# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 2bt2A 161 3.42e-23 1fqiA 147 1.76e-22 1agrE a.91.1.1 18542 1dk8A 147 1.60e-19 1agrE a.91.1.1 18548 2a72A 146 1.82e-19 1omwA 689 3.21e-12 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1htjF 210 3.82e-06 1htjF a.91.1.1 61254 1vzoA 355 2.06e-01 d.144.1.7 108971 1x3kA 152 2.36e-01 1f60B 94 2.44e-01 1b64 d.58.12.1 39307 1iapA 211 2.75e-01 a.91.1.1 62119 1wa5B 530 3.82e-01 1ee4A 423 6.32e-01 1ee4A a.118.1.1 19128 1xx4A 261 1.10e+00 1yv5A 374 1.73e+00 2f7fA 494 2.05e+00 1eljA 381 2.05e+00 4mbp c.94.1.1 35791 1yq7A 374 2.23e+00 1tr9A 341 2.41e+00 1ayl 541 2.84e+00 1ayl c.91.1.1,c.109.1.1 64718,64719 1cm5A 759 3.21e+00 1cm5A c.7.1.1 30671 1a8i 842 3.44e+00 1a8i c.87.1.4 35490 1geqA 248 3.45e+00 2tysA c.1.2.4 28589 1k3yA 221 3.80e+00 a.45.1.1,c.47.1.5 77245,77246 1t35A 191 3.96e+00 c.129.1.1 99108 1h5uA 842 4.07e+00 1a8i c.87.1.4 60655 1wixA 164 4.34e+00 2azjA 289 4.81e+00 1h16A 759 5.05e+00 c.7.1.1 76462 1ug3A 339 5.23e+00 1uk5A 111 6.67e+00 a.7.7.1 99487 1lw7A 365 6.80e+00 c.26.1.3,c.37.1.1 74295,74296 1omrA 201 7.00e+00 a.39.1.5 93349 1qgrA 876 7.30e+00 1qgrA a.118.1.1 19119 1ykuA 136 7.45e+00 1dciA 275 7.60e+00 1dciA c.14.1.3 30918 1j0fA 100 7.85e+00 c.47.1.14 90739 1edg 380 8.12e+00 1edg c.1.8.3 28807 1t1vA 93 8.18e+00 c.47.1.14 106278 1yozA 116 8.33e+00 2fbmA 291 8.41e+00 1r89A 437 8.88e+00 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1y3nA 490 9.33e+00 1bf5A 545 1.00e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1cy9A 264 1.08e+01 1ecl e.10.1.1 43236 1ymmB 198 1.11e+01 2c5qA 240 1.14e+01 1rec 201 1.15e+01 1rec a.39.1.5 17326 1ngnA 155 1.17e+01 a.96.1.2 85697 2f94F 350 1.20e+01 1v37A 177 1.23e+01 2a0mA 316 1.40e+01 1zrzA 364 1.42e+01 1lvwA 295 1.46e+01 c.68.1.6 84723 1h7sA 365 1.47e+01 d.14.1.3,d.122.1.2 65705,65706 2g8yA 385 1.48e+01 1aop 497 1.50e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 2fe7A 166 1.55e+01 1xhdA 173 1.58e+01 1ofuA 320 1.63e+01 c.32.1.1,d.79.2.1 86972,86973 1f3aA 222 1.65e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1m4iA 181 1.66e+01 d.108.1.1 74457 1ibrB 462 1.66e+01 1qgrA a.118.1.1 19120 2fqxA 318 1.68e+01 1f74A 293 1.81e+01 1nal3 c.1.10.1 29079 1n08A 163 1.87e+01 b.43.5.1 79730 1uu3A 310 1.88e+01 d.144.1.7 99999 1rxwA 336 1.94e+01 a.60.7.1,c.120.1.2 98059,98060 2d0tA 406 1.96e+01 2lhb 149 1.99e+01 2fal a.1.1.2 15597 1deeG 54 2.03e+01 1fc2C a.8.1.1 16343 1mnaA 298 2.05e+01 c.69.1.22 79322 