# List of top-scoring protein chains for t04-100-30-dssp-ehl2 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 1gq6A 313 1.06e-32 c.42.1.1 70341 1d3vA 323 8.11e-30 1d3vA c.42.1.1 32559 1sjdA 368 7.92e-02 1f2dA 341 1.29e-01 1f2dA c.79.1.1 35298 1mjfA 281 1.65e-01 c.66.1.17 79198 2pfkA 320 1.77e-01 3pfk c.89.1.1 35577 1yrgA 385 2.66e-01 1yrgA c.10.1.2 30854 1qgdA 662 2.66e-01 c.36.1.6 88367 c.36.1.10 88368 c.48.1.1 88369 1cnv 299 3.62e-01 1cnv c.1.8.5 28989 4enl 436 4.03e-01 4enl c.1.11.1 29202 d.54.1.1 38846 1oneA 436 4.24e-01 4enl c.1.11.1 29200 d.54.1.1 38844 4pfk 319 4.99e-01 3pfk c.89.1.1 35582 1ceo 343 5.10e-01 1ceo c.1.8.3 28808 1fuiA 591 6.44e-01 1fuiA b.43.2.1 25674 c.85.1.1 35444 1ct9A 553 7.63e-01 1ct9A c.26.2.1 31616 d.153.1.1 41834 1bd0A 388 7.76e-01 1bd0A b.49.2.2 26480 c.1.6.1 28642 1nni1 174 7.81e-01 1un8A 552 8.05e-01 unknown_sccs -1942 c.32.1.2 -6792 d.79.2.2 -10401 1r6wA 322 8.61e-01 c.1.11.2 -5563 d.54.1.1 -9821 1gvfA 286 8.63e-01 c.1.10.2 70599 1ea5A 537 9.57e-01 2bce c.69.1.1 34592 1edt 271 9.68e-01 2ebn c.1.8.5 28993 1qfjA 232 9.71e-01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1gpuA 680 9.88e-01 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1fnnA 389 1.04e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1mwmA 320 1.05e+00 c.55.1.1 79580 c.55.1.1 79581 1sftA 388 1.05e+00 1bd0A b.49.2.2 26482 c.1.6.1 28644 1uslA 170 1.07e+00 c.121.1.1 -6682 1v7zA 260 1.19e+00 unknown_sccs -6353 1h7eA 245 1.24e+00 c.68.1.13 60717 1yasA 257 1.27e+00 1qj4A c.69.1.20 34801 1trkA 680 1.27e+00 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 7a3hA 303 1.48e+00 7a3hA c.1.8.3 28817 1e8cA 498 1.54e+00 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1iyxA 432 1.61e+00 c.1.11.1 83815 d.54.1.1 83816 1cliA 345 1.84e+00 1cliA d.79.4.1 39816 d.139.1.1 41459 1dfoA 417 1.90e+00 1bj4A c.67.1.4 34480 1l4uA 176 1.93e+00 c.37.1.2 73568 1tk9A 188 1.97e+00 1gnxA 479 2.00e+00 c.1.8.4 76241 1mi3A 322 2.04e+00 c.1.7.1 -5257 1nhp 447 2.08e+00 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1khdA 345 2.22e+00 a.46.2.1 77400 c.27.1.1 77401 1qj4A 257 2.23e+00 1qj4A c.69.1.20 34796 1g6oA 330 2.27e+00 1g6oA c.37.1.11 32430 1mh1 186 2.33e+00 1eesA c.37.1.8 32002 1ddgA 374 2.79e+00 1amoA b.43.4.1 25671 c.25.1.4 31559 1gpmA 525 2.81e+00 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1qhxA 178 2.99e+00 1qhsA c.37.1.3 31936 1dik 874 3.00e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1q7zA 566 3.06e+00 c.1.21.2 -5638 c.1.26.1 -5666 1bfd 528 3.20e+00 1bfd c.31.1.3 31745 c.36.1.5 