# List of top-scoring protein chains for t2k-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 1h5rA 293 5.06e-42 c.68.1.6 65623 1mp4A 292 6.09e-41 c.68.1.6 79376 1g0rA 293 9.46e-41 1g0rA c.68.1.6 34532 1fxoA 293 1.67e-40 1g0rA c.68.1.6 34524 1mc3A 296 2.93e-40 c.68.1.6 78943 1lvwA 295 3.48e-40 c.68.1.6 84723 1g97A 459 3.35e-31 1fwyA b.81.1.4 60394 c.68.1.5 60395 1hm9A 468 3.47e-31 b.81.1.4 65866 c.68.1.5 65867 1hv9A 456 2.61e-30 1fwyA b.81.1.4 28060 c.68.1.5 34518 1fxjA 331 2.81e-30 1fwyA b.81.1.4 28062 c.68.1.5 34520 1fwyA 331 4.09e-30 1fwyA b.81.1.4 28064 c.68.1.5 34522 1jykA 254 1.22e-25 c.68.1.13 67458 1h7eA 245 1.59e-16 c.68.1.13 60717 1vicA 262 5.61e-16 c.68.1.13 -8252 1i52A 236 8.21e-15 1i52A c.68.1.13 61767 1e5kA 201 1.46e-09 1fr9A c.68.1.8 34578 1fr9A 194 1.41e-08 1fr9A c.68.1.8 34579 1eyrA 228 2.10e-07 1eyrA c.68.1.13 34514 1eziA 228 5.58e-07 1eyrA c.68.1.13 34512 1vgwA 231 5.32e-06 c.68.1.13 -8237 1jv1A 505 9.49e-06 c.68.1.5 71892 1v84A 253 4.25e-04 1g9rA 311 2.69e-02 1ga8A c.68.1.4 34517 1ga8A 311 4.49e-02 1ga8A c.68.1.4 34516 1oxsC 353 5.67e-02 b.40.6.3 87519 c.37.1.12 87520 1omzA 293 8.35e-02 c.68.1.15 87093 1c7nA 399 1.69e-01 1d2fA c.67.1.3 34413 1oxxK 353 2.85e-01 b.40.6.3 -3969 c.37.1.12 -7187 1jx6A 342 3.41e-01 c.93.1.1 67406 1j0aA 325 3.63e-01 c.79.1.1 83871 1gg1A 350 4.48e-01 1qr7A c.1.10.4 29187 1gxlA 213 5.11e-01 d.215.1.1 70713 1sjdA 368 6.65e-01 1qr7A 350 8.53e-01 1qr7A c.1.10.4 29191 1g7eA 122 8.75e-01 1g7eA c.47.1.7 33055 1fl2A 310 8.99e-01 1hyuA c.3.1.5 59869 c.3.1.5 59870 7a3hA 303 1.02e+00 7a3hA c.1.8.3 28817 1h5vA 304 1.09e+00 c.1.8.3 70898 1n8fA 350 1.10e+00 c.1.10.4 85397 1ii7A 333 1.14e+00 1ii7A d.159.1.4 62415 1a3h 300 1.21e+00 7a3hA c.1.8.3 28819 2admA 421 1.29e+00 2admA c.66.1.27 34238 1vhnA 318 1.36e+00 c.1.4.1 -5209 1tfr 305 1.69e+00 1tfr a.60.7.1 18081 c.120.1.2 33351 1q1gA 276 1.73e+00 c.56.2.1 -7846 1n3yA 198 1.95e+00 c.62.1.1 79976 1i6kA 328 2.12e+00 c.26.1.1 66040 1i6lA 328 2.29e+00 c.26.1.1 66041 1l7vC 249 2.35e+00 c.37.1.12 73674 3minB 522 2.49e+00 1qguB c.92.2.3 35606 1km4A 247 2.50e+00 c.1.2.3 72740 1dbqA 289 2.51e+00 1qpzA c.93.1.1 35666 1aqjA 421 2.61e+00 2admA c.66.1.27 34242 1e0cA 271 2.89e+00 1e0cA c.46.1.2 32717 c.46.1.2 32718 1p2fA 220 2.89e+00 a.4.6.1 87720 