# List of top-scoring protein chains for t06-100-30-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 1.18e-01 1dc1A c.52.1.11 33321 2b49A 287 2.81e-01 2dg5B 190 4.48e-01 2bkrA 212 4.86e-01 1hq0A 295 7.71e-01 1hzgA d.194.1.1 61122 3cla 213 8.96e-01 3cla c.43.1.1 32610 2g8yA 385 9.77e-01 1gci 269 1.06e+00 1gci c.41.1.1 32503 1udxA 416 1.14e+00 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1y88A 199 1.79e+00 1ofuX 119 1.90e+00 c.37.1.22 86976 2ap1A 327 1.98e+00 1x72A 334 2.06e+00 d.126.1.6 109495 1wsrA 375 2.23e+00 1y74A 57 2.34e+00 1kcqA 104 2.47e+00 d.109.1.1 68449 2cayA 145 2.49e+00 1r6wA 322 2.54e+00 c.1.11.2,d.54.1.1 97165,97166 1zxuA 217 2.82e+00 1lqaA 346 3.12e+00 c.1.7.1 84674 1vljA 407 3.20e+00 e.22.1.2 108832 1o5kA 306 3.23e+00 c.1.10.1 92504 1euvA 221 3.75e+00 1euvA d.3.1.7 37133 1vicA 262 3.83e+00 c.68.1.13 100756 1lehA 364 3.93e+00 1bw9A c.2.1.7,c.58.1.1 30268,33916 1to2E 281 3.94e+00 1hw6A 278 4.03e+00 1frb c.1.7.1 61296 1uwzA 136 4.04e+00 c.97.1.1 108081 1vl4A 447 4.15e+00 d.283.1.1 108718 1em8A 147 4.17e+00 c.128.1.1 90457 1uptA 171 4.30e+00 c.37.1.8 99767 2cmuA 342 4.67e+00 1svdM 110 4.84e+00 1jx4A 352 4.92e+00 d.240.1.1,e.8.1.7 90378,90379 1q8yA 373 5.05e+00 d.144.1.7 96234 1vpjA 192 5.06e+00 1r0rE 274 5.08e+00 c.41.1.1 96735 1u7zA 226 5.10e+00 1pme 380 5.13e+00 1hcl d.144.1.7 41653 1p90A 145 5.16e+00 c.55.5.2 94377 1ckaA 57 5.27e+00 1ckaA b.34.2.1 24459 1jm1A 204 5.97e+00 b.33.1.1 71745 1w9cA 321 5.99e+00 2eu9A 355 6.16e+00 2az4A 429 6.31e+00 1o2dA 371 6.37e+00 e.22.1.2 86591 1p5dX 463 6.40e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2h1tA 188 6.50e+00 1ayoA 130 6.56e+00 1ayoA b.2.4.1 22431 2a10A 125 6.67e+00 1x6oA 174 6.76e+00 b.34.5.2,b.40.4.5 109493,109494 1gw5S 142 6.80e+00 d.110.4.2 70633 2g6bA 180 6.83e+00 1wrmA 165 6.89e+00 1nw3A 416 7.19e+00 c.66.1.31 86288 1id1A 153 7.33e+00 1id1A c.2.1.9 62286 1ooeA 236 7.77e+00 c.2.1.2 87196 1uanA 227 7.87e+00 c.134.1.1 99135 2f7tA 227 8.07e+00 1rjdA 334 8.73e+00 c.66.1.37 97558 1yw5A 177 9.36e+00 1pgs 314 9.42e+00 1pgs b.121.1.1,b.121.1.1 23653,23654 1c93A 265 1.01e+01 2ebn c.1.8.5 28998 1dbiA 280 1.08e+01 1gci c.41.1.1 32543 1ne9A 335 1.08e+01 d.108.1.4,d.108.1.4 91839,91840 1jl0A 334 1.09e+01 1jenA d.156.1.1 63155 2fm8A 135 1.10e+01 1mpxA 615 1.10e+01 b.18.1.13,c.69.1.21 85041,85042 1edt 271 1.10e+01 2ebn c.1.8.5 28993 1txoA 237 1.13e+01 1qxoA 388 1.22e+01 d.258.1.1 96539 4tmkA 213 