# 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 1qo2A 241 5.20e-03 1qo2A c.1.2.1 28533 1k1xA 659 2.12e-02 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1ii7A 333 4.72e-02 1ii7A d.159.1.4 62415 1frb 315 6.26e-02 1frb c.1.7.1 28665 1geqA 248 6.68e-02 2tysA c.1.2.4 28589 1qopA 268 7.51e-02 2tysA c.1.2.4 28570 1vjrA 271 8.79e-02 1qwgA 251 1.08e-01 1g2qA 187 1.67e-01 c.61.1.1 65117 2tysA 268 1.91e-01 2tysA c.1.2.4 28572 1neyA 247 2.47e-01 c.1.1.1 80449 1o60A 292 2.52e-01 1mi3A 322 2.61e-01 1j8mF 297 2.79e-01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1km4A 247 2.81e-01 c.1.2.3 72740 1i60A 278 2.82e-01 c.1.15.4 71118 1qnrA 344 2.88e-01 1qnoA c.1.8.3 28834 1i45A 248 2.98e-01 1amk c.1.1.1 61665 1edg 380 3.62e-01 1edg c.1.8.3 28807 1j8yF 297 3.86e-01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1ad4A 266 4.56e-01 1aj2 c.1.21.1 29670 1tph1 247 4.77e-01 1amk 1vjzA 341 5.52e-01 1r89A 437 5.88e-01 1ujpA 271 6.13e-01 1dvjA 246 6.45e-01 1dvjA c.1.2.3 28546 1gs5A 258 7.28e-01 c.73.1.2 70395 1ho1A 242 8.26e-01 1ho1A c.1.24.1 61097 1m5wA 243 8.35e-01 c.1.24.1 84836 1e0cA 271 8.84e-01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1lyxA 248 8.84e-01 c.1.1.1 78304 1rpxA 230 9.01e-01 1rpxA c.1.2.2 28536 1zpdA 568 9.07e-01 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1n7kA 234 9.22e-01 c.1.10.1 85374 1us0A 316 1.03e+00 1mo0A 275 1.04e+00 c.1.1.1 79329 1j96A 323 1.07e+00 c.1.7.1 71616 1o5xA 248 1.08e+00 1pwmA 316 1.08e+00 1oltA 457 1.16e+00 1ur3M 319 1.20e+00 1su4A 994 1.22e+00 1m6jA 261 1.23e+00 c.1.1.1 78693 1ls1A 295 1.31e+00 a.24.13.1 78170 c.37.1.10 78171 1qg8A 255 1.49e+00 1qg8A c.68.1.1 34505 1khbA 625 1.56e+00 c.91.1.1 68606 c.109.1.1 68607 1r2rA 248 1.62e+00 1ads 315 1.66e+00 1frb c.1.7.1 28671 1fmcA 255 1.66e+00 1cydA c.2.1.2 29856 1ad1A 266 1.77e+00 1aj2 c.1.21.1 29668 1vkfA 188 2.21e+00 1vh7A 265 2.22e+00 2ng1 293 2.24e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1thfD 253 2.29e+00 1thfD c.1.2.1 28535 1f89A 291 2.32e+00 d.160.1.1 64988 1a05A 358 2.42e+00 1cnzA c.77.1.1 35059 1uteA 313 2.48e+00 1uteA d.159.1.1 42078 1jy1A 464 2.58e+00 d.136.1.3 67438 d.136.1.3 67439 1jeoA 180 2.62e+00 c.80.1.3 66611 1pvdA 537 2.68e+00 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1tpfA 250 2.76e+00 1amk c.1.1.1 28467 1aq0A 306 2.80e+00 1aq0A c.1.8.3 28842 1rj9A 304 2.86e+00 1ru8A 232 2.89e+00 1eulA 994 3.13e+00 1eulA b.82.7.1 75829 c.108.1.7 75830 d.220.1.1 75831 f.33.1.1 75832 1kv5A 250 3.43e+00 c.1.1.1 73052 1bfd 528 3.66e+00 1bfd c.31.1.3 31745 c.36.1.5 31801 c.36.1.9 31802 1n0wA 243 3.72e+00 c.37.1.11 79772 1jyrA 96 3.96e+00 d.93.1.1 71969 1nu5A 370 4.04e+00 1h7eA 245 4.12e+00 c.68.1.13 60717 1knwA 425 4.22e+00 1zfpE 98 4.45e+00 1griA d.93.1.1 40465 1pea 385 4.46e+00 1pea c.93.1.1 35662 1n55A 251 4.47e+00 c.1.1.1 80007 2ptd 298 4.66e+00 