1wljA 189 2.10e+01 1zin 217 2.14e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1t6jA 714 2.19e+01 1wozA 177 2.19e+01 2f2gA 221 2.21e+01 1mrzA 293 2.31e+01 b.43.5.1,c.26.1.3 91452,91453 1ylhA 560 2.33e+01 1s72X 92 2.45e+01 d.29.1.1 105343 1jj2W 91 2.45e+01 1ffkU d.29.1.1 63108 1evyA 366 2.45e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1lopA 164 2.47e+01 2cpl b.62.1.1 27510 1xmbA 418 2.47e+01 1ii7A 333 2.50e+01 1ii7A d.159.1.4 62415 1mwyA 73 2.52e+01 d.58.17.1 79616 1q4mA 221 2.60e+01 a.132.1.3 95805 1vqoX 92 2.63e+01 2dkaA 544 2.64e+01 1ir3A 306 2.65e+01 1fmk d.144.1.7 41702 1yz7A 188 2.68e+01 1hx0A 496 2.72e+01 b.71.1.1,c.1.8.1 61346,61347 1ez3A 127 2.72e+01 1dn1B a.47.2.1 17768 1v7pC 200 2.78e+01 c.62.1.1 108408 1qgiA 259 2.92e+01 1qgiA d.2.1.7 37001 1mp9A 198 2.93e+01 d.129.1.1,d.129.1.1 91385,91386 1sc6A 404 3.12e+01 1tuwA 109 3.14e+01 d.58.4.8 107346 3tmkA 216 3.15e+01 3tmkA c.37.1.1 31920 1dd9A 338 3.19e+01 1dd9A e.13.1.1 43254 1vjqA 79 3.19e+01 k.43.1.1 100830 1wz7A 111 3.21e+01 1xb4A 202 3.24e+01 1dv1A 449 3.26e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1i2sA 282 3.31e+01 e.3.1.1 71104 1qahA 136 3.31e+01 d.79.1.1 96338 1vf1A 229 3.31e+01 1esiA 262 3.32e+01 1skf e.3.1.1 42682 1sg4A 260 3.34e+01 1eu8A 409 3.36e+01 1eu8A c.94.1.1 59502 1w9gA 104 3.37e+01 1k66A 149 3.37e+01 c.23.1.1 90941 1dfoA 417 3.39e+01 1bj4A c.67.1.4 34480 1zbsA 291 3.44e+01 1z2lA 423 3.46e+01 1ieaB 228 3.52e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 1p99A 295 3.59e+01 c.94.1.1 94384 2ilk 160 3.63e+01 2ilk a.26.1.3 16885 1wovA 250 3.64e+01 1h1wA 289 3.64e+01 d.144.1.7 83460 1a0cA 438 3.67e+01 1a0cA c.1.15.3 29529 1nz0A 118 3.67e+01 d.14.1.2 86433 1qb7A 236 3.69e+01 1qb7A c.61.1.1 34087 1oxjA 173 3.72e+01 a.60.1.2,a.118.1.13 87517,87518 1ps1A 337 3.75e+01 1ps1A a.128.1.4 19450 1dvjA 246 3.82e+01 1dvjA c.1.2.3 28546 1eca 136 3.88e+01 1flp a.1.1.2 15209 1f6dA 376 3.88e+01 1f6dA c.87.1.3 35467 1e5dA 402 3.98e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 2f6mB 109 3.98e+01 1nxuA 333 4.01e+01 c.122.1.1 86389 1lj2A 110 4.03e+01 h.1.13.2 73926 2fuvA 549 4.03e+01 1s5aA 150 4.09e+01 d.17.4.10 98525 2csbA 519 4.12e+01 1o69A 394 4.14e+01 c.67.1.4 92560 1t7lA 766 4.16e+01 2a74C 343 4.16e+01 2exrA 524 4.19e+01 1smd 496 4.24e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1es5A 262 4.24e+01 1skf e.3.1.1 42679 1zpdA 568 4.25e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1na6A 404 4.29e+01 