1.23e+01 5tmpA c.37.1.1 31930 5nul 138 1.28e+01 5nul c.23.5.1 31191 2gx9A 129 1.28e+01 1q0pA 223 1.29e+01 c.62.1.1 95507 1wa3A 205 1.34e+01 1vrbA 342 1.34e+01 1tuoA 464 1.36e+01 2fhzA 109 1.37e+01 1ua4A 455 1.38e+01 c.72.1.3 99128 2cvbA 188 1.39e+01 2beiA 170 1.40e+01 1rybA 212 1.44e+01 c.56.3.1 98098 1hruA 188 1.44e+01 1hruA d.115.1.1 40926 1ad1A 266 1.47e+01 1aj2 c.1.21.1 29668 1ydgA 211 1.48e+01 1kjkA 64 1.51e+01 d.10.1.4 72613 1t1gA 364 1.51e+01 c.41.1.2 106246 1xb4A 202 1.51e+01 2b7aA 293 1.55e+01 1u9tA 354 1.55e+01 1tfr 305 1.56e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1tzjA 338 1.58e+01 1thm 279 1.59e+01 1gci c.41.1.1 32544 2ajrA 331 1.62e+01 1hywA 68 1.63e+01 1hywA d.186.1.1 61425 2ebn 289 1.65e+01 2ebn c.1.8.5 28990 1qopA 268 1.66e+01 2tysA c.1.2.4 28570 1p57A 114 1.72e+01 d.170.1.2 94125 1bd3A 243 1.72e+01 1bd3A c.61.1.1 34098 3bamA 213 1.73e+01 1bam c.52.1.3 33288 1dxeA 256 1.76e+01 1dxeA c.1.12.5 29310 1k2eA 156 1.77e+01 d.113.1.1 72010 1r31A 428 1.78e+01 d.58.20.1,d.179.1.1 96897,96898 1aj2 282 1.85e+01 1aj2 c.1.21.1 29665 1u59A 287 1.89e+01 d.144.1.7 107681 2ex3B 264 1.91e+01 1gp0A 143 1.92e+01 b.64.1.1 70300 1w6gA 646 1.92e+01 1d7uA 433 1.93e+01 2dkb c.67.1.4 34439 1lnsA 763 1.94e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1n8fA 350 1.94e+01 c.1.10.4 85397 1uheA 97 2.01e+01 1poiB 260 2.08e+01 1poiB c.124.1.3 34155 1o5zA 442 2.10e+01 c.59.1.2,c.72.2.2 92530,92531 1t0iA 191 2.10e+01 c.23.5.4 106209 1nriA 306 2.14e+01 c.80.1.3 86123 1geeA 261 2.16e+01 c.2.1.2 90509 1epxA 370 2.16e+01 1fbaA c.1.10.1 29150 1uyrA 737 2.17e+01 c.14.1.4,c.14.1.4 100188,100189 1nnwA 252 2.21e+01 d.159.1.5 80674 1lba 146 2.28e+01 1lba d.118.1.1 41062 1wnaA 131 2.36e+01 1kfcA 268 2.38e+01 c.1.2.4 77371 1wosA 364 2.38e+01 b.44.2.1,d.250.1.1 109468,109469 1cxqA 162 2.41e+01 1cxqA c.55.3.2 33621 1woqA 267 2.42e+01 c.55.1.10,c.55.1.10 109462,109463 1z9zA 60 2.43e+01 1p8xA 344 2.43e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1xrtA 467 2.44e+01 1jhgA 101 2.45e+01 1jhgA a.4.12.1 19009 1m2dA 110 2.48e+01 c.47.1.11 78476 1vg0A 650 2.50e+01 c.3.1.3,d.16.1.6 108596,108597 1lzlA 323 2.50e+01 c.69.1.2 78306 1pfvA 551 2.53e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 2a5yB 549 2.54e+01 1m4jA 142 2.55e+01 d.109.1.2 78602 1z6nA 167 2.56e+01 2bjbA 462 2.62e+01 1sfxA 109 2.65e+01 a.4.5.50 105505 1t95A 240 2.69e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1cz6A 