# 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.soe.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 1mkmA 249 3.04e-27 a.4.5.33,d.110.2.2 79242,79243 1yspA 181 7.07e-26 2ia2A 265 1.39e-25 1td5A 202 5.76e-25 d.110.2.2 106767 1tf1A 198 1.34e-24 d.110.2.2 106826 2g7uA 257 3.11e-24 2o99A 182 3.66e-24 d.110.2.2 138952 1ysqA 193 1.04e-23 2o0yA 260 2.19e-19 3bjnA 165 2.47e-19 1mc0A 368 3.17e-03 d.110.2.1,d.110.2.1 78937,78938 2qybA 181 2.21e-02 2v0uA 146 4.87e-02 2uv0E 175 7.97e-02 2qmlA 198 2.34e-01 1n9lA 109 3.58e-01 d.110.3.6 85468 2o28A 184 4.03e-01 2oqrA 230 5.17e-01 1ykdA 398 5.83e-01 2dgdA 223 7.67e-01 1id0A 152 7.81e-01 d.122.1.3 66111 1hw1A 239 1.03e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1j31A 262 1.25e+00 d.160.1.2 90808 2qdfA 335 1.25e+00 2reeA 224 1.26e+00 2fv7A 331 1.26e+00 c.72.1.1 134197 1v5iB 76 1.30e+00 1hyeA 313 1.36e+00 2cmd c.2.1.5,d.162.1.1 61400,61401 1ihoA 283 1.39e+00 1ihoA c.26.1.4 62390 2qmjA 870 1.42e+00 1yvoA 172 1.72e+00 d.108.1.1 124106 2z8xA 617 1.76e+00 2a2lA 145 1.84e+00 d.110.9.1 126035 1r7mA 235 1.87e+00 d.95.2.1,d.95.2.1 111713,111714 1zu0A 529 1.89e+00 1yw5A 177 1.97e+00 2qv5A 261 1.98e+00 3c0wA 235 2.00e+00 2bjoA 136 2.02e+00 1o65A 246 2.21e+00 b.58.1.2 92544 1j7lA 264 2.40e+00 d.144.1.6 62697 2absA 383 2.53e+00 c.72.1.1 126534 1gx1A 160 2.53e+00 d.79.5.1 70675 2qfmA 364 2.58e+00 3c6kA 381 2.58e+00 1qwgA 251 2.77e+00 c.1.27.1 96473 1q7lA 198 2.84e+00 c.56.5.4 96044 1q2lA 939 2.91e+00 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 118731,118732,118733,118734 2coiA 386 3.23e+00 2ddzA 190 3.24e+00 2i1oA 398 3.36e+00 1f5mA 180 3.41e+00 1f5mB d.110.2.1 40895 2pb2A 420 3.41e+00 2nwhA 317 3.62e+00 2qvpA 275 3.82e+00 2v7fA 150 3.82e+00 1ve3A 227 4.00e+00 c.66.1.43 120010 2b18A 164 4.00e+00 1fa0A 537 4.24e+00 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1o7eA 276 4.42e+00 e.3.1.1 92622 1iurA 88 4.50e+00 a.2.3.1 90704 2a1hA 365 4.59e+00 e.17.1.1 125997 2pn0A 141 4.66e+00 1bavA 309 4.72e+00 1aye c.56.5.1 33806 1s4iA 175 4.90e+00 1pc6A 146 5.00e+00 d.262.1.1 94430 1sczA 233 5.05e+00 c.43.1.1 98802 1n4kA 381 5.10e+00 a.118.22.1,b.42.6.1 79992,79993 2rhmA 193 5.15e+00 2ajrA 331 5.48e+00 c.72.1.1 126892 2nlyA 245 5.49e+00 c.6.2.7 138364 2iutA 574 5.50e+00 1vr4A 103 5.55e+00 d.230.5.1 120432 1xtlA 175 5.57e+00 1f2tB 148 5.73e+00 1f2tB 2q81A 119 5.75e+00 1liiA 363 5.76e+00 c.72.1.1 73921 2j66A 428 5.79e+00 1svdM 110 5.89e+00 d.73.1.1 119059 2r9qA 