# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 1dc1A 323 1.86e-01 1dc1A c.52.1.11 33321 2b49A 287 4.40e-01 2dg5B 190 7.00e-01 1mkp 144 7.56e-01 1vhrA c.45.1.1 32654 2bkrA 212 7.58e-01 2bkqA 212 7.90e-01 1hq0A 295 1.20e+00 1hzgA d.194.1.1 61122 3cla 213 1.39e+00 3cla c.43.1.1 32610 2g8yA 385 1.52e+00 1gci 269 1.65e+00 1gci c.41.1.1 32503 1fhuA 320 1.77e+00 1fhuA c.1.11.2,d.54.1.1 29234,38878 1udxA 416 1.77e+00 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1xt9A 212 1.86e+00 1gc5A 467 2.71e+00 1gc5A c.72.1.3 60429 1y88A 199 2.77e+00 1ofuX 119 2.93e+00 c.37.1.22 86976 2ap1A 327 3.06e+00 1x72A 334 3.17e+00 d.126.1.6 109495 1wsrA 375 3.44e+00 1sup 275 3.57e+00 1gci c.41.1.1 32510 1y74A 57 3.60e+00 1kcqA 104 3.80e+00 d.109.1.1 68449 2cayA 145 3.84e+00 1r6wA 322 3.91e+00 c.1.11.2,d.54.1.1 97165,97166 1zxuA 217 4.33e+00 1wbpA 397 4.44e+00 1lqaA 346 4.79e+00 c.1.7.1 84674 1cseE 274 4.89e+00 1gci c.41.1.1 32481 1vljA 407 4.91e+00 e.22.1.2 108832 1o5kA 306 4.95e+00 c.1.10.1 92504 1zrzA 364 5.24e+00 1u5tC 202 5.63e+00 a.4.5.54,a.4.5.54 107688,107689 1euvA 221 5.75e+00 1euvA d.3.1.7 37133 1vicA 262 5.87e+00 c.68.1.13 100756 1lehA 364 6.03e+00 1bw9A c.2.1.7,c.58.1.1 30268,33916 1to2E 281 6.04e+00 1hw6A 278 6.17e+00 1frb c.1.7.1 61296 1uwzA 136 6.19e+00 c.97.1.1 108081 1vl4A 447 6.36e+00 d.283.1.1 108718 1em8A 147 6.38e+00 c.128.1.1 90457 1lw6E 281 6.47e+00 c.41.1.1 74293 1uptA 171 6.58e+00 c.37.1.8 99767 1tyyA 339 6.75e+00 1yu6A 275 6.76e+00 2cmuA 342 7.15e+00 1svdM 110 7.40e+00 1h8gA 95 7.43e+00 b.109.1.1 65735 1jx4A 352 7.52e+00 d.240.1.1,e.8.1.7 90378,90379 1q8yA 373 7.72e+00 d.144.1.7 96234 1vpjA 192 7.73e+00 1r0rE 274 7.76e+00 c.41.1.1 96735 1u7zA 226 7.79e+00 1pme 380 7.83e+00 1hcl d.144.1.7 41653 1p90A 145 7.88e+00 c.55.5.2 94377 1ckaA 57 8.05e+00 1ckaA b.34.2.1 24459 1uptC 170 8.25e+00 c.37.1.8 99769 1sh7A 284 8.71e+00 1jm1A 204 9.12e+00 b.33.1.1 71745 1w9cA 321 9.14e+00 2eu9A 355 9.39e+00 2az4A 429 9.62e+00 1o2dA 371 9.72e+00 e.22.1.2 86591 1p5dX 463 9.76e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2h1tA 188 9.90e+00 1ayoA 130 1.00e+01 1ayoA b.2.4.1 22431 1k2yX 463 1.01e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 2a10A 125 1.02e+01 1x6oA 174 1.03e+01 b.34.5.2,b.40.4.5 109493,109494 1gw5S 142 1.04e+01 d.110.4.2 70633 2g6bA 180 1.04e+01 1wrmA 165 1.05e+01 1nw3A 416 1.09e+01 c.66.1.31 86288 1tvoA 368 1.11e+01 1id1A 153 1.12e+01 1id1A c.2.1.9 62286 1howA 373 1.12e+01 1hcl d.144.1.7 41679 1ooeA 236 1.18e+01 c.2.1.2 