zrsA 317 7.76e+00 1jx2B 315 8.13e+00 c.37.1.8 67404 1aky 221 8.25e+00 1zin c.37.1.1,g.41.2.1 31896,45197 1ji0A 240 8.62e+00 c.37.1.12 71665 1g6hA 257 8.70e+00 1gajA c.37.1.12 60318 1im8A 244 8.72e+00 c.66.1.14 66212 2ck3A 510 8.73e+00 1ofcX 304 8.88e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1rj9A 304 8.94e+00 a.24.13.1,c.37.1.10 97553,97554 2cdnA 201 9.20e+00 1b0uA 262 9.35e+00 1b0uA c.37.1.12 32370 1h8eA 510 1.00e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1ayl 541 1.02e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1e79A 510 1.03e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1ekjA 221 1.06e+01 1ekjB c.53.2.1 33364 1vplA 256 1.08e+01 1f60A 458 1.10e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1in6A 334 1.13e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 2fgeA 995 1.13e+01 1g6oA 330 1.16e+01 1g6oA c.37.1.11 32430 1exbA 332 1.17e+01 1qrqA c.1.7.1 28666 1j8fA 323 1.18e+01 1j8fA c.31.1.5 62738 1lw7A 365 1.25e+01 c.26.1.3,c.37.1.1 74295,74296 1v77A 212 1.30e+01 c.6.3.2 108402 1wdtA 665 1.39e+01 1bvyF 191 1.41e+01 1bvyF c.23.5.1 31207 2f46A 156 1.51e+01 1m7gA 211 1.53e+01 c.37.1.4 78724 1zin 217 1.55e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1bif 469 1.56e+01 1bif c.37.1.7,c.60.1.4 31961,34003 4tmkA 213 1.59e+01 5tmpA c.37.1.1 31930 1d6jA 211 1.60e+01 1d6jA c.37.1.4 31940 1w44A 331 1.68e+01 1ylhA 560 1.74e+01 1gpjA 404 1.83e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2f1rA 171 1.85e+01 2d2eA 250 1.88e+01 1s1iG 119 1.88e+01 i.1.1.1 105181 1r0wA 286 1.91e+01 c.37.1.12 96754 1k68A 140 1.92e+01 c.23.1.1 90943 2fvgA 340 1.93e+01 1x6vA 630 1.95e+01 1zip 217 1.97e+01 1zin c.37.1.1,g.41.2.1 31916,45179 3tmkA 216 1.97e+01 3tmkA c.37.1.1 31920 1xx6A 191 1.98e+01 1zmbA 290 1.99e+01 1nt2A 210 2.00e+01 c.66.1.3 86149 2fnaA 357 2.00e+01 1ii2A 524 2.04e+01 c.91.1.1,c.109.1.1 66146,66147 1i3cA 149 2.07e+01 c.23.1.1 71112 1vmaA 306 2.10e+01 a.24.13.1,c.37.1.10 108887,108888 1qgrA 876 2.18e+01 1qgrA a.118.1.1 19119 1s4qA 228 2.22e+01 c.37.1.1 98507 1vj1A 363 2.23e+01 b.35.1.2,c.2.1.1 100794,100795 2b81A 323 2.24e+01 1dfmA 223 2.25e+01 1d2iA c.52.1.5 33295 1wvfA 520 2.28e+01 1u9iA 519 2.29e+01 1gvoA 364 2.29e+01 c.1.4.1 76357 1xwyA 264 2.34e+01 1ep3A 311 2.34e+01 2dorA c.1.4.1 28597 1y63A 184 2.34e+01 1z8fA 228 2.35e+01 1qwrA 319 2.42e+01 b.82.1.3 96491 1p5zB 263 2.42e+01 c.37.1.1 87815 1ivnA 190 2.45e+01 c.23.10.5 83719 1z7bA 358 2.48e+01 1ptmA 329 2.49e+01 c.77.1.3 95104 1mxtA 504 2.52e+01 c.3.1.2,d.16.1.1 79671,79672 1zu4A 320 2.59e+01 1j8rA 196 2.60e+01 1j8rA b.2.3.3 62745 1j1lA 290 2.63e+01 