2plc c.1.18.2 29605 1pwxA 254 4.72e+00 1qcwA 410 4.73e+00 1gox c.1.4.1 28622 1b8oA 284 4.90e+00 1b8oA c.56.2.1 33762 1pz1A 333 5.43e+00 1pymA 295 5.46e+00 1pymA c.1.12.7 29308 1a4iA 301 5.48e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1g3qA 237 5.58e+00 1hyqA c.37.1.10 60237 1un8A 552 5.60e+00 1amy 403 6.10e+00 1jdc b.71.1.1 27799 c.1.8.1 28786 1e0tA 470 6.19e+00 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1fnnA 389 6.19e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1vhnA 318 6.66e+00 1l9vA 317 6.74e+00 d.13.2.1 73760 d.216.1.1 73761 1qvbA 481 6.79e+00 1qvbA c.1.8.4 28983 1s1pA 331 7.02e+00 1amk 251 7.05e+00 1amk c.1.1.1 28503 1pb1A 416 7.07e+00 c.77.1.1 88014 1bvyF 191 7.07e+00 1bvyF c.23.5.1 31207 1avaA 403 7.17e+00 1jdc b.71.1.1 27797 c.1.8.1 28784 1kbjA 412 7.27e+00 c.1.4.1 72280 1ou0A 207 7.35e+00 1mumA 295 7.40e+00 c.1.12.7 85108 1iso 416 7.49e+00 1iso c.77.1.1 35065 1qtwA 285 7.61e+00 1qumA c.1.15.1 29392 1c9kA 180 7.68e+00 1c9kB c.37.1.11 32363 1oe1A 336 7.68e+00 b.6.1.3 86891 b.6.1.3 86892 1j31A 262 7.98e+00 1qv9A 283 8.02e+00 1kqzA 273 8.15e+00 c.1.8.5 68844 1cnv 299 8.21e+00 1cnv c.1.8.5 28989 1dyoA 160 8.31e+00 1dyoA b.18.1.7 23771 1qgoA 264 8.41e+00 1qgoA c.92.1.2 35596 1j9qA 341 8.41e+00 1nif b.6.1.3 62765 b.6.1.3 62766 1k8kA 418 8.47e+00 c.55.1.1 68305 c.55.1.1 68306 1q7zA 566 8.59e+00 1uhvA 500 8.93e+00 1jpmA 366 8.97e+00 c.1.11.2 67031 d.54.1.1 67032 1hw6A 278 9.05e+00 1frb c.1.7.1 61296 2hvm 273 9.11e+00 1cnv c.1.8.5 28985 1b93A 152 9.66e+00 1b93A c.24.1.2 31507 1o5kA 306 9.78e+00 2cmd 312 9.86e+00 2cmd c.2.1.5 30135 d.162.1.1 42102 1mldA 314 9.90e+00 2cmd c.2.1.5 30122 d.162.1.1 42089 1odfA 290 1.05e+01 1esc 306 1.06e+01 1esc c.23.10.1 31334 1ny6A 267 1.06e+01 1ceo 343 1.10e+01 1ceo c.1.8.3 28808 1ht6A 405 1.11e+01 b.71.1.1 83629 c.1.8.1 83630 2tpsA 227 1.16e+01 2tpsA c.1.3.1 28591 1igs 248 1.16e+01 1a53 c.1.2.4 28565 1vimA 200 1.18e+01 1gklA 297 1.18e+01 c.69.1.2 65250 1a3c 181 1.21e+01 1a3c c.61.1.1 34095 1kq3A 376 1.22e+01 e.22.1.2 68790 1jx2B 315 1.29e+01 c.37.1.8 67404 1vizA 240 1.32e+01 1o58A 303 1.37e+01 1ohlA 342 1.37e+01 c.1.10.3 87035 1q7bA 244 1.39e+01 1c7qA 445 1.40e+01 2pgi c.80.1.2 35307 1hqsA 423 1.40e+01 1iso c.77.1.1 61154 1g0cA 364 1.41e+01 7a3hA c.1.8.3 60165 1fts 295 1.42e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1ayaA 101 1.47e+01 1qadA d.93.1.1 40460 1pbtA 244 1.49e+01 1gcoA 261 1.49e+01 1ybvA c.2.1.2 29884 4mbp 370 1.49e+01 4mbp c.94.1.1 35777 1a53 247 1.51e+01 1a53 c.1.2.4 28564 1gg3A 279 1.55e+01 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615 1geeA 261 1.59e+01 1ewkA 490 1.61e+01 1ewkA c.93.1.1 35712 1j6oA 268 1.63e+01 c.1.9.12 77088 1f74A 293 1.71e+01 1nal3 c.1.10.1 29079 1jae 471 1.73e+01 1smd b.71.1.1 27773 c.1.8.1 28760 1iyxA 432 1.76e+01 c.1.11.1 83815 d.54.1.1 83816 