87196 1uanA 227 1.20e+01 c.134.1.1 99135 2f7tA 227 1.23e+01 1rjdA 334 1.33e+01 c.66.1.37 97558 1r4aA 165 1.35e+01 c.37.1.8 96986 1yw5A 177 1.42e+01 1pgs 314 1.43e+01 1pgs b.121.1.1,b.121.1.1 23653,23654 1jtkA 136 1.47e+01 c.97.1.1 71862 1c93A 265 1.53e+01 2ebn c.1.8.5 28998 1dbiA 280 1.63e+01 1gci c.41.1.1 32543 1ne9A 335 1.63e+01 d.108.1.4,d.108.1.4 91839,91840 1jl0A 334 1.66e+01 1jenA d.156.1.1 63155 2fm8A 135 1.66e+01 1mpxA 615 1.67e+01 b.18.1.13,c.69.1.21 85041,85042 1edt 271 1.67e+01 2ebn c.1.8.5 28993 1txoA 237 1.71e+01 1qxoA 388 1.84e+01 d.258.1.1 96539 4tmkA 213 1.86e+01 5tmpA c.37.1.1 31930 5nul 138 1.93e+01 5nul c.23.5.1 31191 2gx9A 129 1.94e+01 1q0pA 223 1.96e+01 c.62.1.1 95507 1jlwA 219 2.00e+01 a.45.1.1,c.47.1.5 71741,71742 1wa3A 205 2.03e+01 1vrbA 342 2.03e+01 1tuoA 464 2.06e+01 2fhzA 109 2.07e+01 1ua4A 455 2.09e+01 c.72.1.3 99128 2cvbA 188 2.11e+01 2beiA 170 2.12e+01 2tysA 268 2.13e+01 2tysA c.1.2.4 28572 1rybA 212 2.17e+01 c.56.3.1 98098 1hruA 188 2.18e+01 1hruA d.115.1.1 40926 1mqsA 671 2.18e+01 e.25.1.1 79414 1ad1A 266 2.22e+01 1aj2 c.1.21.1 29668 1ydgA 211 2.24e+01 1kjkA 64 2.28e+01 d.10.1.4 72613 1t1gA 364 2.29e+01 c.41.1.2 106246 1xb4A 202 2.29e+01 2b7aA 293 2.34e+01 1u9tA 354 2.35e+01 1tfr 305 2.35e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1tzjA 338 2.38e+01 1thm 279 2.40e+01 1gci c.41.1.1 32544 1gt91 357 2.42e+01 2ajrA 331 2.45e+01 1hywA 68 2.46e+01 1hywA d.186.1.1 61425 2ebn 289 2.50e+01 2ebn c.1.8.5 28990 1qopA 268 2.51e+01 2tysA c.1.2.4 28570 1p57A 114 2.59e+01 d.170.1.2 94125 1bd3A 243 2.59e+01 1bd3A c.61.1.1 34098 3bamA 213 2.61e+01 1bam c.52.1.3 33288 1ad4A 266 2.65e+01 1aj2 c.1.21.1 29670 1dxeA 256 2.65e+01 1dxeA c.1.12.5 29310 1k2eA 156 2.68e+01 d.113.1.1 72010 1r31A 428 2.68e+01 d.58.20.1,d.179.1.1 96897,96898 1v52A 133 2.75e+01 1iw7C 1119 2.79e+01 e.29.1.1 71474 1aj2 282 2.79e+01 1aj2 c.1.21.1 29665 1u59A 287 2.85e+01 d.144.1.7 107681 2ex3B 264 2.88e+01 1gp0A 143 2.89e+01 b.64.1.1 70300 1w6gA 646 2.90e+01 1d7uA 433 2.90e+01 2dkb c.67.1.4 34439 1lnsA 763 2.92e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1n8fA 350 2.93e+01 c.1.10.4 85397 1g0uG 252 2.98e+01 d.153.1.4 41952 1to3A 304 3.00e+01 c.1.10.1 107161 1uheA 97 3.03e+01 1vsd 152 3.03e+01 1cxqA c.55.3.2 33625 1ui7A 638 3.07e+01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 1poiB 260 3.13e+01 1poiB c.124.1.3 34155 1o5zA 442 3.16e+01 c.59.1.2,c.72.2.2 92530,92531 1t0iA 191 3.17e+01 c.23.5.4 106209 2aehA 369 3.20e+01 1nriA 306 3.22e+01 