# List of top-scoring protein chains for t06-100-30-dssp-ehl2-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 2gnoA 305 1.95e-01 1uanA 227 4.27e-01 c.134.1.1 99135 1vbuA 328 7.26e-01 1brwA 433 9.71e-01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1xyzA 347 1.10e+00 1taxA c.1.8.3 28804 1pdo 135 1.54e+00 1pdo c.54.1.1 33376 1gtzA 156 1.56e+00 c.23.13.1 70539 1fzqA 181 1.78e+00 1hurA c.37.1.8 32060 1lzlA 323 1.91e+00 c.69.1.2 78306 1uqrA 154 1.97e+00 c.23.13.1 99779 1hkhA 279 2.24e+00 c.69.1.12 90628 1pujA 282 2.30e+00 c.37.1.8 88294 1jl3A 139 2.50e+00 c.44.1.1 66826 2f5xA 312 2.54e+00 2aq4A 434 2.89e+00 1m1nA 491 3.04e+00 c.92.2.3 78417 1mw9X 592 3.50e+00 e.10.1.1 91480 1pii 452 3.54e+00 1pii c.1.2.4,c.1.2.4 28559,28563 2d2eA 250 3.59e+00 1bn7A 294 3.67e+00 1bn6A c.69.1.8 34677 2pth 193 3.69e+00 2pth c.56.3.1 33793 1h05A 146 3.77e+00 c.23.13.1 76433 1khtA 192 3.89e+00 c.37.1.1 84401 1uqtA 482 3.90e+00 c.87.1.6 99794 1zp4A 304 4.02e+00 1u2zA 433 4.12e+00 c.66.1.31 107626 2bjvA 265 4.25e+00 1vplA 256 4.40e+00 1d3vA 323 4.65e+00 1d3vA c.42.1.1 32559 1zbqA 327 4.69e+00 1w36B 1180 5.00e+00 2absA 383 5.28e+00 2b0tA 738 5.44e+00 1sqsA 242 6.04e+00 c.23.5.5 98968 1kv5A 250 6.14e+00 c.1.1.1 73052 2b0lA 102 6.21e+00 1vdkA 466 6.90e+00 a.127.1.1 100561 1tuaA 191 6.96e+00 d.51.1.1,d.51.1.1 107321,107322 1tv8A 340 8.43e+00 c.1.28.3 107352 1zavA 180 9.74e+00 1r31A 428 9.79e+00 d.58.20.1,d.179.1.1 96897,96898 1y5eA 169 1.01e+01 2fcr 173 1.02e+01 1rcf c.23.5.1 31151 1ki9A 192 1.03e+01 c.37.1.1 84404 1km4A 247 1.06e+01 c.1.2.3 72740 1u9iA 519 1.06e+01 1oltA 457 1.06e+01 c.1.28.2 93334 1wozA 177 1.12e+01 1x1zA 252 1.14e+01 1gudA 288 1.15e+01 c.93.1.1 83326 1jksA 294 1.15e+01 d.144.1.7 71710 1ja1A 622 1.18e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1vpdA 299 1.19e+01 2cmuA 342 1.23e+01 1x9iA 302 1.25e+01 1e4yA 214 1.27e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1ywfA 296 1.27e+01 2dri 271 1.27e+01 2dri c.93.1.1 35637 1wwkA 307 1.31e+01 2aebA 322 1.31e+01 1g8lA 411 1.32e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1wxiA 275 1.37e+01 2c1lA 358 1.37e+01 1q9uA 130 1.39e+01 d.129.7.1 96314 1nswA 105 1.39e+01 c.47.1.1 92097 2bsxA 253 1.40e+01 1g8pA 350 1.43e+01 1g8pA c.37.1.20 60376 1kkhA 317 1.44e+01 d.14.1.5,d.58.26.3 72645,72646 1x72A 334 1.45e+01 d.126.1.6 109495 2b7kA 200 1.46e+01 1rmwA 212 1.46e+01 2b82A 211 