c.23.1.1 87721 1mf7A 194 3.27e+00 c.62.1.1 84937 1k77A 260 3.29e+00 c.1.15.5 72096 1k28D 391 3.35e+00 b.106.1.1 68052 b.106.1.1 68053 2minB 522 3.43e+00 1qguB c.92.2.3 35610 1g38A 393 3.53e+00 2admA c.66.1.27 60235 1rxwA 336 3.78e+00 a.60.7.1 -1041 c.120.1.2 -6680 1rvkA 382 3.80e+00 c.1.11.2 -5568 d.54.1.1 -9826 1ibsA 317 4.10e+00 c.61.1.2 66107 c.61.1.2 66108 1jlm 192 4.30e+00 1ido c.62.1.1 34140 1s1pA 331 4.47e+00 c.1.7.1 -5240 1m1nB 522 4.71e+00 c.92.2.3 78418 1jx2B 315 4.85e+00 c.37.1.8 67404 1jwyB 315 4.92e+00 c.37.1.8 67401 1al0G 175 5.01e+00 2bpa2 b.121.5.1 23275 1kh5A 449 5.71e+00 c.76.1.1 72475 1dkrA 317 5.74e+00 1dkuA c.61.1.2 34114 c.61.1.2 34115 1l2tA 235 5.82e+00 c.37.1.12 73514 1dvjA 246 5.84e+00 1dvjA c.1.2.3 28546 1dvjC 246 5.85e+00 1dvjA c.1.2.3 28548 1d2rB 326 6.07e+00 1d2rB c.26.1.1 31573 1lqtA 456 6.16e+00 c.3.1.1 74198 c.4.1.1 74199 2bpa2 175 6.41e+00 2bpa2 1kgsA 225 6.41e+00 a.4.6.1 68596 c.23.1.1 68597 1o1zA 234 6.92e+00 c.1.18.3 86555 1pujA 282 6.96e+00 c.37.1.8 88294 1qfjA 232 7.42e+00 1qfjA b.43.4.2 25655 c.25.1.1 31545 1qg8A 255 7.50e+00 1qg8A c.68.1.1 34505 1k7hA 476 7.54e+00 c.76.1.1 72101 1d9uA 154 7.81e+00 1am7A d.2.1.4 59111 1qy5A 269 7.87e+00 d.122.1.1 -10958 1nqkA 381 7.93e+00 c.1.16.4 -5607 1h3qA 140 7.97e+00 d.110.4.3 76652 1sspE 223 8.24e+00 3eugA c.18.1.1 31009 1fmcA 255 8.50e+00 1cydA c.2.1.2 29856 1q3kA 259 8.87e+00 unknown_sccs -6335 1dkuA 317 9.50e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1d2rA 326 9.51e+00 1d2rB c.26.1.1 31572 2anhA 446 9.79e+00 1b8jA c.76.1.1 35004 1b8jA 449 9.84e+00 1b8jA c.76.1.1 34992 1pymA 295 9.88e+00 1pymA c.1.12.7 29308 1cr6B 554 1.07e+01 1cr6B c.108.1.2 43338 c.69.1.11 34688 1v4vA 376 1.10e+01 c.87.1.3 -8583 1fggA 261 1.16e+01 1fggA c.68.1.7 34576 1v93A 296 1.16e+01 c.1.23.1 -5654 1aoxA 203 1.19e+01 1aoxA c.62.1.1 34151 1iyxA 432 1.20e+01 c.1.11.1 83815 d.54.1.1 83816 1s2wA 295 1.22e+01 c.1.12.7 -5577 1qfeA 252 1.27e+01 1qfeA c.1.10.1 29167 1luaA 287 1.30e+01 c.2.1.7 78216 c.58.1.4 78217 1vhoA 346 1.31e+01 unknown_sccs -4283 c.56.5.4 -7893 1fxmA 302 1.32e+01 1taxA 1ed8A 449 1.39e+01 1b8jA c.76.1.1 34988 1gokA 303 1.39e+01 c.1.8.3 65420 1gxjA 186 1.43e+01 d.215.1.1 70707 1gqnA 252 1.44e+01 c.1.10.1 -5494 1hyuA 521 1.44e+01 