# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1bouB 302 7.41e-02 1bouB c.56.6.1 33859 1rlr 761 2.00e-01 1rlr a.98.1.1 18753 c.7.1.2 30679 1xxbA 78 5.25e-01 1xxaA d.74.2.1 39706 1jeoA 180 7.04e-01 c.80.1.3 66611 1xxaA 78 8.33e-01 1xxaA d.74.2.1 39700 1chuA 540 1.12e+00 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1jilA 420 1.22e+00 c.26.1.1 66745 1kl7A 514 1.24e+00 1httA 423 1.43e+00 1adjA c.51.1.1 33178 d.104.1.1 40727 1c7qA 445 1.57e+00 2pgi c.80.1.2 35307 1lqtA 456 1.79e+00 2pgi 445 1.82e+00 2pgi c.80.1.2 35308 1pdo 135 1.84e+00 1pdo c.54.1.1 33376 1fohA 664 2.28e+00 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1kzhA 555 2.31e+00 1hkcA 917 2.61e+00 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1jgtA 513 2.68e+00 c.26.2.1 66684 d.153.1.1 66685 1dgkN 917 2.77e+00 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1hkbA 917 2.82e+00 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1l3lA 234 3.19e+00 1h8eD 482 3.39e+00 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1l9fA 389 3.40e+00 1dn1A 594 3.46e+00 1dn1A e.25.1.1 43357 1fvaA 217 3.57e+00 1fvaA d.58.28.1 39409 1jqeA 292 3.59e+00 1exnA 290 3.76e+00 1exnA a.60.7.1 18088 c.53.1.2 33358 1czaN 917 3.93e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1bd3A 243 3.97e+00 1bd3A c.61.1.1 34098 9ldtA 332 4.28e+00 3ldh c.2.1.5 30154 d.162.1.1 42121 1inlA 296 4.28e+00 c.66.1.17 66220 1el5A 389 4.31e+00 1b3mA c.3.1.2 30369 d.16.1.3 37937 1qhaA 917 4.31e+00 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1fvgA 199 4.46e+00 1fvaA d.58.28.1 39408 1fg7A 356 4.47e+00 1gewA c.67.1.1 59819 1kmmA 424 4.57e+00 1adjA c.51.1.1 33174 d.104.1.1 40723 1lk5A 229 4.72e+00 1j97A 211 4.84e+00 1f5sA c.108.1.4 62753 1f5sA 211 4.98e+00 1f5sA c.108.1.4 59656 1jq3A 296 5.13e+00 c.66.1.17 67079 1i50K 120 5.20e+00 d.74.3.2 61765 1exnB 290 5.23e+00 1exnA a.60.7.1 18089 c.53.1.2 33359 1pprM 312 5.60e+00 1pprM a.131.1.1 19502 a.131.1.1 19503 1l7mA 211 5.70e+00 1dosA 358 5.72e+00 1dosA c.1.10.2 29175 1qe3A 489 5.90e+00 2bce c.69.1.1 34630 1dixA 208 6.19e+00 1bk7A d.124.1.1 41122 1g6q2 328 6.26e+00 1g6q2 1kyqA 274 7.01e+00 1mroB 442 7.07e+00 1mroB a.89.1.1 18531 d.58.31.2 39449 4gr1 478 7.25e+00 3grs c.3.1.5 30461 c.3.1.5 30462 d.87.1.1 40162 3grs 478 7.27e+00 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1gthA 1025 7.45e+00 1fnnA 389 7.51e+00 1fnnA a.4.5.11 16129 c.37.1.13 32426 1fj2A 232 7.58e+00 1auoA c.69.1.14 34720 1h7xC 1025 7.80e+00 a.1.2.2 15689 c.1.4.1 28634 c.3.1.1 30330 c.4.1.1 30615 d.58.1.5 39013 1lgyA 269 7.80e+00 3tgl c.69.1.17 34758 1kq3A 376 7.81e+00 e.22.1.2 68790 1gthD 1025 7.91e+00 1k75A 434 7.93e+00 c.82.1.2 68253 1h7xB 1025 7.96e+00 a.1.2.2 15688 c.1.4.1 28633 c.3.1.1 30329 c.4.1.1 30614 d.58.1.5 39012 1l9mA 692 7.96e+00 1onrA 316 8.01e+00 1onrA c.1.10.1 29169 1gthB 1025 8.01e+00 1h7xD 1025 8.07e+00 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1h7xA 1025 8.24e+00 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1a6f 119 8.50e+00 1a6f d.14.1.2 37564 1wab 232 8.75e+00 1wab c.23.10.3 31341 1fd9A 213 8.86e+00 1fd9A d.26.1.1 59771 1h7wA 1025 8.89e+00 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 1e79D 482 8.95e+00 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1fsfA 266 9.09e+00 c.35.1.1 65047 1es9A 232 9.17e+00 1wab c.23.10.3 31340 1gteA 1025 9.41e+00 