31801 c.36.1.9 31802 1jf8A 131 3.31e+00 c.44.1.1 66621 2ohxA 374 3.58e+00 2ohxA b.35.1.2 24669 c.2.1.1 29685 1vkhA 273 3.61e+00 1fts 295 3.79e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 1eceA 358 3.82e+00 1eceA c.1.8.3 28813 1nriA 306 3.85e+00 c.80.1.3 86123 1hyeA 313 4.17e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1ufoA 238 4.20e+00 unknown_sccs -8303 1nowA 507 4.24e+00 c.1.8.6 85936 d.92.2.1 85937 1gcyA 527 4.26e+00 1jdc b.71.1.1 27788 c.1.8.1 28775 4eugA 229 4.27e+00 3eugA c.18.1.1 31019 1c3pA 375 4.37e+00 1c3pA c.42.1.2 32606 1fkx 349 4.38e+00 1a4mA c.1.9.1 29018 1ktbA 405 4.45e+00 b.71.1.1 72960 c.1.8.1 72961 1fo1A 271 4.46e+00 1fo1A c.10.2.3 30869 d.58.7.2 39213 1hp5A 512 4.60e+00 1hp4A c.1.8.6 61113 d.92.2.1 61114 1jakA 512 4.60e+00 c.1.8.6 66472 d.92.2.1 66473 1lvwA 295 4.61e+00 c.68.1.6 84723 1jdc 429 4.63e+00 1jdc b.71.1.1 27789 c.1.8.1 28776 1jvnA 555 4.66e+00 c.1.2.1 67355 c.23.16.1 67356 1nu5A 370 4.70e+00 c.1.11.2 -5565 d.54.1.1 -9823 1shuX 182 4.81e+00 c.62.1.1 -7982 1h1nA 305 4.85e+00 c.1.8.3 70855 1nhs 447 4.96e+00 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1hetA 374 4.99e+00 2ohxA b.35.1.2 60975 c.2.1.1 60976 1lehA 364 5.02e+00 1bw9A c.2.1.7 30268 c.58.1.1 33916 1ig3A 263 5.07e+00 1ig3A b.82.6.1 62358 c.100.1.1 62359 2dkb 433 5.24e+00 2dkb c.67.1.4 34438 8rucA 475 5.31e+00 1burA c.1.14.1 29339 d.58.9.1 39245 1ayx 492 5.36e+00 1ayx a.102.1.1 18825 1burA 475 5.39e+00 1burA 1upaA 573 5.42e+00 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1dkuA 317 5.49e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1pvdA 537 5.70e+00 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1f0iA 504 5.70e+00 1f0iA d.136.1.2 59566 d.136.1.2 59567 1i7qB 193 5.78e+00 1qdlB c.23.16.1 61902 1g2oA 268 5.96e+00 1b8oA c.56.2.1 60228 1rcqA 357 6.10e+00 1mnaA 298 6.17e+00 c.69.1.22 79322 1d3gA 367 6.18e+00 1d3gA c.1.4.1 28600 1bgvA 449 6.24e+00 1k89 c.2.1.7 30217 c.58.1.1 33865 1nar 290 6.32e+00 1nar c.1.8.5 28988 1scuA 288 6.41e+00 2scuA c.2.1.8 30307 c.23.4.1 31135 1g99A 408 6.47e+00 1g99A c.55.1.2 33457 c.55.1.2 33458 1uumA 372 6.60e+00 c.1.4.1 -5193 1v8gA 329 6.75e+00 a.46.2.1 -953 c.27.1.1 -6644 1krhA 338 6.77e+00 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1qo2A 241 6.78e+00 1qo2A c.1.2.1 28533 1d7uA 433 6.98e+00 2dkb c.67.1.4 34439 1hrdA 449 7.08e+00 1k89 c.2.1.7 30219 c.58.1.1 33867 1jdpA 441 7.16e+00 c.93.1.1 62906 1jx4A 352 7.26e+00 unknown_sccs -10188 unknown_sccs -11898 1a4mA 349 7.49e+00 1a4mA c.1.9.1 29014 1p1jA 533 7.64e+00 c.2.1.3 87687 d.81.1.3 87688 