c.80.1.3 86123 1gcoA 261 3.25e+01 1ybvA c.2.1.2 29884 1geeA 261 3.25e+01 c.2.1.2 90509 1epxA 370 3.26e+01 1fbaA c.1.10.1 29150 1uyrA 737 3.27e+01 c.14.1.4,c.14.1.4 100188,100189 1nnwA 252 3.32e+01 d.159.1.5 80674 1gg1A 350 3.41e+01 1qr7A c.1.10.4 29187 1lba 146 3.43e+01 1lba d.118.1.1 41062 1q18A 332 3.46e+01 c.55.1.7,c.55.1.7 104470,104471 1wnaA 131 3.54e+01 1kfcA 268 3.57e+01 c.1.2.4 77371 1wosA 364 3.58e+01 b.44.2.1,d.250.1.1 109468,109469 1cxqA 162 3.63e+01 1cxqA c.55.3.2 33621 1woqA 267 3.63e+01 c.55.1.10,c.55.1.10 109462,109463 1z9zA 60 3.65e+01 1p8xA 344 3.66e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1xrtA 467 3.66e+01 1jhgA 101 3.68e+01 1jhgA a.4.12.1 19009 1m2dA 110 3.72e+01 c.47.1.11 78476 1f4lA 551 3.73e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1hnuA 280 3.75e+01 1hnoA c.14.1.3 61096 1vg0A 650 3.75e+01 c.3.1.3,d.16.1.6 108596,108597 1lzlA 323 3.76e+01 c.69.1.2 78306 1pfvA 551 3.79e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1vlwA 217 3.81e+01 c.1.10.1 108868 2a5yB 549 3.82e+01 1m4jA 142 3.83e+01 d.109.1.2 78602 1huuA 90 3.84e+01 1huuA a.55.1.1 17897 1ui8A 638 3.84e+01 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 1z6nA 167 3.85e+01 1f37A 110 3.87e+01 1f37A c.47.1.11 33088 1ydnA 295 3.93e+01 2bjbA 462 3.94e+01 1sfxA 109 3.97e+01 a.4.5.50 105505 1zclA 180 4.04e+01 1t95A 240 4.05e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1yadA 221 4.05e+01 1cz6A 25 4.10e+01 j.3.1.3 46072 3il8 72 4.11e+01 1tvxA d.9.1.1 37356 1frb 315 4.12e+01 1frb c.1.7.1 28665 1bif 469 4.16e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1hh1A 143 4.18e+01 1gefA c.52.1.18 61036 1w15A 153 4.20e+01 b.7.1.2 109041 1avk 638 4.21e+01 1a2vA b.30.2.1,d.17.2.1,d.17.2.1 24410,38047,38048 1z2mA 155 4.21e+01 1m1hA 248 4.22e+01 b.114.1.1,d.58.42.1 78415,78416 1ek9A 428 4.30e+01 1ek9A f.5.1.1 43809 1wdnA 226 4.32e+01 1lst c.94.1.1 35816 1ihuA 589 4.32e+01 c.37.1.10,c.37.1.10 62394,62395 1g5cA 170 4.38e+01 1g5cA c.53.2.1 60264 1rypA 243 4.40e+01 1pmaA d.153.1.4 41932 1rjoA 646 4.51e+01 1xtnA 120 4.53e+01 1yobA 179 4.60e+01 1z8gA 372 4.64e+01 1jenA 267 4.69e+01 1jenA 1rxdA 159 4.71e+01 1zckA 154 4.72e+01 1zxfA 155 4.76e+01 2f9lA 199 4.79e+01 1ytqA 204 4.82e+01 2b6nA 278 4.83e+01 1on0A 158 4.84e+01 d.108.1.1 87095 1xyzA 347 4.91e+01 1taxA c.1.8.3 28804 1sz2A 332 4.94e+01 1ia9A 280 4.96e+01 1ia9A d.144.1.5 62113 1qc7A 101 4.97e+01 1qc7A a.118.14.1 18456 1io1A 398 4.97e+01 1io1A e.32.1.1 62611 1k28D 391 4.97e+01 b.106.1.1,b.106.1.1 