25 2.73e+01 j.3.1.3 46072 3il8 72 2.74e+01 1tvxA d.9.1.1 37356 1frb 315 2.74e+01 1frb c.1.7.1 28665 1bif 469 2.77e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1hh1A 143 2.79e+01 1gefA c.52.1.18 61036 1w15A 153 2.80e+01 b.7.1.2 109041 1z2mA 155 2.81e+01 1m1hA 248 2.81e+01 b.114.1.1,d.58.42.1 78415,78416 1ek9A 428 2.87e+01 1ek9A f.5.1.1 43809 1wdnA 226 2.88e+01 1lst c.94.1.1 35816 1ihuA 589 2.88e+01 c.37.1.10,c.37.1.10 62394,62395 1g5cA 170 2.92e+01 1g5cA c.53.2.1 60264 1rypA 243 2.94e+01 1pmaA d.153.1.4 41932 1rjoA 646 3.01e+01 1z8gA 372 3.10e+01 1rxdA 159 3.14e+01 1zxfA 155 3.18e+01 2f9lA 199 3.20e+01 1ytqA 204 3.22e+01 2b6nA 278 3.22e+01 1on0A 158 3.23e+01 d.108.1.1 87095 1xyzA 347 3.28e+01 1taxA c.1.8.3 28804 1sz2A 332 3.30e+01 1ia9A 280 3.31e+01 1ia9A d.144.1.5 62113 1qc7A 101 3.32e+01 1qc7A a.118.14.1 18456 1io1A 398 3.32e+01 1io1A e.32.1.1 62611 2djkA 133 3.38e+01 1gpmA 525 3.40e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2govA 195 3.40e+01 1zkrA 153 3.41e+01 1nrjB 218 3.45e+01 c.37.1.8 86125 1tqxA 227 3.45e+01 1n82A 331 3.47e+01 c.1.8.3 91703 1xi3A 215 3.47e+01 c.1.3.1 109601 1ztpA 251 3.48e+01 1xp8A 366 3.53e+01 1z83A 196 3.55e+01 1eo1A 124 3.57e+01 1eo1A c.55.5.1 33739 1ptmA 329 3.57e+01 c.77.1.3 95104 1cq3A 233 3.61e+01 1cq3A b.27.1.1 23923 2gf9A 189 3.61e+01 1e8yA 966 3.64e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1uj0A 62 3.65e+01 b.34.2.1 99449 1zgkA 308 3.71e+01 1mi3A 322 3.71e+01 c.1.7.1 91274 1zc6A 305 3.72e+01 2a4hA 126 3.74e+01 1bt3A 345 3.74e+01 1bt3A a.86.1.2 18507 1u84A 90 3.78e+01 1g8kB 133 3.83e+01 1g8jB b.33.1.1 24435 1vlaA 150 3.83e+01 d.227.1.2 108735 1pch 88 3.90e+01 1ptf d.94.1.1 40564 2gtrA 261 3.90e+01 1u04A 771 3.93e+01 b.34.14.1,c.55.3.10 107539,107540 1qb5D 99 3.93e+01 b.40.2.1 88357 1wguA 136 3.94e+01 2al6A 375 4.09e+01 1ixkA 315 4.15e+01 c.66.1.38 90716 1qz9A 416 4.16e+01 c.67.1.3 96621 1jbwA 428 4.16e+01 c.59.1.2,c.72.2.2 62860,62861 1mtzA 293 4.20e+01 c.69.1.7 79467 1acf 125 4.22e+01 3nul d.110.1.1 40882 1xqwA 293 4.23e+01 1sluA 142 4.24e+01 1sluA b.16.1.1 23685 2a1vA 144 4.24e+01 2fpmA 322 4.25e+01 1pbwA 216 4.29e+01 1pbwA a.116.1.1 19103 1xjdA 345 4.29e+01 1vqvA 306 4.32e+01 1k4mA 213 4.32e+01 c.26.1.3 77258 2cfuA 658 4.34e+01 1pi1A 185 4.34e+01 a.29.7.1 94699 1wvqA 167 4.38e+01 1r7cA 31 4.38e+01 j.35.1.1 104831 2al2A 436 4.38e+01 2al1A 436 4.39e+01 1meoA 209 4.41e+01 c.65.1.1 79035 1usgA 