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1k6aA 303 1.44e+01 c.1.8.3 72081 1akz 223 1.44e+01 3eugA c.18.1.1 31007 1alkA 449 1.44e+01 1b8jA c.76.1.1 34994 1pz1A 333 1.46e+01 c.1.7.1 -5255 1ht6A 405 1.48e+01 b.71.1.1 83629 c.1.8.1 83630 1jj7A 260 1.49e+01 c.37.1.12 63114 1of8A 370 1.50e+01 c.1.10.4 -5508 1gajA 257 1.51e+01 1gajA c.37.1.12 60416 1arzC 273 1.53e+01 1drw c.2.1.3 30061 d.81.1.3 39976 1d7uA 433 1.54e+01 2dkb c.67.1.4 34439 2vhbA 146 1.54e+01 2vhbA a.1.1.2 15629 1eluB 390 1.59e+01 1elqA c.67.1.3 34435 1p3dA 475 1.60e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1nkxA 348 1.62e+01 c.94.1.2 -8704 1r3sA 367 1.66e+01 c.1.22.1 -5648 1d4oA 184 1.67e+01 1d4oA c.31.1.4 31748 1qxhA 167 1.75e+01 c.47.1.10 -7496 1e8cA 498 1.75e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1eluA 390 1.77e+01 1elqA c.67.1.3 34434 1ido 192 1.79e+01 1ido c.62.1.1 34139 1oacA 727 1.81e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1hdhA 536 1.83e+01 c.76.1.2 65805 1kwsA 261 1.84e+01 c.68.1.7 73083 1ep3B 262 1.90e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1vhsA 175 1.90e+01 d.108.1.1 -10794 1riqA 465 1.91e+01 unknown_sccs -1295 d.104.1.1 -10769 1d6zA 727 1.91e+01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1l9wA 252 1.91e+01 c.1.10.1 84570 1gegA 256 1.95e+01 1ybvA c.2.1.2 29888 1atzA 189 2.01e+01 1atzA c.62.1.1 34132 1a04A 215 2.04e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1gqyA 475 2.04e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1kcxA 518 2.05e+01 b.92.1.3 -5074 c.1.9.6 -5426 1uwsA 489 2.07e+01 1pt6A 213 2.12e+01 c.62.1.1 -7975 1elyA 449 2.17e+01 1b8jA c.76.1.1 35028 1spuB 727 2.17e+01 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1qc5A 192 2.23e+01 1aoxA c.62.1.1 34147 1elqA 390 2.28e+01 1elqA c.67.1.3 34436 1ll0A 339 2.30e+01 c.68.1.14 73995 1keaA 221 2.30e+01 a.96.1.2 68491 1qfcA 306 2.31e+01 1uteA d.159.1.1 42077 1b8aA 438 2.34e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1cvjB 190 2.44e+01 1cvjB d.58.7.1 39193 d.58.7.1 39194 1nw8A 319 2.46e+01 c.66.1.11 86292 1bif 469 2.51e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1kyoA 430 2.52e+01 d.185.1.1 73249 d.185.1.1 73250 1lc0A 294 2.53e+01 c.2.1.3 73823 d.81.1.4 73824 1obbA 480 2.55e+01 c.2.1.5 86760 d.162.1.2 86761 1i1wA 