# 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 1omwA 689 7.19e-01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1v4eA 299 9.03e-01 a.128.1.1 100296 1f45B 197 9.31e-01 1f45B a.26.1.1 59642 1ciy 590 1.13e+00 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1b3uA 588 1.23e+00 1b3uA a.118.1.2 19135 1gcb 454 1.39e+00 3gcb d.3.1.1 37034 3gcb 470 1.42e+00 3gcb d.3.1.1 37032 2fbnA 198 1.47e+00 2aelA 374 2.02e+00 1w33A 181 2.16e+00 1de4C 640 2.22e+00 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 2grrB 170 2.31e+00 2dfkA 402 2.44e+00 1oxjA 173 2.65e+00 a.60.1.2,a.118.1.13 87517,87518 1ow4A 129 3.12e+00 a.39.2.1 93628 2a72A 146 3.32e+00 1kiyA 374 3.33e+00 a.128.1.5 72555 1ewqA 765 3.43e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1yyqA 374 3.76e+00 1m32A 366 4.21e+00 c.67.1.3 78508 1z5hA 780 4.30e+00 1ecmA 109 4.33e+00 1ecmA a.130.1.1 19492 2gyqA 175 4.45e+00 1rtwA 220 4.76e+00 a.132.1.3 97823 1zgyA 272 4.89e+00 1ylmA 144 4.91e+00 1huxA 270 5.19e+00 1huxA c.55.1.5 61278 1x1nA 524 5.79e+00 1y1xA 191 6.73e+00 1vkeA 133 6.85e+00 a.152.1.2 108650 2ahqA 76 7.75e+00 1h3qA 140 7.87e+00 d.110.4.3 76652 1ybdA 239 7.96e+00 1rxqA 178 8.13e+00 a.213.1.1 105118 1i5nA 146 8.24e+00 1i5nA a.24.10.3 61805 1wn0A 145 8.28e+00 1e7lA 157 8.37e+00 1en7A a.140.4.1,d.4.1.5 64728,64729 2akaB 299 8.54e+00 2azjA 289 8.69e+00 1t3wA 148 9.02e+00 2al6A 375 9.78e+00 1rw6A 210 9.96e+00 a.47.4.1 105113 1e2uA 553 9.96e+00 1e1dA e.26.1.1 43362 1gntA 553 1.01e+01 e.26.1.1 70290 1iw0A 215 1.03e+01 a.132.1.1 83720 2etdA 171 1.05e+01 1ofcX 304 1.07e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1wzdA 215 1.07e+01 1vkmA 297 1.14e+01 c.138.1.1 108670 1zbqA 327 1.17e+01 1wtyA 119 1.20e+01 1aisB 200 1.22e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1nu7D 282 1.30e+01 a.8.6.1,a.8.6.1 92191,92192 1mkiA 330 1.32e+01 e.3.1.2 84994 1dowA 205 1.32e+01 1dovA a.24.9.1 16626 1m70A 190 1.36e+01 a.3.1.4,a.3.1.4 91200,91201 1keyA 235 1.37e+01 a.118.16.1 72389 1au1A 166 1.37e+01 1ifa a.26.1.3 16889 2gnoA 305 1.38e+01 1sz9A 144 1.41e+01 a.118.9.4 106139 1l5jA 865 1.46e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1b9uA 34 1.46e+01 1b9uA j.35.1.1 46260 2a6lA 292 1.47e+01 2a6nA 292 1.47e+01 2gdqA 382 1.47e+01 2ap3A 199 1.48e+01 2b2hA 399 1.48e+01 1yxcA 292 1.50e+01 2b67A 204 1.53e+01 1sumB 235 1.54e+01 a.7.12.1 106025 1zb1A 392 1.55e+01 1q5nA 454 1.56e+01 a.127.1.1 95901 1fm9D 272 1.56e+01 2prgA a.123.1.1 19313 1dhpA 292 1.57e+01 1dhpA c.1.10.1 29097 1g7oA 215 1.63e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1j1iA 296 1.64e+01 c.69.1.10 83977 1pv9A 348 1.67e+01 