b.82.1.12 90766 1fnnA 389 2.69e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1un8A 552 2.71e+01 c.119.1.2,a.208.1.1 103806,99661 2bllA 345 2.76e+01 1mvwA 840 2.77e+01 i.15.1.1 79523 2f1kA 279 2.78e+01 1n0uA 842 2.79e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1n4wA 504 2.82e+01 c.3.1.2,d.16.1.1 91676,91677 1j8mF 297 2.84e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1e2kA 331 2.89e+01 1qhiA c.37.1.1 31854 1q0bA 367 2.92e+01 c.37.1.9 95502 1kb9B 352 2.92e+01 d.185.1.1,d.185.1.1 77313,77314 1vypX 364 2.92e+01 c.1.4.1 108905 1yrbA 262 2.92e+01 1zsxA 347 2.97e+01 2aeuA 374 2.97e+01 1vl6A 388 3.01e+01 c.2.1.7,c.58.1.3 108724,108725 1vlpA 441 3.05e+01 d.41.2.2,d.41.2.3 108840,108841 1b4vA 504 3.07e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1fp2A 352 3.16e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1ibrB 462 3.18e+01 1qgrA a.118.1.1 19120 1nn5A 215 3.26e+01 c.37.1.1 85892 1u9jA 358 3.27e+01 1e2fA 215 3.27e+01 3tmkA c.37.1.1 59164 2abbA 364 3.31e+01 1x88A 359 3.55e+01 1ym3A 215 3.56e+01 2ccjA 205 3.66e+01 1t2dA 322 3.69e+01 c.2.1.5,d.162.1.1 99084,99085 2an9A 207 3.73e+01 1j3bA 529 3.76e+01 c.91.1.1,c.109.1.1 77071,77072 1nstA 325 3.80e+01 1nstA c.37.1.5 31951 1rw1A 114 3.83e+01 1e2gA 215 3.91e+01 3tmkA c.37.1.1 59165 1ezvB 352 3.95e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 1ihjA 98 3.95e+01 1pdr b.36.1.1 62382 2anuA 255 3.98e+01 1vh7A 265 3.98e+01 c.1.2.1 100646 1lldA 319 3.98e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1e4yA 214 3.99e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1guzA 310 3.99e+01 c.2.1.5,d.162.1.1 65586,65587 1ukz 203 4.01e+01 1zin c.37.1.1 31840 1tfr 305 4.04e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1gvnB 287 4.06e+01 c.37.1.21 76354 1xjcA 169 4.11e+01 2bepA 159 4.13e+01 1dazC 99 4.28e+01 1hvc b.50.1.1 26501 1esc 306 4.36e+01 1esc c.23.10.1 31334 1lba 146 4.39e+01 1lba d.118.1.1 41062 1nh0A 99 4.42e+01 b.50.1.1 91869 1difA 99 4.43e+01 1fmb b.50.1.1 26503 1kinA 366 4.55e+01 1zd8A 227 4.62e+01 1thfD 253 4.70e+01 1thfD c.1.2.1 28535 1e9rA 437 4.71e+01 c.37.1.11 64827 1mzhA 225 4.72e+01 c.1.10.1 79698 1lvk 762 4.79e+01 1lvk b.34.3.1,c.37.1.9 24576,32173 2ffjA 300 4.80e+01 1gtvA 214 4.80e+01 c.37.1.1 70537 1s96A 219 4.87e+01 c.37.1.1 98740 1pda 315 4.88e+01 1pda c.94.1.1,d.50.2.1 35751,38794 2bg1A 494 4.93e+01 1faoA 126 4.96e+01 1faoA b.55.1.1 26974 1d0yA 761 4.98e+01 1lvk b.34.3.1,c.37.1.9 24581,32178 2tpsA 227 5.01e+01 2tpsA c.1.3.1 28591 1oe0A 230 5.10e+01 c.37.1.1 92788 1vyrA 364 5.10e+01 c.1.4.1 108906 1g55A 343 5.15e+01 1g55A c.66.1.26 34247 1fgyA 127 