68052,68053 1bwzA 274 5.02e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 2djkA 133 5.06e+01 1gpmA 525 5.09e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2govA 195 5.09e+01 1zkrA 153 5.11e+01 1iyxA 432 5.12e+01 c.1.11.1,d.54.1.1 83815,83816 1nrjB 218 5.16e+01 c.37.1.8 86125 1tqxA 227 5.17e+01 2kinA 238 5.18e+01 1bg2 c.37.1.9 32190 1n82A 331 5.19e+01 c.1.8.3 91703 1xi3A 215 5.20e+01 c.1.3.1 109601 1ztpA 251 5.20e+01 1xp8A 366 5.28e+01 1siiA 646 5.29e+01 b.30.2.1,d.17.2.1,d.17.2.1 105578,105579,105580 1z83A 196 5.32e+01 1pu5A 164 5.32e+01 b.95.1.1 104310 1eo1A 124 5.34e+01 1eo1A c.55.5.1 33739 1ptmA 329 5.34e+01 c.77.1.3 95104 1cq3A 233 5.40e+01 1cq3A b.27.1.1 23923 2gf9A 189 5.40e+01 1e8yA 966 5.45e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1uj0A 62 5.46e+01 b.34.2.1 99449 1u6dX 308 5.54e+01 1zgkA 308 5.54e+01 1mi3A 322 5.54e+01 c.1.7.1 91274 1zc6A 305 5.56e+01 1g7fA 298 5.58e+01 1pty c.45.1.2 60330 2a4hA 126 5.59e+01 1bt3A 345 5.59e+01 1bt3A a.86.1.2 18507 1tiiD 99 5.59e+01 1tiiD b.40.2.1 24965 1u84A 90 5.65e+01 1i7qA 519 5.72e+01 1qdlA d.161.1.1 61901 1g8kB 133 5.73e+01 1g8jB b.33.1.1 24435 1vlaA 150 5.73e+01 d.227.1.2 108735 1pch 88 5.83e+01 1ptf d.94.1.1 40564 2gtrA 261 5.84e+01 1u04A 771 5.87e+01 b.34.14.1,c.55.3.10 107539,107540 1qb5D 99 5.87e+01 b.40.2.1 88357 1wguA 136 5.89e+01 2al6A 375 6.11e+01 1kbjA 412 6.15e+01 c.1.4.1 72280 1g13A 162 6.16e+01 1g13A b.95.1.1 60194 1ixkA 315 6.21e+01 c.66.1.38 90716 1esgA 213 6.22e+01 1bam c.52.1.3 33286 1qz9A 416 6.22e+01 c.67.1.3 96621 1jbwA 428 6.22e+01 c.59.1.2,c.72.2.2 62860,62861 1iqyA 638 6.23e+01 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 1mtzA 293 6.27e+01 c.69.1.7 79467 1acf 125 6.30e+01 3nul d.110.1.1 40882 1xqwA 293 6.32e+01 1sluA 142 6.33e+01 1sluA b.16.1.1 23685 2a1vA 144 6.33e+01 2fpmA 322 6.34e+01 1pbwA 216 6.40e+01 1pbwA a.116.1.1 19103 1xjdA 345 6.41e+01 1f2dA 341 6.41e+01 1f2dA c.79.1.1 35298 1vqvA 306 6.45e+01 1k4mA 213 6.46e+01 c.26.1.3 77258 1hxs1 302 6.47e+01 2cfuA 658 6.48e+01 1pi1A 185 6.49e+01 a.29.7.1 94699 1ha3A 405 6.50e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1wvqA 167 6.53e+01 1r7cA 31 6.53e+01 j.35.1.1 104831 2al2A 436 6.54e+01 2al1A 436 6.55e+01 1meoA 209 6.58e+01 c.65.1.1 79035 1usgA 346 6.59e+01 c.93.1.1 99864 2aebA 322 6.60e+01 1q52A 314 6.62e+01 c.14.1.3 95846 1pbyB 337 6.68e+01 b.69.2.2 94422 2a0mA 316 6.72e+01 1z08A 170 6.77e+01 1wzcA 249 6.79e+01 1rz2A 254 6.80e+01 b.100.1.1 105130 1qcwA 410 6.81e+01 