c.55.2.1,d.127.1.1 95157,95158 1ry6A 360 1.69e+01 c.37.1.9 98090 2db0A 253 1.71e+01 1g60A 260 1.73e+01 c.66.1.11 70151 1e3pA 757 1.73e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 2aehA 369 1.78e+01 1hx1B 114 1.87e+01 1hx1B a.7.7.1 61350 1htjF 210 1.87e+01 1htjF a.91.1.1 61254 1rcwA 231 1.91e+01 a.132.1.4 97299 1f60A 458 1.97e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1t06A 235 2.10e+01 a.118.1.17 106194 2fx0A 201 2.12e+01 1foeA 377 2.24e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1s9pA 227 2.27e+01 a.123.1.1 105384 1k8kA 418 2.29e+01 c.55.1.1,c.55.1.1 68305,68306 2a1dD 329 2.30e+01 1b5pA 385 2.30e+01 c.67.1.1 90403 1ej2A 181 2.32e+01 1f9aA c.26.1.3 59414 1wdcC 156 2.34e+01 1wdcC a.39.1.5 17317 1oglA 283 2.36e+01 a.204.1.1 92922 2azqA 311 2.37e+01 2fs3A 282 2.44e+01 1xx6A 191 2.45e+01 1dmtA 696 2.48e+01 1dmtA d.92.1.4 40296 1orsC 132 2.49e+01 f.14.1.1 87353 1po5A 476 2.53e+01 a.104.1.1 94963 1b25A 619 2.53e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1m8jA 181 2.57e+01 c.26.1.3 84875 1ll2A 333 2.60e+01 c.68.1.14 74005 1bjwA 382 2.61e+01 1bjwA c.67.1.1 34349 1q4mA 221 2.67e+01 a.132.1.3 95805 3grs 478 2.69e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1wdgA 94 2.71e+01 h.3.3.1 109248 1jfbA 404 2.72e+01 a.104.1.1 66624 1jqnA 883 2.73e+01 c.1.12.3 77159 1umdA 367 2.76e+01 c.36.1.11 99599 2beqA 38 2.78e+01 1q8fA 313 2.79e+01 c.70.1.1 96203 1k1xA 659 2.80e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 2c6cA 707 2.83e+01 1ohgA 282 2.84e+01 d.183.1.1 93018 1nc5A 373 2.88e+01 a.102.1.6 85548 1vm8A 534 3.01e+01 1f24A 402 3.04e+01 1rom a.104.1.1 18953 1ash 150 3.07e+01 1ash a.1.1.2 15622 1uw4B 248 3.08e+01 a.118.1.14 100072 1mo9A 523 3.13e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1ug3A 339 3.16e+01 1e85A 127 3.27e+01 1bbhA a.24.3.2 16549 1lqtA 456 3.31e+01 c.3.1.1,c.4.1.1 74198,74199 1tafA 68 3.37e+01 1tafA a.22.1.3 16481 2f2gA 221 3.42e+01 1ka2A 499 3.44e+01 d.92.1.5 77305 1u00A 227 3.45e+01 1uq5A 263 3.49e+01 d.165.1.1 99778 1t9kA 347 3.51e+01 c.124.1.5 106721 1r1hA 696 3.52e+01 d.92.1.4 104756 1cs0A 1073 3.53e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1t56A 216 3.53e+01 a.4.1.9,a.121.1.1 106428,106429 1kpsB 171 3.55e+01 a.118.12.1 68787 1lehA 364 3.57e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1a9xA 1058 3.59e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 2bptA 861 3.65e+01 1kn1B 161 3.70e+01 a.1.1.3 77456 1wmwA 330 3.70e+01 1oaoC 729 3.72e+01 e.26.1.3 86746 1pprM 312 3.73e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1ift 263 3.74e+01 1mrj d.165.1.1 42211 1vf1A 229 3.78e+01 2ge3A 