5.17e+01 1faoA b.55.1.1 26976 1ko7A 314 5.20e+01 c.98.2.1,c.91.1.2 72797,72798 1jubA 311 5.23e+01 c.1.4.1 90908 1uqrA 154 5.28e+01 c.23.13.1 99779 2f4qA 346 5.30e+01 2a5vA 213 5.32e+01 1j31A 262 5.32e+01 d.160.1.2 90808 2akaA 776 5.41e+01 1pe1A 267 5.46e+01 c.1.10.4 94591 1ny6A 267 5.48e+01 c.37.1.20 92321 1gtkA 313 5.48e+01 c.94.1.1,d.50.2.1 76346,76347 1vekA 84 5.50e+01 2bm8A 236 5.61e+01 1zm7A 230 5.67e+01 1jjvA 206 5.73e+01 c.37.1.1 71698 1m6kA 251 5.75e+01 e.3.1.1 78695 1xbiA 120 5.79e+01 1kpgA 287 5.79e+01 c.66.1.18 68735 1dorA 311 5.93e+01 2dorA c.1.4.1 28595 1xwl 580 5.94e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 1zcoA 262 5.99e+01 1vhtA 218 6.05e+01 c.37.1.1 100700 1b4fA 82 6.16e+01 1b4fA a.60.1.2 17934 1khtA 192 6.17e+01 c.37.1.1 84401 1sdsA 117 6.22e+01 d.79.3.1 105439 1ag9A 175 6.24e+01 1rcf c.23.5.1 31178 2dorA 311 6.33e+01 2dorA c.1.4.1 28593 1erv 105 6.34e+01 1erv c.47.1.1 32743 1vl1A 232 6.40e+01 c.124.1.1 108707 1wkyA 464 6.46e+01 1xizA 159 6.56e+01 1v8bA 479 6.69e+01 2phlA 397 6.69e+01 1dgwA b.82.1.2,b.82.1.2 28082,28083 1rmwA 212 6.72e+01 1avbA 226 6.74e+01 1led b.29.1.1 24158 1n3bA 216 6.74e+01 c.37.1.1 79959 1w5fA 353 6.77e+01 1z83A 196 6.79e+01 1ldg 316 6.83e+01 1ceqA c.2.1.5,d.162.1.1 30165,42132 1t8xA 267 6.90e+01 1nk4A 580 6.92e+01 c.55.3.5,e.8.1.1 91923,91924 1xccA 220 6.92e+01 1ju3A 583 6.99e+01 b.18.1.13,c.69.1.21 67300,67301 1b1cA 181 7.05e+01 1amoA c.23.5.2 31212 1h61A 364 7.23e+01 1oyc c.1.4.1 60657 1x6oA 174 7.24e+01 b.34.5.2,b.40.4.5 109493,109494 1w9iA 770 7.27e+01 1gw5S 142 7.29e+01 d.110.4.2 70633 2carA 196 7.29e+01 1l1sA 113 7.31e+01 c.114.1.1 73484 1igs 248 7.32e+01 1a53 c.1.2.4 28565 1dqsA 393 7.35e+01 1dqsA e.22.1.1 43347 2gvkA 317 7.38e+01 1gp1A 198 7.61e+01 1gp1A c.47.1.10 33059 1okjA 251 7.76e+01 c.55.1.9,c.55.1.9 103998,103999 2b82A 211 7.78e+01 1dysA 348 7.80e+01 1bvwA c.6.1.1 30669 1rm4A 337 7.84e+01 c.2.1.3,d.81.1.1 105000,105001 1jcxA 267 7.84e+01 c.1.10.4 66510 1sg6A 393 7.85e+01 e.22.1.1 105522 2g8lA 299 7.87e+01 1xbtA 193 7.96e+01 1wjgA 137 8.00e+01 1mup 166 8.19e+01 1mup b.60.1.1 27133 1f0jA 377 8.20e+01 1f0jA a.211.1.2 19346 1tw7A 99 8.32e+01 1vrbA 342 8.32e+01 1y13A 181 8.33e+01 1wekA 217 8.38e+01 1d3vA 323 8.43e+01 1d3vA c.42.1.1 32559 1j5sA 463 8.47e+01 c.1.9.8 71580 1kdoA 227 8.52e+01 c.37.1.1 68478 1zhaA 267 8.52e+01 1aiu 105 8.56e+01 1erv c.47.1.1 32746 1zrn 232 8.66e+01 1qq5A c.108.1.1 43323 1a53 247 8.69e+01 1a53 c.1.2.4 28564 1w4rA 195 8.74e+01 1oe9A 795 8.89e+01 b.34.3.1,c.37.1.9 92792,92793 1yzfA 195 8.89e+01 2f8aA 208 8.90e+01 1ej0A 180 8.93e+01 1ej0A c.66.1.2 34179