370 5.91e+00 2j8mA 172 5.94e+00 2ae6A 166 6.00e+00 d.108.1.1 126600 2hhpA 530 6.17e+00 a.160.1.1,d.218.1.3,d.58.16.1 136503,136504,136505 1xtmA 175 6.17e+00 1louA 101 6.17e+00 1ris d.58.14.1 39323 2gb3A 409 6.28e+00 c.67.1.1 134903 2dy1A 665 6.33e+00 2c5uA 375 6.64e+00 2dfaA 250 6.82e+00 c.6.2.5 131469 1s1pA 331 6.83e+00 c.1.7.1 98350 2ge3A 170 6.87e+00 d.108.1.1 135044 2q66A 525 6.93e+00 1y9kA 157 7.07e+00 d.108.1.1 122779 1r5jA 337 7.25e+00 c.77.1.5 97097 1xgsA 295 7.26e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 2icyA 469 7.29e+00 b.81.1.4,c.68.1.5 137257,137258 1nxiA 132 7.33e+00 d.58.47.1 86381 2ob0A 170 7.40e+00 1te5A 257 7.51e+00 d.153.1.1 106795 2g30A 258 7.53e+00 b.1.10.1,d.105.1.1 134546,134547 2r00A 336 7.70e+00 1wu7A 434 7.75e+00 c.51.1.1,d.104.1.1 121275,121276 2j6vA 301 7.78e+00 1erw 105 7.97e+00 1erv 1e3mA 800 8.00e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1erv 105 8.04e+00 1erv 2d4eA 515 8.11e+00 1f60A 458 8.18e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1rscI 111 8.21e+00 d.73.1.1 118620 2oo3A 283 8.35e+00 2bvcA 486 8.38e+00 d.15.9.1,d.128.1.1 129243,129244 2odsA 265 8.46e+00 1pvmA 184 8.61e+00 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 2i79A 172 8.73e+00 1s28A 132 8.76e+00 d.198.1.1 105223 1qq9A 284 8.87e+00 1xjo c.56.5.4 33841 1g71A 347 8.98e+00 1g71A d.264.1.1 43268 1a62 130 9.05e+00 1a62 1a62A 130 9.05e+00 a.140.3.1,b.40.4.5 64708,64709 2d1hA 109 9.29e+00 a.4.5.50 131125 1mv8A 436 9.42e+00 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2fcoA 200 9.72e+00 3c19A 186 9.86e+00 1vlmA 219 9.88e+00 c.66.1.41 108836 2j9oA 298 9.91e+00 2hyvA 308 9.93e+00 1p3dA 475 1.01e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1lml 478 1.01e+01 1lml 1lmlA 478 1.01e+01 d.92.1.3 40295 1xebA 150 1.02e+01 d.108.1.1 115219 1qf5A 431 1.02e+01 1adeA c.37.1.10 32212 1e0tA 470 1.03e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 2b7kA 200 1.04e+01 c.47.1.10 128042 2fl4A 149 1.05e+01 d.108.1.1 133706 2j7vA 298 1.05e+01 1m4lA 307 1.06e+01 c.56.5.1 78604 1ym5A 300 1.06e+01 2j13A 247 1.06e+01 c.6.2.3 137934 2ctc 307 1.06e+01 1aye 1ffyA 917 1.09e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2ov9A 216 1.10e+01 1v33A 366 1.10e+01 d.264.1.1 100278 1yvkA 163 1.11e+01 d.108.1.1 124101 3bh1A 507 1.11e+01 1dmtA 696 1.11e+01 1dmtA d.92.1.4 40296 1a6jA 163 1.12e+01 1a6jA d.112.1.1 40915 2avxA 171 1.14e+01 1yizA 429 1.14e+01 c.67.1.1 123375 1r1hA 696 1.17e+01 