b.142.1.1,c.52.1.22 91748,91749 1dmlA 319 4.31e+01 1dmlA d.131.1.2,d.131.1.2 41380,41381 1qusA 322 4.31e+01 1ltm d.2.1.6 36991 1oi0A 124 4.32e+01 c.97.3.1 93045 1vljA 407 4.44e+01 e.22.1.2 108832 2a9kB 223 4.49e+01 2a5yB 549 4.57e+01 2bnlA 136 4.58e+01 2fw2A 260 4.70e+01 1gtmA 419 4.77e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1r0pA 312 4.82e+01 d.144.1.7 96734 1fr2B 134 4.88e+01 d.4.1.1 83257 2ganA 190 4.88e+01 1w0hA 204 4.90e+01 1zip 217 4.96e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1g6hA 257 4.98e+01 1gajA c.37.1.12 60318 1r9kA 172 4.99e+01 a.168.1.1 104869 1t94A 459 5.00e+01 d.240.1.1,e.8.1.7 106701,106702 1rqjA 299 5.01e+01 a.128.1.1 97744 1faaA 124 5.04e+01 1erv c.47.1.1 32738 4blmA 265 5.06e+01 1btl e.3.1.1 42721 1x6mA 196 5.11e+01 1qmvA 197 5.20e+01 1qq2A c.47.1.10 33066 1xocA 520 5.21e+01 1ng6A 148 5.26e+01 a.182.1.1 85670 1g5hA 454 5.30e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1ne9A 335 5.30e+01 d.108.1.4,d.108.1.4 91839,91840 1ezfA 340 5.32e+01 1ezfA a.128.1.2 19440 1xrkA 124 5.38e+01 1tvlA 454 5.43e+01 c.1.16.4 107366 2dorA 311 5.46e+01 2dorA c.1.4.1 28593 1atiA 505 5.47e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1uzeA 589 5.48e+01 d.92.1.5 108174 1q1vA 70 5.51e+01 a.159.4.1 104479 1lngA 87 5.53e+01 d.201.1.1 74045 2czdA 208 5.54e+01 1spgB 147 5.58e+01 1cg5B a.1.1.2 15588 1dorA 311 5.60e+01 2dorA c.1.4.1 28595 2bg5A 324 5.69e+01 1emvB 134 5.72e+01 1bxiB d.4.1.1 37135 1fnoA 417 5.76e+01 d.58.19.1,c.56.5.4 70145,75841 2bxkA 585 5.78e+01 1oniA 137 5.78e+01 d.79.1.1 87144 2akoA 251 5.82e+01 1qc7A 101 5.83e+01 1qc7A a.118.14.1 18456 4ubpA 101 5.88e+01 1ubpA d.8.1.1 37352 1ju2A 536 5.89e+01 c.3.1.2,d.16.1.1 77169,77170 1t3qC 288 5.90e+01 d.87.2.1,d.145.1.3 106371,106372 1d2nA 272 6.02e+01 1d2nA c.37.1.20 32428 2c5uA 375 6.04e+01 1wmuB 146 6.05e+01 a.1.1.2 109417 1syyA 346 6.08e+01 a.25.1.2 106126 1f2tB 148 6.09e+01 1f2tB 1goiA 499 6.13e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 2be4A 272 6.15e+01 1fezA 256 6.17e+01 1fezA c.108.1.3 43343 1y2mA 716 6.20e+01 2fflA 756 6.21e+01 1fvrA 327 6.29e+01 d.144.1.7 60047 1yrbA 262 6.29e+01 2bdeA 470 6.34e+01 1uby 367 6.40e+01 1uby a.128.1.1 19435 1wmaA 276 6.43e+01 1oj7A 408 6.47e+01 e.22.1.2 103971 2c07A 285 6.53e+01 2bznA 351 6.56e+01 1y6nL 145 6.62e+01 1e7aA 585 6.67e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19360,19361,19362 1qopA 268 6.67e+01 2tysA c.1.2.4 28570 1qsdA 106 6.70e+01 1qsdA