1h7wD 1025 9.49e+00 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 1h65A 270 9.83e+00 c.37.1.8 65640 1qhhA 167 9.89e+00 1pjr c.37.1.13 32393 1gteD 1025 9.95e+00 1aa8A 347 1.01e+01 1an9A c.4.1.2 30619 d.16.1.3 37906 1ypcI 64 1.01e+01 2sniI d.40.1.1 38570 1dhpA 292 1.02e+01 1dhpA c.1.10.1 29097 1h7wB 1025 1.04e+01 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1an9A 340 1.09e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1go4A 205 1.09e+01 1ek0A 170 1.11e+01 1ctqA c.37.1.8 32076 1hrdA 449 1.11e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1jq5A 370 1.12e+01 e.22.1.2 67084 1gt8A 1025 1.12e+01 1k89 449 1.18e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1kaeA 434 1.18e+01 1bw9A 356 1.18e+01 1bw9A c.2.1.7 30274 c.58.1.1 33922 1yveI 524 1.20e+01 1qmgA a.100.1.2 18789 c.2.1.6 30186 1qmgA 524 1.20e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1bgvA 449 1.21e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1gt8C 1025 1.21e+01 1gr0A 367 1.23e+01 1fsz 372 1.26e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1gt8B 1025 1.27e+01 1gthC 1025 1.32e+01 1vpt 348 1.34e+01 3mag c.66.1.9 34207 1c1dA 355 1.35e+01 1bw9A c.2.1.7 30270 c.58.1.1 33918 1gewA 356 1.36e+01 1gewA c.67.1.1 60470 1hbnB 442 1.37e+01 1mroB a.89.1.1 60900 d.58.31.2 60901 1b57A 358 1.38e+01 1dosA c.1.10.2 29177 1c8bA 371 1.38e+01 1c8bA c.56.1.2 59082 1khbA 625 1.39e+01 c.91.1.1 68606 c.109.1.1 68607 1cqxA 403 1.40e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1dptA 117 1.42e+01 1dptA d.80.1.3 39862 1jqaA 370 1.42e+01 e.22.1.2 67085 1yveJ 524 1.43e+01 1qmgA a.100.1.2 18790 c.2.1.6 30187 3mag 307 1.48e+01 3mag c.66.1.9 34205 1gpjA 404 1.48e+01 a.151.1.1 65451 c.2.1.10 65452 d.58.39.1 65453 1gt8D 1025 1.50e+01 3ladA 476 1.52e+01 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 6pfkA 319 1.55e+01 3pfk c.89.1.1 35583 1hyuA 521 1.59e+01 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1thg 544 1.60e+01 1thg c.69.1.17 34763 1gtmA 419 1.60e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1ehyA 294 1.60e+01 1ehyA c.69.1.11 34693 1i3cA 149 1.62e+01 1cp2A 269 1.62e+01 1cp2A c.37.1.10 32269 1g9mG 321 1.62e+01 1gc1G d.172.1.1 42492 1ecfA 504 1.65e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1dhr 241 1.70e+01 1dhr c.2.1.2 29832 1taq 832 1.71e+01 1taq a.60.7.1 18082 c.53.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1fs5A 266 1.75e+01 c.35.1.1 65044 1deaA 266 1.77e+01 1deaA c.35.1.1 31760 1bjt 793 1.79e+01 1bjt e.11.1.1 43249 1cjcA 460 1.80e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 1cfyA 143 1.80e+01 1cof d.109.1.2 40858 1aurA 218 1.80e+01 1auoA c.69.1.14 34718 1jjyA 636 1.81e+01 1jjyA e.26.1.2 63141 1fl2A 310 1.83e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 4pfk 319 1.84e+01 3pfk c.89.1.1 35582 1c8uA 285 1.86e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1hdr 244 1.86e+01 1dhr c.2.1.2 29837 1ivyA 452 1.93e+01 1ivyA c.69.1.5 34654 1be3B 439 1.95e+01 1be3B d.185.1.1 58952 d.185.1.1 58953 1coaI 64 1.95e+01 2sniI d.40.1.1 38574 1trb 320 1.97e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1auoA 218 2.00e+01 1auoA c.69.1.14 34716 1ndh 272 2.00e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1gxjA 186 2.01e+01 1bm9A 122 2.04e+01 1bm9A a.4.5.7 16116 1cbf 285 2.09e+01 1cbf c.90.1.1 35587 1f9aA 168 2.11e+01 1f9aA