170 3.79e+01 2cw9A 194 3.84e+01 1y7yA 74 3.87e+01 2chnA 716 3.88e+01 1fiy 883 3.99e+01 1fiy c.1.12.3 29307 2b1eA 564 3.99e+01 1i74A 309 3.99e+01 1i74A c.107.1.1 61867 1oohA 126 3.99e+01 a.39.2.1 93383 1nrlA 316 3.99e+01 a.123.1.1 92091 1dc1A 323 4.01e+01 1dc1A c.52.1.11 33321 1qgrA 876 4.07e+01 1qgrA a.118.1.1 19119 1dz4A 414 4.13e+01 1phd a.104.1.1 18903 1wy2A 351 4.13e+01 2ew2A 316 4.14e+01 1x3kA 152 4.17e+01 1sa3A 262 4.18e+01 c.52.1.23 105400 1zl8A 53 4.24e+01 1u7lA 392 4.24e+01 1hz4A 373 4.26e+01 a.118.8.2 65960 1wmiA 90 4.30e+01 1ej5A 107 4.31e+01 1ej5A a.68.1.1 18268 1vgoA 253 4.39e+01 1oyzA 280 4.40e+01 a.118.1.16 93775 1dik 874 4.41e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1zs3A 182 4.42e+01 1ass 159 4.50e+01 1a6dA c.8.5.2 30818 1ji6A 589 4.53e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1rxwA 336 4.56e+01 a.60.7.1,c.120.1.2 98059,98060 1j9bA 141 4.57e+01 c.47.1.12 66459 2choA 716 4.59e+01 1rp4A 389 4.59e+01 a.227.1.1 105027 1s3cA 141 4.59e+01 1qgtA 149 4.77e+01 1qgtA a.62.1.1 18135 1re9A 414 4.81e+01 1v7bA 185 4.86e+01 1bvoA 175 4.87e+01 1a3qA b.2.5.3 22457 1n40A 396 4.91e+01 a.104.1.1 79977 1yovA 537 4.92e+01 1t94A 459 4.92e+01 d.240.1.1,e.8.1.7 106701,106702 1y74A 57 4.93e+01 2bkrA 212 5.05e+01 1mtyB 384 5.06e+01 1mtyB a.25.1.2 16740 1myt 146 5.08e+01 1a6m a.1.1.2 15207 1zu4A 320 5.08e+01 2fnaA 357 5.08e+01 1fh6A 282 5.11e+01 1fh6A 1x46A 150 5.23e+01 1bu7A 455 5.27e+01 1bu7A a.104.1.1 18937 1l3lA 234 5.33e+01 a.4.6.2,d.110.5.1 73541,73542 1jr5A 90 5.35e+01 a.150.1.1 67113 1qmqA 414 5.44e+01 1phd a.104.1.1 18907 1n46A 258 5.48e+01 a.123.1.1 85315 1fkmA 396 5.49e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1xfrA 128 5.51e+01 1x9mA 698 5.59e+01 1w5fA 353 5.62e+01 1uf2C 421 5.67e+01 a.115.1.3,b.19.1.1 99291,99292 1unlD 208 5.68e+01 1ykuA 136 5.69e+01 1gkpA 458 5.79e+01 b.92.1.3,c.1.9.6 70231,70232 1i3dA 146 5.81e+01 a.1.1.2 61587 1t7pA 698 5.82e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 1em9A 154 5.82e+01 1d1dA a.73.1.1 18333 1lw9A 164 5.86e+01 d.2.1.3 84727 1u7gA 385 5.88e+01 f.44.1.1 107723 1jpzA 473 5.93e+01 a.104.1.1 67069 1je8A 82 6.07e+01 a.4.6.2 77108 1h3nA 878 6.09e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 2au3A 407 6.10e+01 1siqA 392 6.11e+01 a.29.3.1,e.6.1.1 105585,105586 1hyp 80 6.13e+01 1hyp a.52.1.1 17806 1l1eA 287 6.14e+01 c.66.1.18 73454 1pz1A 333 6.21e+01 c.1.7.1 95390 1heiA 451 6.24e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1vf6C 72 6.25e+01 a.194.1.1 100602 1yt3A 375 6.25e+01 1paqA 189 6.27e+01 a.118.1.14 94413 1h2sB 60 6.31e+01 f.13.1.1 76579 1fftC 204 6.35e+01 1fftC f.25.1.1 