1ua4A 455 1.77e+01 1ro2A 216 1.77e+01 1t2dA 322 1.81e+01 1hd2A 161 1.81e+01 c.47.1.10 60962 1qr6A 584 1.84e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1mj5A 302 1.86e+01 1scfA 273 1.97e+01 1exzA a.26.1.2 16873 1mkyA 439 1.97e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1anf 370 1.97e+01 4mbp c.94.1.1 35776 1st9A 143 2.01e+01 1atiA 505 2.04e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 1g60A 260 2.07e+01 c.66.1.11 70151 1e4mM 501 2.08e+01 1e70M c.1.8.4 59226 1jbkA 195 2.16e+01 c.37.1.20 71631 2plc 274 2.19e+01 2plc c.1.18.2 29614 1pk5A 248 2.22e+01 a.123.1.1 88139 1mkp 144 2.24e+01 1vhrA c.45.1.1 32654 1ro0A 216 2.25e+01 1v7zA 260 2.26e+01 1s2wA 295 2.30e+01 1ns5A 155 2.32e+01 c.116.1.3 80705 1bqcA 302 2.33e+01 1bqcA c.1.8.3 28831 1eqcA 394 2.35e+01 1cz1A c.1.8.3 28811 1lwjA 441 2.42e+01 b.71.1.1 74303 c.1.8.1 74304 2myr 501 2.47e+01 1m3sA 186 2.47e+01 c.80.1.3 78573 1i37A 260 2.51e+01 1a28A a.123.1.1 61583 1sviA 195 2.53e+01 1nal1 297 2.61e+01 1nal3 1a8y 367 2.66e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1h7nA 342 2.67e+01 1b4kA c.1.10.3 60726 1gvfA 286 2.67e+01 c.1.10.2 70599 1eudA 311 2.73e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1ogdA 131 2.73e+01 1ihcA 188 2.78e+01 1di6A c.57.1.1 62379 1nriA 306 2.80e+01 c.80.1.3 86123 1o0sA 605 2.81e+01 c.2.1.7 86540 c.58.1.3 86541 1rvkA 382 2.82e+01 1jx6A 342 2.99e+01 c.93.1.1 67406 1jmkC 230 2.99e+01 c.69.1.22 71747 1pyfA 312 3.00e+01 1k7hA 476 3.01e+01 c.76.1.1 72101 1t7pA 698 3.01e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1g9zA 152 3.02e+01 1bp7A d.95.2.1 60408 1vc4A 254 3.08e+01 1jljA 189 3.15e+01 c.57.1.1 63169 1me8A 503 3.16e+01 c.1.5.1 79028 1vhcA 224 3.18e+01 1uumA 372 3.18e+01 1j79A 347 3.20e+01 1j79A c.1.9.4 62675 1dbqA 289 3.23e+01 1qpzA c.93.1.1 35666 1ew2A 513 3.27e+01 1b8jA c.76.1.1 59525 1cr1A 296 3.27e+01 1cr1A c.37.1.11 32286 1n8nA 212 3.29e+01 1e6wA 260 3.32e+01 1e6wA c.2.1.2 59326 1o2dA 371 3.34e+01 e.22.1.2 86591 1aj2 282 3.53e+01 1aj2 c.1.21.1 29665 1n3kA 130 3.54e+01 a.77.1.4 79965 451c 82 3.54e+01 451c a.3.1.1 15904 1ayl 541 3.54e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 351c 82 3.59e+01 451c a.3.1.1 15905 1mucA 373 3.60e+01 1mucA c.1.11.2 29236 d.54.1.1 38880 1uc2A 481 3.60e+01 1qddA 144 3.61e+01 1qddA d.169.1.1 42324 1gqnA 252 3.61e+01 1m3uA 264 3.61e+01 c.1.12.8 84784 1dqpA 230 3.77e+01 1dqnA c.61.1.1 34069 1fyeA 229 3.87e+01 1fyeA c.23.16.4 31477 2aaa 484 3.89e+01 7taa b.71.1.1 27777 c.1.8.1 28764 1m4jA 142 3.90e+01 d.109.1.2 78602 1hdr 244 3.91e+01 1dhr c.2.1.2 29837 1ji1A 637 3.93e+01 b.1.18.2 71666 b.71.1.1 71667 c.1.8.1 71668 1gky 187 3.93e+01 1gky c.37.1.1 31839 1kcbA 340 3.96e+01 1din 236 3.96e+01 1din c.69.1.9 34682 2dri 271 3.97e+01 2dri c.93.1.1 35637 3xis 387 3.98e+01 4xis c.1.15.3 29423 1c25 161 3.99e+01 1c25 c.46.1.1 32698