d.92.1.4 104756 1ir21 140 1.17e+01 1odkA 235 1.18e+01 c.56.2.1 86863 2bo4A 397 1.20e+01 c.68.1.18 128869 1aiu 105 1.21e+01 1erv 2bgsA 344 1.21e+01 3cblA 377 1.23e+01 1bsgA 266 1.23e+01 e.3.1.1 42729 2yvyA 278 1.23e+01 1wb9A 800 1.24e+01 a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 120833,120834,120835,120836 2pd8A 149 1.25e+01 1eexG 173 1.28e+01 1dioG a.23.2.1 16490 1wwzA 159 1.29e+01 d.108.1.1 121380 1e42A 258 1.29e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1qtqA 553 1.29e+01 1gtrA b.53.1.2,c.26.1.1 26940,31579 1l2tA 235 1.29e+01 c.37.1.12 73514 1vs3A 249 1.30e+01 1wdjA 187 1.31e+01 c.52.1.27 114536 1qxoA 388 1.32e+01 d.258.1.1 96539 2z0rA 103 1.33e+01 1jh3A 107 1.34e+01 d.66.1.4 71661 1iv3A 152 1.34e+01 d.79.5.1 76828 2pi0A 116 1.34e+01 1y0nA 78 1.35e+01 d.291.1.1 116305 1mpgA 282 1.36e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 2gl6A 392 1.36e+01 1h2iA 209 1.36e+01 d.50.1.3 76550 1rblI 109 1.36e+01 d.73.1.1 118599 2booA 247 1.37e+01 2dr1A 386 1.37e+01 2hq1A 247 1.37e+01 1tvzA 388 1.37e+01 c.95.1.2,c.95.1.2 107367,107368 2atrA 138 1.40e+01 d.108.1.1 127305 1d9uA 154 1.42e+01 1am7A d.2.1.4 59111 3rubS 123 1.43e+01 1rboC d.73.1.1 39616 1tbxA 99 1.44e+01 a.4.5.48 106748 1r0vA 305 1.45e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 2ifqA 105 1.47e+01 c.47.1.1 137343 1ub0A 258 1.47e+01 c.72.1.2 88394 1k6zA 141 1.48e+01 d.198.1.1 68247 2gwdA 449 1.49e+01 1xjo 284 1.51e+01 1xjo 2o55A 258 1.51e+01 1n82A 331 1.52e+01 c.1.8.3 91703 2oc6A 124 1.52e+01 1nowA 507 1.54e+01 c.1.8.6,d.92.2.1 85936,85937 1c0pA 363 1.54e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 2gx5A 170 1.55e+01 2c21A 144 1.56e+01 d.32.1.1 129649 1xw8A 252 1.56e+01 c.6.2.5 116111 1xssA 225 1.57e+01 2q3uA 383 1.58e+01 d.126.1.6 139809 1kafA 108 1.59e+01 d.199.1.1 68372 1vkpA 383 1.59e+01 d.126.1.6 108686 1u7bA 261 1.60e+01 d.131.1.2,d.131.1.2 113083,113084 1a8vA 121 1.62e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1ekfA 365 1.64e+01 1ekfA e.17.1.1 59445 2r98A 456 1.64e+01 2ov5A 261 1.65e+01 2h5nA 133 1.66e+01 1rsgA 516 1.67e+01 1w7bA 339 1.69e+01 a.65.1.1 114317 2pdrA 149 1.69e+01 1hnnA 282 1.71e+01 c.66.1.15 65895 2ezhA 75 1.71e+01 a.4.1.2 16029 2o3bB 136 1.71e+01 d.221.1.1 138902 2fgoA 82 1.72e+01 2hp0A 466 1.72e+01 1s50A 259 1.73e+01 c.94.1.1 118864 1q8rA 120 1.74e+01 d.79.6.1 96225 2j0iA 303 1.74e+01 2p19A 149 1.77e+01 1vizA 240 1.79e+01 c.1.4.1 100784 2o0bA 450 1.80e+01 1k38A 254 1.81e+01 