1p0kA 349 7.66e+00 c.1.4.1 87648 1jvbA 347 7.79e+00 b.35.1.2 77181 c.2.1.1 77182 1oi7A 288 7.81e+00 c.2.1.8 87049 c.23.4.1 87050 1vjrA 271 7.89e+00 unknown_sccs -6853 1l8nA 679 7.89e+00 c.1.8.10 84564 d.92.2.2 84565 1m1nA 491 7.89e+00 c.92.2.3 78417 1io0A 185 7.89e+00 c.10.1.1 76753 1ivnA 190 7.98e+00 c.23.10.5 83719 1nw1A 429 8.01e+00 d.144.1.8 86286 1v0wA 506 8.17e+00 1rcuA 195 8.40e+00 unknown_sccs -7279 1jixA 351 8.50e+00 1c3jA c.87.1.1 63081 1i24A 404 8.62e+00 c.2.1.2 83663 1fs5A 266 8.81e+00 unknown_sccs 65044 1n8kA 374 9.03e+00 b.35.1.2 80298 c.2.1.1 80299 1pwhA 327 9.04e+00 c.79.1.1 -8524 1xjo 284 9.16e+00 1xjo c.56.5.4 33843 1eudA 311 9.27e+00 2scuA c.2.1.8 30312 c.23.4.1 31140 1gk8A 475 9.39e+00 c.1.14.1 65234 d.58.9.1 65235 1ii7A 333 9.53e+00 1ii7A d.159.1.4 62415 1ispA 181 1.01e+01 c.69.1.18 76778 1qh8A 478 1.01e+01 1qguA c.92.2.3 35633 1iq6A 134 1.02e+01 d.38.1.4 76755 1f20A 435 1.02e+01 b.43.4.1 64932 c.25.1.4 64933 1t64A 377 1.03e+01 1omoA 322 1.05e+01 1fgs 428 1.06e+01 1fgs c.59.1.2 33959 c.72.2.2 34962 1i6wA 181 1.07e+01 1i6wA c.69.1.18 61859 1k77A 260 1.08e+01 c.1.15.5 72096 1qw9A 502 1.08e+01 b.71.1.2 -4677 c.1.8.3 -5348 1j2rA 199 1.11e+01 unknown_sccs -6799 1vjnA 220 1.13e+01 unknown_sccs -11458 2napA 723 1.15e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1c7qA 445 1.17e+01 2pgi c.80.1.2 35307 1tca 317 1.21e+01 1tca c.69.1.17 34726 1jpmA 366 1.25e+01 c.1.11.2 67031 d.54.1.1 67032 1gveA 327 1.26e+01 c.1.7.1 70597 1a04A 215 1.26e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 2fcr 173 1.27e+01 1rcf c.23.5.1 31151 1rj9A 304 1.31e+01 a.24.13.1 -631 c.37.1.10 -7129 1o17A 345 1.32e+01 a.46.2.1 80765 c.27.1.1 80766 1jl3A 139 1.39e+01 c.44.1.1 66826 1drw 273 1.39e+01 1drw c.2.1.3 30057 d.81.1.3 39972 1mtzA 293 1.39e+01 c.69.1.7 79467 1cozA 129 1.41e+01 1cozA c.26.1.2 31598 1qc7A 101 1.44e+01 1qc7A a.118.14.1 18456 1bg4 302 1.44e+01 1taxA c.1.8.3 28806 1gklA 297 1.45e+01 c.69.1.2 65250 1ofuA 320 1.46e+01 c.32.1.1 86972 d.79.2.1 86973 1qopA 268 1.47e+01 2tysA c.1.2.4 28570 1ccwB 483 1.49e+01 1cb7B c.1.19.2 29646 1gg4A 452 1.54e+01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1sup 275 1.54e+01 1gci c.41.1.1 32510 1im5A 180 1.55e+01 unknown_sccs 66211 1o5zA 442 1.61e+01 c.59.1.2 -7939 c.72.2.2 -8418 1gtmA 419 1.62e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1vknA 351 1.63e+01 1rvgA 305 1.64e+01 c.1.10.2 -5500 1din 236 1.65e+01 1din c.69.1.9 34682 1oaa 259 1.65e+01 1oaa c.2.1.2 29829 1qq9A 284 1.65e+01 1xjo c.56.5.4 33841 1qe3A 489 1.65e+01 2bce c.69.1.1 34630 