1.48e+01 2a0b 125 1.52e+01 2a0b a.24.10.1 16630 1r8sA 164 1.53e+01 c.37.1.8 97247 2czdA 208 1.58e+01 1c93A 265 1.58e+01 2ebn c.1.8.5 28998 1edt 271 1.59e+01 2ebn c.1.8.5 28993 1uz5A 402 1.59e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1f74A 293 1.61e+01 1nal3 c.1.10.1 29079 1xr4A 509 1.72e+01 1o60A 292 1.75e+01 c.1.10.4 92532 1qf9A 194 1.75e+01 1zin c.37.1.1 31848 1gq6A 313 1.75e+01 c.42.1.1 70341 1o58A 303 1.79e+01 c.79.1.1 92491 2asbA 251 1.79e+01 1m5q1 130 1.79e+01 1v93A 296 1.88e+01 c.1.23.1 100532 1quuA 250 1.89e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 2agaA 190 1.94e+01 1fh9A 312 1.94e+01 1taxA c.1.8.3 28913 1ej0A 180 1.96e+01 1ej0A c.66.1.2 34179 1va4A 279 1.99e+01 c.69.1.12 108458 1x38A 602 1.99e+01 1qv9A 283 2.03e+01 c.127.1.1 96356 1mr3F 181 2.07e+01 c.37.1.8 79422 1dkuA 317 2.07e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1j4aA 333 2.07e+01 c.2.1.4,c.23.12.1 71502,71503 1kamA 194 2.10e+01 c.26.1.3 72254 1z41A 338 2.11e+01 1vhwA 253 2.15e+01 c.56.2.1 100706 2fuvA 549 2.18e+01 1j0dA 341 2.18e+01 c.79.1.1 83902 1o4vA 183 2.21e+01 c.23.8.1 86628 1ituA 369 2.23e+01 c.1.9.7 71423 1jkmB 361 2.24e+01 1jkmA c.69.1.2 34634 1y0yA 353 2.25e+01 1sb8A 352 2.26e+01 c.2.1.2 105410 2b06A 155 2.28e+01 1pyfA 312 2.30e+01 c.1.7.1 95334 1n82A 331 2.31e+01 c.1.8.3 91703 1a4iA 301 2.32e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1xm3A 264 2.33e+01 1hqkA 154 2.34e+01 c.16.1.1 65902 1ir6A 424 2.40e+01 c.107.1.2 71342 1r3dA 264 2.49e+01 1h3fA 432 2.54e+01 c.26.1.1,d.66.1.4 76631,76632 1l4uA 176 2.55e+01 c.37.1.2 73568 2btzA 394 2.58e+01 1squA 155 2.58e+01 d.252.1.1 98971 1u9yA 284 2.59e+01 1o3yA 166 2.66e+01 c.37.1.8 86618 1y42X 392 2.66e+01 2c6cA 707 2.68e+01 1i6pA 220 2.76e+01 1ddzA c.53.2.1 61848 2trcP 217 2.83e+01 1b9yC c.47.1.6 33051 1ihoA 283 2.86e+01 1ihoA c.26.1.4 62390 1iow 306 2.91e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1w0dA 337 2.91e+01 8abp 306 2.92e+01 8abp c.93.1.1 35647 1sc6A 404 2.96e+01 1zxxA 319 2.97e+01 1uuyA 167 3.01e+01 c.57.1.1 108059 1brt 277 3.01e+01 1brt c.69.1.12 34699 2tpt 440 3.07e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1nnsA 326 3.08e+01 c.88.1.1 85910 2fvgA 340 3.12e+01 1gp6A 356 3.24e+01 b.82.2.1 65441 1yz7A 188 3.32e+01 1x7yB 342 3.35e+01 1nq6A 302 3.37e+01 c.1.8.3 92046 1hf8A 289 3.39e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 2c6qA 