e.3.1.1 84303 1j6wA 175 1.81e+01 1j98A d.185.1.2 62663 1ass 159 1.82e+01 1a6dA 1assA 159 1.82e+01 c.8.5.2 30818 1nu0A 138 1.83e+01 c.55.3.8 92165 2dc0A 434 1.83e+01 2qubA 615 1.84e+01 1h16A 759 1.84e+01 c.7.1.1 76462 2g3fA 421 1.85e+01 1zgdA 312 1.85e+01 1gk8I 140 1.86e+01 d.73.1.1 65242 1v8fA 276 1.86e+01 c.26.1.4 100503 2q7sA 290 1.87e+01 1yr0A 175 1.87e+01 d.108.1.1 123905 2bgxA 261 1.87e+01 a.20.1.1,d.118.1.1 128504,128505 1w2xA 758 1.88e+01 c.14.1.4,c.14.1.4 109134,109135 2q7dA 346 1.88e+01 2i9dA 217 1.88e+01 2fxtA 192 1.88e+01 2r6uA 148 1.88e+01 2p5zX 491 1.88e+01 2izrA 330 1.89e+01 2z10A 194 1.89e+01 1m4zA 238 1.90e+01 b.34.12.1 78630 1htqA 477 1.93e+01 d.15.9.1,d.128.1.1 71035,71036 3cucA 291 1.93e+01 1uyrA 737 1.94e+01 c.14.1.4,c.14.1.4 100188,100189 1cvrA 435 1.97e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1ud9A 245 1.97e+01 d.131.1.2,d.131.1.2 107768,107769 6mhtA 327 1.98e+01 6mhtA c.66.1.26 34226 2hjqA 111 1.99e+01 1y1oA 203 2.03e+01 c.52.1.28 116345 1z90A 469 2.03e+01 b.81.1.4,c.68.1.5 124732,124733 2eklA 313 2.05e+01 1xpmA 396 2.06e+01 c.95.1.2,c.95.1.2 115759,115760 1tkjA 284 2.09e+01 c.56.5.4 119296 1frpA 335 2.09e+01 1frpA e.7.1.1 42875 1rhcA 330 2.09e+01 c.1.16.3 97468 1xm3A 264 2.11e+01 c.1.31.1 115461 2j5aA 110 2.12e+01 1mvwC 147 2.13e+01 i.15.1.1 79525 2ov7A 137 2.16e+01 2d13A 227 2.18e+01 c.26.2.1 131121 2r1iA 172 2.23e+01 2b4uA 335 2.23e+01 2ae0X 345 2.24e+01 2q0oA 236 2.25e+01 2oo6A 409 2.25e+01 1a8qA 274 2.26e+01 c.69.1.12 34702 2f5gA 133 2.26e+01 d.58.57.1 132991 1ae9A 179 2.26e+01 1ae9A d.163.1.1 42153 1ei5A 520 2.27e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 2bjbA 462 2.27e+01 1kgdA 180 2.30e+01 c.37.1.1 68582 2fmlA 273 2.30e+01 a.4.5.68,d.113.1.6 133778,133779 1auvA 311 2.31e+01 1auvA c.30.1.5,d.142.1.3 31723,41558 1vhoA 346 2.32e+01 b.49.3.1,c.56.5.4 100694,100695 2hnhA 910 2.33e+01 1v7pC 200 2.33e+01 c.62.1.1 108408 1s3zA 165 2.35e+01 d.108.1.1 105250 2f6uA 234 2.39e+01 c.1.4.1 133061 2hgcA 102 2.40e+01 1ehiA 377 2.41e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1vz6A 393 2.42e+01 d.154.1.2 108949 2bcqA 335 2.44e+01 a.60.6.1,a.60.12.1,d.218.1.2 128304,128305,128306 1fnnA 389 2.44e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 2a2cA 478 2.44e+01 1mx3A 347 2.44e+01 c.2.1.4,c.23.12.1 79638,79639 2b8tA 223 2.45e+01 c.37.1.24,g.39.1.14 128109,128110 1qd1A 325 2.47e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1ru8A 232 2.48e+01 