1a8i 842 1.66e+01 1a8i c.87.1.4 35490 1h5uA 842 1.67e+01 1a8i c.87.1.4 60655 1o7jA 327 1.67e+01 c.88.1.1 81140 1m1zA 513 1.69e+01 c.26.2.1 78457 d.153.1.1 78458 1hu4A 288 1.70e+01 1hu4A 1n5dA 288 1.70e+01 c.2.1.2 80030 1k5nA 276 1.73e+01 b.1.1.2 77266 d.19.1.1 77267 1rljA 139 1.75e+01 1mb3A 124 1.77e+01 c.23.1.1 78907 1wab 232 1.80e+01 1wab c.23.10.3 31341 1nsf 273 1.84e+01 1d2nA c.37.1.20 32429 1nksA 194 1.88e+01 1nksA c.37.1.1 31886 1es9A 232 1.88e+01 1wab c.23.10.3 31340 1oe4A 247 1.99e+01 c.18.1.3 86895 1jkxA 212 2.00e+01 c.65.1.1 66813 1jbwA 428 2.01e+01 c.59.1.2 62860 c.72.2.2 62861 1lqaA 346 2.07e+01 c.1.7.1 84674 1h7nA 342 2.08e+01 1b4kA c.1.10.3 60726 1ohlA 342 2.08e+01 c.1.10.3 87035 1ep3A 311 2.10e+01 2dorA c.1.4.1 28597 1p42A 270 2.10e+01 d.14.1.7 87754 d.14.1.7 87755 1gt91 357 2.11e+01 1tmy 120 2.13e+01 1dbwA c.23.1.1 31083 1jbkA 195 2.14e+01 c.37.1.20 71631 1vkfA 188 2.15e+01 1kewA 361 2.15e+01 c.2.1.2 68544 1ur3M 319 2.16e+01 c.1.7.1 -5248 1lqtA 456 2.16e+01 c.3.1.1 74198 c.4.1.1 74199 1ac5 483 2.18e+01 1ac5 c.69.1.5 34653 2tmdA 729 2.20e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1ozhA 566 2.21e+01 c.31.1.3 -6737 c.36.1.5 -6895 c.36.1.9 -6935 1ukcA 522 2.21e+01 1vh7A 265 2.23e+01 c.1.2.1 -5159 1aj2 282 2.23e+01 1aj2 c.1.21.1 29665 1b74A 254 2.25e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1o6dA 163 2.28e+01 c.116.1.3 -6689 1garA 212 2.29e+01 2gar c.65.1.1 34162 1f8gA 384 2.29e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 1ur1A 378 2.31e+01 c.1.8.3 -5311 1rh5A 436 2.33e+01 unknown_sccs -12298 1fjgC 239 2.35e+01 1fjfC d.52.3.1 38831 d.53.1.1 38839 1kolA 398 2.37e+01 b.35.1.2 77474 c.2.1.1 77475 1gdeA 389 2.39e+01 c.67.1.1 60456 1gvnB 287 2.42e+01 c.37.1.21 76354 1l6oA 95 2.42e+01 b.36.1.1 84534 1uwcA 261 2.44e+01 c.69.1.17 -8352 1nvmA 345 2.44e+01 a.5.7.1 86249 c.1.10.5 86250 1ns5A 155 2.46e+01 c.116.1.3 80705 1tig 94 2.47e+01 1tig d.68.1.1 39566 3rabA 169 2.47e+01 1ctqA c.37.1.8 32018 1t1gA 364 2.47e+01 1hd7A 318 2.49e+01 1bix d.151.1.1 41780 1ujpA 271 2.50e+01 c.1.2.4 -5177 1g6hA 257 2.51e+01 1gajA c.37.1.12 60318 1pxgA 382 2.52e+01 c.1.20.1 -5616 1qdeA 224 2.52e+01 1qvaA c.37.1.19 32410 1auiA 521 2.52e+01 1auiA d.159.1.3 42085 1gdoA 240 2.55e+01 1gdoA d.153.1.1 41804 1r5yA 386 2.57e+01 c.1.20.1 -5626 1e3jA 352 2.58e+01 1e3jA b.35.1.2 24765 c.2.1.1 29781 1rzjG 321 2.60e+01 d.172.1.1 -11666 1vkmA 297 2.61e+01 1pea 385 2.62e+01 1pea c.93.1.1 35662 1vhnA 318 2.63e+01 c.1.4.1 -5209 1eswA 500 2.66e+01 1cwyA c.1.8.1 59500 2gar 212 2.68e+01 2gar c.65.1.1 34161 1ej6D 