a.7.5.1 16335 1e6pA 499 6.71e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 1xm7A 195 6.77e+01 1g2nA 264 6.80e+01 1lbd a.123.1.1 60227 1r9jA 673 6.85e+01 1lucB 324 6.90e+01 1lucA c.1.16.1 29548 1vhcA 224 6.93e+01 c.1.10.1 100661 1n8vA 112 7.03e+01 a.118.21.1 85457 1psdA 409 7.04e+01 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 2fueA 262 7.05e+01 1or4A 178 7.08e+01 a.1.1.2 93447 1f9aA 168 7.08e+01 1f9aA c.26.1.3 31602 1o86A 589 7.08e+01 d.92.1.5 81177 1keyA 235 7.10e+01 a.118.16.1 72389 1w2yA 229 7.11e+01 a.204.1.1 109140 1a7tA 232 7.11e+01 1a7tA d.157.1.1 42041 1dptA 117 7.18e+01 1dptA d.80.1.3 39862 1cfzA 162 7.26e+01 1cfzA c.56.1.1 33754 2bk9A 153 7.30e+01 1n5uA 585 7.38e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 2bmaA 470 7.41e+01 1vkwA 218 7.50e+01 d.90.1.2 108695 3xis 387 7.53e+01 4xis c.1.15.3 29423 1vixA 420 7.56e+01 c.56.5.4,d.58.19.1 100777,100778 1wehA 171 7.56e+01 1o97C 264 7.56e+01 c.26.2.3 81232 1zhhB 242 7.56e+01 1cc1S 283 7.56e+01 2frvA e.19.1.1 43313 1nbuA 119 7.58e+01 d.96.1.3 91767 1ib2A 349 7.59e+01 1ib2A a.118.1.8 62141 1whuA 104 7.60e+01 1dc1A 323 7.61e+01 1dc1A c.52.1.11 33321 1ikpA 613 7.61e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1s2wA 295 7.63e+01 c.1.12.7 98407 1h0hB 214 7.66e+01 d.58.1.5 76437 1s96A 219 7.70e+01 c.37.1.1 98740 1je0A 236 7.74e+01 c.56.2.1 66581 2beiA 170 7.78e+01 2gefA 217 7.79e+01 1utxA 66 7.97e+01 a.35.1.3 108034 2ac3A 316 8.02e+01 1rqlA 267 8.04e+01 c.108.1.3 97750 1tidB 119 8.04e+01 c.13.2.1 107000 1q2lA 939 8.04e+01 1ignA 246 8.08e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1korA 400 8.12e+01 c.26.2.1,d.210.1.1 72824,72825 1ywmA 200 8.17e+01 1wqaA 455 8.25e+01 1k68A 140 8.27e+01 c.23.1.1 90943 4xis 387 8.36e+01 4xis c.1.15.3 29421 2av9A 147 8.36e+01 1nm2A 317 8.49e+01 c.19.1.1,d.58.23.1 80654,80655 1gg4A 452 8.53e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1w36D 608 8.60e+01 1cvrA 435 8.62e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1h1yA 228 8.63e+01 c.1.2.2 76506 1pzlA 237 8.73e+01 a.123.1.1 104393 1n45A 233 8.77e+01 a.132.1.1 79981 1iioA 84 8.77e+01 a.39.4.1 66150 1qtoA 122 8.78e+01 1bylA d.32.1.2 38494 2cx9A 387 8.80e+01 1a48 306 8.80e+01 1a48 d.143.1.1 41590 1obdA 306 8.84e+01 d.143.1.1 86767 1lf7A 182 8.91e+01 b.60.1.1 73878 1hv9A 456 8.92e+01 1fwyA b.81.1.4,c.68.1.5 28060,34518 1jubA 311 8.92e+01 c.1.4.1 90908 1q32A 544 8.95e+01 d.136.1.3,d.136.1.3 104507,104508 2d29A 387 8.97e+01