c.26.1.3 31602 1iw2A 182 2.11e+01 1c7nA 399 2.14e+01 1d2fA c.67.1.3 34413 1que 303 2.14e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 4ts1A 319 2.15e+01 2ts1 c.26.1.1 31565 1lf7A 182 2.16e+01 1kezA 300 2.19e+01 c.69.1.22 68546 1e5dA 402 2.22e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1poiB 260 2.22e+01 1poiB c.63.1.1 34155 1ek6A 348 2.29e+01 1xel c.2.1.2 29800 1ecfB 504 2.33e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1d9tA 289 2.43e+01 1deaA c.35.1.1 31767 1i6wA 181 2.48e+01 1i6wA c.69.1.18 61859 1adjA 421 2.52e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 1v39 322 2.53e+01 3mag c.66.1.9 34206 1vp9 322 2.53e+01 3mag c.66.1.9 34210 2sniI 83 2.54e+01 2sniI d.40.1.1 38573 5ldh 334 2.57e+01 3ldh c.2.1.5 30158 d.162.1.1 42125 1cor 82 2.67e+01 451c a.3.1.1 15903 1nulA 152 2.70e+01 1nulA c.61.1.1 34011 1hgxA 183 2.70e+01 1tc1A c.61.1.1 34027 1ebbA 202 2.71e+01 c.60.1.1 64900 1plq 258 2.71e+01 1plq d.131.1.2 41388 d.131.1.2 41389 2scuA 288 2.72e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1scuA 288 2.72e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1hwyA 501 2.79e+01 1hwyA c.2.1.7 30262 c.58.1.1 33910 1d09B 153 2.80e+01 8atcB d.58.2.1 39015 g.41.7.1 45267 3pfk 319 2.82e+01 3pfk c.89.1.1 35581 1f4kA 122 2.88e+01 1bm9A a.4.5.7 59646 1lkzA 219 2.90e+01 1f60A 458 2.94e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1k8rB 110 2.97e+01 1tc1A 220 2.98e+01 1tc1A c.61.1.1 34083 3tgl 269 3.03e+01 3tgl c.69.1.17 34733 1derA 547 3.05e+01 1derA a.129.1.1 19459 c.8.5.1 30788 d.56.1.1 38907 1qpoA 284 3.06e+01 1qpoA c.1.17.1 29561 d.41.2.1 38597 2bvwA 362 3.07e+01 1bvwA c.6.1.1 30666 6ldh 330 3.20e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1j5rA 371 3.22e+01 1hqcA 324 3.26e+01 1hqcA a.4.5.11 16127 c.37.1.13 32424 1f6dA 376 3.26e+01 1f6dA c.87.1.3 35467 1eudA 311 3.30e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1i35A 95 3.31e+01 d.15.1.5 66017 1pjr 724 3.32e+01 1pjr c.37.1.13 32391 c.37.1.13 32392 1eblA 317 3.35e+01 1hn9A c.95.1.1 35973 c.95.1.1 35974 1rypB 250 3.36e+01 1rypB d.153.1.4 41933 1eblB 317 3.38e+01 1hn9A c.95.1.1 35975 c.95.1.1 35976 2ts1 419 3.42e+01 2ts1 c.26.1.1 31564 1hn9A 317 3.42e+01 1hn9A c.95.1.1 35977 c.95.1.1 35978 1k3sA 113 3.42e+01 d.198.1.1 68120 1pedA 351 3.42e+01 1pedA b.35.1.2 24753 c.2.1.1 29769 1fnc 314 3.43e+01 1fnc b.43.4.2 25627 c.25.1.1 31517 1agnA 373 3.44e+01 2ohxA b.35.1.2 24737 c.2.1.1 29753 1gc1G 321 3.46e+01 1gc1G d.172.1.1 42493 1b16A 254 3.56e+01 1b16A c.2.1.2 29875 1eudB 396 3.59e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1d2iA 223 3.60e+01 1d2iA c.52.1.5 33297 1fnd 314 3.61e+01 1fnc b.43.4.2 25626 c.25.1.1 31516 1c0dA 358 3.64e+01 1eceA c.1.8.3 28815 1i7pA 274 3.68e+01 b.43.4.2 66048 c.25.1.1 66049 1gnuA 117 3.68e+01 d.15.1.3 65403 1pszA 303 3.73e+01 1toaA c.92.2.2 35600 1bupA 386 3.74e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1lfpA 249 3.81e+01 1hwxA 501 3.82e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1dl5A 317 3.84e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1ceqA 316 3.85e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1dfmA 223 3.87e+01 1d2iA c.52.1.5 33295 1bjnA 360 3.89e+01 1bjnA c.67.1.4 34469 1smrA 335 3.93e+01 1smrA b.50.1.2 26878 1hnjA 317 3.95e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1lc0A 294 3.95e+01