418 2.68e+01 i.7.1.1 45970 1pud 386 2.69e+01 1pud c.1.20.1 29658 1h2bA 359 2.69e+01 b.35.1.2 -3679 c.2.1.1 -5703 1lw6E 281 2.70e+01 c.41.1.1 74293 1kqfA 1015 2.77e+01 b.52.2.2 72871 c.81.1.1 72872 1pkp 150 2.83e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1ae9A 179 2.84e+01 1ae9A d.163.1.1 42153 1e0tA 470 2.87e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1ko7A 314 2.88e+01 c.98.2.1 72797 c.91.1.2 72798 1sh0A 510 2.94e+01 e.8.1.4 -11949 1qrrA 394 3.02e+01 1qrrA c.2.1.2 29824 1p0fA 373 3.04e+01 b.35.1.2 87642 c.2.1.1 87643 1ogiA 303 3.11e+01 b.43.4.2 -4042 c.25.1.1 -6587 1qwoA 442 3.13e+01 1pwxA 254 3.15e+01 c.2.1.2 -5858 1jjfA 268 3.16e+01 c.69.1.2 66765 1v1aA 309 3.16e+01 c.72.1.1 -8400 1e6cA 173 3.17e+01 1shkA c.37.1.2 59296 1e4iA 447 3.18e+01 1e70M c.1.8.4 59225 1djnA 729 3.23e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1usuA 260 3.23e+01 unknown_sccs -9045 1mdl 359 3.23e+01 2mnr c.1.11.2 29247 d.54.1.1 38891 1m6sA 347 3.26e+01 c.67.1.1 78701 1o94A 729 3.29e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1mqsA 671 3.31e+01 e.25.1.1 79414 1go2A 304 3.32e+01 b.43.4.2 76243 c.25.1.1 76244 1gy8A 397 3.38e+01 c.2.1.2 83376 1kyqA 274 3.39e+01 c.2.1.11 73281 e.37.1.1 73282 1o0sA 605 3.41e+01 c.2.1.7 86540 c.58.1.3 86541 1ufkA 254 3.44e+01 unknown_sccs -8103 1ihp 438 3.46e+01 1ihp c.60.1.2 33993 1n57A 291 3.46e+01 c.23.16.2 85328 1uz5A 402 3.48e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1inlA 296 3.48e+01 c.66.1.17 66220 1cseE 274 3.52e+01 1gci c.41.1.1 32481 1gesA 450 3.55e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1kblA 873 3.59e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1sglA 209 3.59e+01 1d2nA 272 3.61e+01 1d2nA c.37.1.20 32428 1b78A 193 3.62e+01 1b78A c.51.4.1 33221 1e5dA 402 3.69e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1ne7A 289 3.70e+01 unknown_sccs -6858 2mnr 357 3.70e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1fcjA 322 3.72e+01 1oasA c.79.1.1 35289 1jmkC 230 3.73e+01 c.69.1.22 71747 1i1qB 192 3.74e+01 1qdlB c.23.16.1 61544 1f46A 140 3.74e+01 1f46A d.129.4.1 59643 1adoA 363 3.75e+01 1fbaA c.1.10.1 29124 1r0wA 286 3.77e+01 c.37.1.12 -7158 1jg8A 347 3.82e+01 1jg8A c.67.1.1 62946 1fs1B 141 3.83e+01 1vcbB a.157.1.1 19252 d.42.1.1 38664 1oivA 191 3.86e+01 c.37.1.8 -7074 1que 303 3.87e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1g9mG 321 3.87e+01 1gc1G d.172.1.1 42492 1q1rA 431 3.93e+01 c.3.1.5 -6048 c.3.1.5 -6049 d.87.1.1 -10502 1pvyA 227 3.93e+01 d.115.1.2 -10937 1ovnA 248 3.95e+01 a.71.1.1 -1096 c.47.1.7 -7477