346 4.42e+01 c.93.1.1 99864 2aebA 322 4.42e+01 1q52A 314 4.44e+01 c.14.1.3 95846 1pbyB 337 4.48e+01 b.69.2.2 94422 2a0mA 316 4.50e+01 1z08A 170 4.54e+01 1wzcA 249 4.55e+01 1rz2A 254 4.56e+01 b.100.1.1 105130 1hqz1 141 4.59e+01 1spgA 144 4.59e+01 1abwA a.1.1.2 15409 1oneA 436 4.61e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1sqhA 312 4.61e+01 d.108.1.5 98966 2f7fA 494 4.63e+01 1uv4A 293 4.69e+01 1zsoA 164 4.74e+01 1ta3B 303 4.78e+01 c.1.8.3 106732 1yqtA 538 4.81e+01 1qwdA 177 4.96e+01 b.60.1.1 96471 1yr2A 741 5.00e+01 1gx5A 536 5.06e+01 e.8.1.4 70682 1kid 203 5.14e+01 1derA c.8.5.1 30771 1tuaA 191 5.24e+01 d.51.1.1,d.51.1.1 107321,107322 1mqeA 207 5.32e+01 d.113.1.1 91394 1otgA 125 5.36e+01 1otgA d.80.1.2 39831 1g5tA 196 5.39e+01 1g5rA c.37.1.11 32366 1noyA 388 5.40e+01 1clqA c.55.3.5 33713 1zndA 174 5.43e+01 1j0dA 341 5.49e+01 c.79.1.1 83902 1xm7A 195 5.49e+01 1olzA 663 5.51e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1u9cA 224 5.52e+01 1va4A 279 5.54e+01 c.69.1.12 108458 1tbfA 347 5.56e+01 a.211.1.2 106743 1svy 114 5.57e+01 1svy d.109.1.1 40831 1rq2A 382 5.61e+01 c.32.1.1,d.79.2.1 105048,105049 1vkyA 347 5.62e+01 e.53.1.1 108696 1h2eA 207 5.62e+01 c.60.1.1 70857 1jf8A 131 5.63e+01 c.44.1.1 66621 1zvkA 358 5.64e+01 1t46A 313 5.64e+01 d.144.1.7 106397 2c71A 216 5.65e+01 1xngA 268 5.69e+01 1twdA 256 5.73e+01 c.1.30.1 107397 1wwhA 119 5.75e+01 1jhsA 188 5.77e+01 d.107.1.1 84172 1w66A 232 5.83e+01 1knvA 293 5.84e+01 c.52.1.7 68707 2gkeA 274 5.87e+01 2dcnA 311 5.89e+01 1wrjA 156 5.90e+01 1ulyA 192 5.91e+01 1u6eA 335 5.98e+01 1sd4A 126 5.98e+01 a.4.5.39 105428 1xvhA 129 6.00e+01 1puoA 170 6.00e+01 a.101.1.1,a.101.1.1 95134,95135 2fn0A 437 6.00e+01 2f62A 161 6.02e+01 1e5mA 416 6.04e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 2a6hC 1119 6.06e+01 1kzlA 208 6.08e+01 b.43.4.3,b.43.4.3 77635,77636 1xd5A 112 6.09e+01 1s3aA 102 6.22e+01 1tzzA 392 6.22e+01 1o1zA 234 6.23e+01 c.1.18.3 86555 1dbqA 289 6.24e+01 1qpzA c.93.1.1 35666 1sk4A 163 6.25e+01 d.118.1.1 105664 1dyoA 160 6.28e+01 1dyoA b.18.1.7 23771 1zczA 464 6.32e+01 1ob8A 135 6.33e+01 2fp4B 395 6.34e+01 1zpyA 95 6.41e+01 2c46A 241 6.43e+01 1lvwA 295 6.44e+01 c.68.1.6 84723 1qy1A 174 6.47e+01 b.60.1.1 96568 1cojA 212 6.50e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1vc1A 110 6.52e+01 c.13.2.1 108493 1o22A 170 6.54e+01 d.238.1.1 86557 1auk 489 6.61e+01 1auk c.76.1.2 35030 1nijA 318 6.62e+01 