303 2.60e+01 c.1.8.3 76732 2fhi 147 2.60e+01 1fit d.13.1.1 37505 1k7jA 206 2.63e+01 d.115.1.1 72103 1cby 259 2.65e+01 1cby d.103.1.1 40705 1g5bA 221 2.65e+01 1g5bA d.159.1.3 60261 1hfbA 370 2.65e+01 c.1.10.4 76706 1iv3A 152 2.68e+01 d.79.5.1 76828 1uroA 367 2.69e+01 1uroA c.1.22.1 29675 2dkb 433 2.70e+01 2dkb c.67.1.4 34438 1kk9A 221 2.72e+01 d.115.1.1 77432 1pfkA 320 2.77e+01 3pfk c.89.1.1 35575 1o97D 320 2.77e+01 c.26.2.3 81233 c.31.1.2 81234 1jchC 551 2.79e+01 b.101.1.1 66495 b.110.1.1 66496 h.4.9.1 66497 3bifA 468 2.83e+01 1bif c.37.1.7 31962 c.60.1.4 34008 1ek1A 554 2.88e+01 1cr6B c.108.1.2 43335 c.69.1.11 34685 1eg2A 319 2.97e+01 1eg2A c.66.1.11 34249 1g6hA 257 2.99e+01 1gajA c.37.1.12 60318 1uteA 313 3.02e+01 1uteA d.159.1.1 42078 1e0zA 128 3.02e+01 1awd d.15.4.1 59153 1jchA 551 3.02e+01 b.101.1.1 66491 b.110.1.1 66492 h.4.9.1 66493 1d1qA 161 3.05e+01 1dg9A c.44.1.1 32642 1drw 273 3.05e+01 1drw c.2.1.3 30057 d.81.1.3 39972 1mumA 295 3.06e+01 c.1.12.7 85108 1am7A 158 3.07e+01 1am7A d.2.1.4 36981 1f20A 435 3.07e+01 b.43.4.1 64932 c.25.1.4 64933 1j6uA 469 3.12e+01 c.5.1.1 77094 c.59.1.1 77095 c.72.2.1 77096 1jbwA 428 3.16e+01 c.59.1.2 62860 c.72.2.2 62861 2gsaA 432 3.26e+01 2gsaA c.67.1.4 34446 1i58A 189 3.27e+01 1b3qA d.122.1.3 61773 1cqzA 554 3.27e+01 1cr6B c.108.1.2 43339 c.69.1.11 34689 1b3qA 379 3.29e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1aj0 282 3.33e+01 1aj2 c.1.21.1 29667 1om4A 422 3.35e+01 d.174.1.1 87067 1f5jA 199 3.41e+01 1axkA b.29.1.11 24342 1o5kA 306 3.44e+01 c.1.10.1 -5482 1dbiA 280 3.50e+01 1gci c.41.1.1 32543 1opr 213 3.58e+01 1opr c.61.1.1 34091 1srrA 124 3.61e+01 1dz3A c.23.1.1 31110 1egzA 291 3.66e+01 7a3hA c.1.8.3 28828 2vhbB 146 3.67e+01 2vhbA a.1.1.2 15630 1jvnA 555 3.68e+01 c.1.2.1 67355 c.23.16.1 67356 2bifA 469 3.70e+01 1bif c.37.1.7 31963 c.60.1.4 34009 1m0qA 433 3.75e+01 c.67.1.4 78350 1ayaA 101 3.79e+01 1qadA d.93.1.1 40460 1d4fA 431 3.79e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1i2mA 216 3.83e+01 1byuA c.37.1.8 61568 1qh3A 260 3.85e+01 1qh5A d.157.1.2 42059 1q0uA 219 3.94e+01 c.37.1.19 -7205 1fit 147 3.98e+01 1fit d.13.1.1 37499 1fts 295 3.98e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1k8eA 345 4.00e+01 1o17A 345 4.00e+01 a.46.2.1 80765 c.27.1.1 80766