43629 1e5rA 290 6.36e+01 1e5rA b.82.2.4 59276 1zcdA 388 6.45e+01 2bk9A 153 6.49e+01 1qv9A 283 6.60e+01 c.127.1.1 96356 1hu3A 260 6.60e+01 1hu3A a.118.1.14 19137 1wusA 180 6.64e+01 1rtxA 123 6.64e+01 a.1.1.1 97827 1xsvA 113 6.65e+01 1fjlA 81 6.66e+01 2hddA a.4.1.1 16017 1wlmA 151 6.77e+01 2bb6A 414 6.80e+01 1y7lA 316 6.82e+01 1gdoA 240 6.93e+01 1gdoA 1tu9A 134 6.93e+01 a.1.1.2 107320 1iv8A 720 6.95e+01 b.71.1.1,c.1.8.1 76842,76843 1zvzA 279 6.96e+01 1o08A 221 6.96e+01 c.108.1.6 86525 1xffA 240 6.98e+01 d.153.1.1 109580 1iomA 377 6.98e+01 a.103.1.1 83698 1ie9A 259 6.99e+01 1db1A a.123.1.1 62318 1csh 435 7.04e+01 1csh a.103.1.1 18880 1j1jA 240 7.08e+01 a.118.16.1 90762 1wudA 89 7.13e+01 2awiA 317 7.17e+01 2gb7A 305 7.17e+01 1yi8A 351 7.18e+01 1mixA 206 7.19e+01 a.11.2.1,b.55.1.5 79166,79167 2bl0C 142 7.21e+01 1yrcA 414 7.22e+01 1ub0A 258 7.26e+01 c.72.1.2 88394 1jysA 242 7.31e+01 c.56.2.1 77216 1xjzA 233 7.35e+01 1mg7A 417 7.40e+01 d.14.1.6,d.58.26.6 84954,84955 1ovlA 271 7.44e+01 a.123.1.1 87455 1k47A 337 7.48e+01 d.14.1.5,d.58.26.4 72040,72041 1syyA 346 7.55e+01 a.25.1.2 106126 1rr7A 129 7.56e+01 a.4.1.14 105075 119l 164 7.58e+01 1l92 d.2.1.3 36622 1dmhA 311 7.64e+01 1dmhA b.3.6.1 22633 2absA 383 7.72e+01 1jbbA 153 7.75e+01 1u9aA d.20.1.1 62842 2hbg 147 7.80e+01 2hbg a.1.1.2 15014 1p36A 164 7.80e+01 d.2.1.3 93978 1r8eA 278 7.88e+01 a.6.1.3,d.60.1.1 104843,104844 1in6A 334 7.92e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1in4A 334 7.94e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 2ffeA 311 7.94e+01 1px5A 349 7.97e+01 a.160.1.2,d.218.1.6 95277,95278 1wy1A 172 8.10e+01 1lvfA 110 8.15e+01 a.47.2.1 74280 1io7A 368 8.21e+01 1f4tA a.104.1.1 18971 1zejA 293 8.26e+01 2masA 314 8.27e+01 2masA c.70.1.1 34810 1x52A 124 8.33e+01 1eg3A 261 8.39e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1wddA 477 8.40e+01 1db1A 259 8.43e+01 1db1A a.123.1.1 19329 1z77A 200 8.46e+01 1j0aA 325 8.48e+01 c.79.1.1 83871 1vfgA 390 8.48e+01 a.173.1.1,d.218.1.4 108570,108571 1zmbA 290 8.48e+01 1np3A 338 8.54e+01 a.100.1.2,c.2.1.6 85946,85947 1yv5A 374 8.56e+01 1yf2A 425 8.56e+01 1zp4A 304 8.57e+01 1colA 204 8.59e+01 1a87 f.1.1.1 43378 1f5nA 592 8.64e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 2akzA 439 8.67e+01 2bvfA 459 8.68e+01 1r6fA 310 8.74e+01 e.46.1.1 97149 1lylA 504 8.78e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1q68B 29 8.80e+01 j.108.1.1 95963 1gg1A 350 8.82e+01 1qr7A c.1.10.4 29187 2bfxA 284 8.83e+01 2gmyA 153 8.83e+01 1yuzA 202 8.86e+01 2astA 159 8.90e+01 1vkcA 158 8.91e+01 2g7lA 243 8.93e+01 1uekA 275 8.99e+01 d.14.1.5,d.58.26.5 88483,88484