c.37.1.10,d.237.1.1 85741,85742 1ybdA 239 6.66e+01 1pinA 163 6.74e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 3nul 130 6.76e+01 3nul d.110.1.1 40891 2cvhA 220 6.80e+01 1oxkB 134 6.80e+01 c.23.1.1 93691 1tmy 120 6.82e+01 1dbwA c.23.1.1 31083 2alaA 391 6.92e+01 1z57A 339 6.95e+01 1ukuA 102 6.95e+01 d.58.5.2 99533 1rlzA 369 7.06e+01 c.31.1.1 104989 1azo 232 7.08e+01 1azo c.52.1.14 33329 1wdcB 156 7.09e+01 1wdcB a.39.1.5 17302 1gpc 218 7.11e+01 1gpc b.40.4.7 25393 1w2xA 758 7.11e+01 c.14.1.4,c.14.1.4 109134,109135 1pszA 303 7.12e+01 1toaA c.92.2.2 35600 1zo0A 126 7.13e+01 1mp8A 281 7.17e+01 d.144.1.7 91384 1k1eA 180 7.19e+01 c.108.1.5 67995 1wtaA 275 7.20e+01 1xs0A 136 7.27e+01 1u0sY 118 7.28e+01 c.23.1.1 107566 1oacA 727 7.28e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1vfsA 386 7.31e+01 b.49.2.2,c.1.6.1 108584,108585 1ox0A 430 7.36e+01 c.95.1.1,c.95.1.1 87495,87496 1pmnA 364 7.47e+01 d.144.1.7 94907 1x0rA 249 7.50e+01 1toaA 313 7.54e+01 1toaA c.92.2.2 35598 1sviA 195 7.54e+01 c.37.1.8 106048 1zg2A 107 7.58e+01 2ag4A 164 7.60e+01 1x88A 359 7.61e+01 1xfkA 336 7.69e+01 2b0tA 738 7.69e+01 1jfuA 186 7.73e+01 c.47.1.10 62940 1za0A 275 7.73e+01 1xteA 154 7.73e+01 1e19A 314 7.78e+01 1b7bA c.73.1.1 34967 1r1mA 164 7.80e+01 d.79.7.1 96820 2f71A 298 7.80e+01 1bg1A 722 7.84e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1nd4A 264 7.87e+01 d.144.1.6 91815 1h6pA 203 7.92e+01 a.146.1.1 60690 2a5hA 416 7.97e+01 1of8A 370 8.00e+01 c.1.10.4 92819 1l7aA 318 8.02e+01 c.69.1.25 77772 1v5vA 401 8.03e+01 1ohvA 472 8.06e+01 c.67.1.4 93031 2a7kA 250 8.09e+01 1w5qA 337 8.17e+01 1e2kA 331 8.22e+01 1qhiA c.37.1.1 31854 2c78A 405 8.22e+01 1zkpA 268 8.25e+01 1iuqA 367 8.40e+01 c.112.1.1 90703 1bjt 793 8.45e+01 1bjt e.11.1.1 43249 1k7kA 221 8.45e+01 c.51.4.1 72104 1f53A 84 8.49e+01 1f53A b.11.1.4 23632 1bdfA 235 8.50e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1pa1A 310 8.54e+01 c.45.1.2 94404 1v93A 296 8.59e+01 c.1.23.1 100532 1h32A 261 8.61e+01 a.3.1.8,a.3.1.8 76618,76619 1jftA 340 8.65e+01 a.35.1.5,c.93.1.1 66652,66653 7odcA 424 8.74e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1ur1A 378 8.76e+01 c.1.8.3 99804 1dkzA 219 8.77e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1tuvA 114 8.79e+01 2gkpA 167 8.84e+01 1odzA 386 8.86e+01 c.1.8.3 86889 1jmxB 349 8.90e+01 b.69.2.2 66906 1shfA 59 8.99e+01 1bbzA b.34.2.1 24462 1vlgA 176 8.99e+01 a.25.1.1 108816