351 3.40e+01 1z15A 344 3.41e+01 1tc5A 194 3.44e+01 c.110.1.1 106752 1yueA 427 3.45e+01 1z83A 196 3.47e+01 1uwkA 557 3.52e+01 e.51.1.1 108065 1n9lA 109 3.53e+01 d.110.3.6 85468 16pk 415 3.53e+01 16pk c.86.1.1 35454 1b0uA 262 3.60e+01 1b0uA c.37.1.12 32370 1shuX 182 3.61e+01 c.62.1.1 98882 1fnnA 389 3.63e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1xppA 115 3.67e+01 1w44A 331 3.68e+01 1np7A 489 3.68e+01 a.99.1.1,c.28.1.1 80677,80678 2gjlA 328 3.68e+01 2d13A 227 3.69e+01 2a2fX 325 3.69e+01 3gcb 470 3.69e+01 3gcb d.3.1.1 37032 1rhcA 330 3.70e+01 c.1.16.3 97468 1sf8A 126 3.71e+01 d.271.1.1 105472 2bvlA 543 3.75e+01 1to6A 371 3.75e+01 c.141.1.1 107170 2plc 274 3.75e+01 2plc c.1.18.2 29614 1s62A 106 3.77e+01 1p0kA 349 3.85e+01 c.1.4.1 87648 1nc5A 373 3.85e+01 a.102.1.6 85548 2abqA 306 3.89e+01 1p5vB 147 3.89e+01 b.2.3.2 87814 2bfdB 345 3.91e+01 1xffA 240 3.94e+01 d.153.1.1 109580 1yxyA 234 3.97e+01 2gnxA 365 4.00e+01 1ayl 541 4.02e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1sazA 381 4.04e+01 1gpjA 404 4.12e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2bneA 241 4.16e+01 1v6sA 390 4.17e+01 c.86.1.1 100424 1o3uA 135 4.17e+01 a.24.16.3 86615 1g5aA 628 4.23e+01 b.71.1.1,c.1.8.1 65152,65153 1vqoO 116 4.27e+01 1nbaA 264 4.32e+01 1nbaA c.33.1.3 31753 1noyA 388 4.35e+01 1clqA c.55.3.5 33713 1tzjA 338 4.36e+01 1cliA 345 4.44e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1fmcA 255 4.47e+01 1cydA c.2.1.2 29856 1xpjA 126 4.50e+01 1oaoC 729 4.50e+01 e.26.1.3 86746 1wz3A 96 4.52e+01 1r6xA 395 4.52e+01 b.122.1.3,c.26.1.5 97167,97168 1muwA 386 4.52e+01 c.1.15.3 79495 1i60A 278 4.59e+01 c.1.15.4 71118 1vixA 420 4.62e+01 c.56.5.4,d.58.19.1 100777,100778 2bgkA 278 4.65e+01 2aotA 292 4.72e+01 1qwnA 1045 4.77e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1lv7A 257 4.78e+01 c.37.1.20 78232 2chnA 716 4.84e+01 2br9A 234 4.84e+01 1uf3A 228 4.89e+01 d.159.1.6 99317 1udxA 416 4.93e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1jsdB 176 4.93e+01 h.3.1.1 63259 1v8fA 276 4.93e+01 c.26.1.4 100503 1s99A 200 4.97e+01 1z85A 234 4.99e+01 1ktbA 405 4.99e+01 b.71.1.1,c.1.8.1 72960,72961 1h7eA 245 5.09e+01 c.68.1.13 60717 1tuvA 114 5.23e+01 1mixA 206 5.26e+01 a.11.2.1,b.55.1.5 79166,79167 1ltzA 297 5.30e+01 d.178.1.1 74254 1dosA 358 5.32e+01 1dosA c.1.10.2 29175 1o9rA 162 5.33e+01 a.25.1.1 86706 1nrgA 261 5.33e+01 b.45.1.1 