1gox c.1.4.1 28622 1p9qC 256 6.82e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1hqz1 141 6.84e+01 1spgA 144 6.85e+01 1abwA a.1.1.2 15409 1oneA 436 6.88e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1sqhA 312 6.88e+01 d.108.1.5 98966 2f7fA 494 6.91e+01 1uv4A 293 7.00e+01 1fgs 428 7.02e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1zsoA 164 7.07e+01 1ta3B 303 7.13e+01 c.1.8.3 106732 1yqtA 538 7.17e+01 1qwdA 177 7.39e+01 b.60.1.1 96471 1yr2A 741 7.45e+01 2av9A 147 7.48e+01 1gx5A 536 7.55e+01 e.8.1.4 70682 1kid 203 7.66e+01 1derA c.8.5.1 30771 1tuaA 191 7.81e+01 d.51.1.1,d.51.1.1 107321,107322 1xrhA 351 7.91e+01 1mqeA 207 7.92e+01 d.113.1.1 91394 1pov1 302 7.95e+01 1pov1 1hzpA 335 7.96e+01 1hn9A c.95.1.2,c.95.1.2 61455,61456 1hyuA 521 7.96e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1otgA 125 7.97e+01 1otgA d.80.1.2 39831 1g5tA 196 8.03e+01 1g5rA c.37.1.11 32366 1noyA 388 8.04e+01 1clqA c.55.3.5 33713 1zndA 174 8.08e+01 1r6yA 115 8.12e+01 1j0dA 341 8.17e+01 c.79.1.1 83902 1xm7A 195 8.17e+01 1olzA 663 8.20e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1i05A 180 8.20e+01 1mup b.60.1.1 27130 1u9cA 224 8.22e+01 1i06A 180 8.23e+01 1mup b.60.1.1 27131 1va4A 279 8.25e+01 c.69.1.12 108458 2arkA 188 8.25e+01 1jv4A 162 8.27e+01 b.60.1.1 67343 4enl 436 8.27e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1tbfA 347 8.27e+01 a.211.1.2 106743 1svy 114 8.29e+01 1svy d.109.1.1 40831 1rq2A 382 8.35e+01 c.32.1.1,d.79.2.1 105048,105049 1vkyA 347 8.36e+01 e.53.1.1 108696 1h2eA 207 8.36e+01 c.60.1.1 70857 1jf8A 131 8.38e+01 c.44.1.1 66621 1zvkA 358 8.39e+01 1t46A 313 8.39e+01 d.144.1.7 106397 2c71A 216 8.41e+01 2bb2 181 8.41e+01 2bb2 b.11.1.1,b.11.1.1 23604,23605 1xngA 268 8.46e+01 1f1zA 273 8.48e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1twdA 256 8.53e+01 c.1.30.1 107397 1wwhA 119 8.56e+01 1jhsA 188 8.58e+01 d.107.1.1 84172 1u1hA 765 8.59e+01 c.1.22.2,c.1.22.2 107580,107581 1dhs 344 8.66e+01 1dhs c.31.1.1 31727 1w66A 232 8.67e+01 1knvA 293 8.68e+01 c.52.1.7 68707 1f2rI 100 8.69e+01 1c9fA d.15.2.1 37641 2gkeA 274 8.73e+01 2dcnA 311 8.76e+01 1wrjA 156 8.78e+01 1ulyA 192 8.80e+01 1u6eA 335 8.88e+01 1sd4A 126 8.89e+01 a.4.5.39 105428 1eudB 396 8.91e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1xvhA 129 8.92e+01 1puoA 170 8.92e+01 a.101.1.1,a.101.1.1 95134,95135 2fn0A 437 8.93e+01 2a0kA 161 8.93e+01 2f2tA 161 8.93e+01 2f62A 161 8.95e+01 1e5mA 416 8.97e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974