c.26.2.1 97849 3bwwA 307 2.48e+01 1kpeA 126 2.50e+01 1kpf d.13.1.1 37508 1rfmA 344 2.52e+01 c.122.1.1 97385 1vhmA 195 2.54e+01 d.110.2.1 100691 2p0aA 344 2.55e+01 1shuX 182 2.56e+01 c.62.1.1 98882 2himA 358 2.62e+01 1xpkC 388 2.62e+01 c.95.1.2,c.95.1.2 115747,115748 1cqmA 101 2.62e+01 1ris d.58.14.1 39321 1wlxA 129 2.64e+01 1x0pA 143 2.65e+01 d.58.10.2 121552 1j96A 323 2.66e+01 c.1.7.1 71616 1gefA 123 2.69e+01 1gefA c.52.1.18 60465 3ciwA 348 2.69e+01 2z5bB 179 2.69e+01 1j97A 211 2.70e+01 1f5sA c.108.1.4 62753 1r13A 148 2.70e+01 d.169.1.1,h.1.1.1 96782,96783 2i00A 406 2.71e+01 2ofkA 183 2.72e+01 1b8gA 429 2.72e+01 1b8gA c.67.1.4 34499 1qe5A 266 2.72e+01 1b8oA c.56.2.1 33784 1mxgA 435 2.74e+01 b.71.1.1,c.1.8.1 85193,85194 1sdjA 310 2.74e+01 d.21.1.2,d.21.1.2 98807,98808 1ko7A 314 2.75e+01 c.98.2.1,c.91.1.2 72797,72798 2cy8A 453 2.76e+01 2fwtA 125 2.76e+01 1zbsA 291 2.76e+01 c.55.1.5,c.55.1.5 124870,124871 8rucI 123 2.76e+01 1rboC d.73.1.1 39629 2rjrA 537 2.78e+01 1n00A 321 2.80e+01 a.65.1.1 85241 1xrtA 467 2.81e+01 b.92.1.3,c.1.9.6 122258,122259 2h8eA 120 2.81e+01 3borA 237 2.82e+01 1rztA 331 2.83e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1mnmA 100 2.85e+01 1mnmA d.88.1.1 40232 1vr5A 547 2.85e+01 c.94.1.1 120437 2f57A 317 2.85e+01 1ecpA 238 2.86e+01 1ecpA c.56.2.1 33775 1cm5A 759 2.89e+01 1cm5A c.7.1.1 30671 2i6jA 161 2.90e+01 2nx9A 464 2.91e+01 2cxaA 256 2.91e+01 d.108.1.6 130993 2yweA 600 2.92e+01 1u24A 337 2.94e+01 c.45.1.4 112968 1m7yA 435 2.95e+01 c.67.1.4 78761 1j5yA 187 2.96e+01 a.4.5.1,d.94.2.1 71592,71593 2jhnA 295 2.99e+01 1t0aA 159 2.99e+01 d.79.5.1 112192 1zb9A 143 2.99e+01 1jyaA 130 3.02e+01 d.198.1.1 67453 1yj7A 171 3.02e+01 1s2oA 244 3.04e+01 c.108.1.10 118846 1fc4A 401 3.06e+01 1bs0A c.67.1.4 59760 3cloA 258 3.06e+01 1k3eA 156 3.07e+01 d.198.1.1 68103 1c1dA 355 3.10e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1l7mA 211 3.13e+01 c.108.1.4 73664 1tljA 213 3.14e+01 d.282.1.1 107126 2iyeA 263 3.15e+01 1sedA 117 3.15e+01 a.219.1.1 105449 2osxA 481 3.19e+01 2burB 241 3.21e+01 b.3.6.1 129228 1qjtA 99 3.22e+01 1eh2 a.39.1.6 17335 1yo5C 97 3.23e+01 a.4.5.21 123768 2cyeA 133 3.25e+01 d.38.1.1 131021 1f46A 140 3.27e+01 1f46A d.129.4.1 59643 1iukA 140 3.27e+01 c.2.1.8 83712 1vmkA 277 3.28e+01 c.56.2.1 113680 2v2gA 233 3.28e+01 2h98A 313 3.28e+01 2f7bA 233 3.29e+01 1qmhA 347 3.31e+01 1qmhA c.47.2.1,d.68.2.1 33082,39568 1vhwA 253 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