80694 1qh8A 478 5.36e+01 1qguA c.92.2.3 35633 1x8bA 289 5.38e+01 1yarO 237 5.49e+01 1kqpA 271 5.51e+01 c.26.2.1 72883 1dofA 403 5.53e+01 1c3cA a.127.1.1 19429 1buoA 121 5.66e+01 1buoA d.42.1.1 38631 2axpA 173 5.66e+01 1sflA 238 5.67e+01 1lxjA 104 5.67e+01 d.58.48.1 84736 2bfwA 200 5.68e+01 1g60A 260 5.69e+01 c.66.1.11 70151 1pz1A 333 5.71e+01 c.1.7.1 95390 2bo9A 308 5.76e+01 1pa7A 130 5.80e+01 a.40.1.1 94410 1qg8A 255 5.90e+01 1qg8A c.68.1.1 34505 1vp8A 201 5.91e+01 1hrhA 136 5.94e+01 1rthA c.55.3.1 33577 1e8gA 560 5.95e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1l8aA 886 6.15e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1w5rA 278 6.21e+01 1wsrA 375 6.29e+01 4pgaA 337 6.30e+01 4pgaA c.88.1.1 35565 4uagA 437 6.31e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1ej2A 181 6.40e+01 1f9aA c.26.1.3 59414 1zuwA 272 6.40e+01 1yacA 208 6.43e+01 1yacA c.33.1.3 31757 2g5cA 281 6.44e+01 1nkqA 259 6.45e+01 d.177.1.1 103862 1whsB 153 6.46e+01 1whtB 1nrjB 218 6.51e+01 c.37.1.8 86125 1i4jA 110 6.57e+01 d.55.1.1 76734 1t4hA 290 6.58e+01 d.144.1.7 106420 1hyeA 313 6.61e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1jx6A 342 6.65e+01 c.93.1.1 67406 1ib2A 349 6.75e+01 1ib2A a.118.1.8 62141 1om4A 422 6.78e+01 d.174.1.1 87067 1a8s 273 6.80e+01 1brt c.69.1.12 34710 2ew8A 249 6.81e+01 1ix9A 205 6.82e+01 a.2.11.1,d.44.1.1 76899,76900 1pc6A 146 6.87e+01 d.262.1.1 94430 2cbiA 594 6.90e+01 1lzjA 292 6.96e+01 c.68.1.9 74352 1m8jA 181 6.98e+01 c.26.1.3 84875 1l6wA 220 7.00e+01 c.1.10.1 73632 1yarA 233 7.03e+01 1ny1A 240 7.05e+01 c.6.2.3 86395 1ur4A 399 7.10e+01 1vk3A 615 7.11e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1ceo 343 7.11e+01 1ceo c.1.8.3 28808 1fp3A 402 7.12e+01 1fp3A a.102.1.3 18842 1o5xA 248 7.13e+01 c.1.1.1 92528 1o5zA 442 7.15e+01 c.59.1.2,c.72.2.2 92530,92531 1geeA 261 7.16e+01 c.2.1.2 90509 1dqzA 280 7.22e+01 1dqyA c.69.1.3 34638 1g87A 614 7.24e+01 a.102.1.2,b.2.2.2 83275,83276 1kicA 339 7.26e+01 c.70.1.1 72510 1ll2A 333 7.27e+01 c.68.1.14 74005 1es9A 232 7.44e+01 1wab c.23.10.3 31340 1nm2A 317 7.44e+01 c.19.1.1,d.58.23.1 80654,80655 1e7wA 291 7.46e+01 c.2.1.2 59373 1on3A 523 7.48e+01 c.14.1.4,c.14.1.4 87107,87108 1nu0A 138 7.55e+01 c.55.3.8 92165 1rkbA 173 7.55e+01 1jsmA 325 7.63e+01 b.19.1.2 63264 1j0hA 588 7.67e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1ybxA 143 7.75e+01 1iv8A 720 7.75e+01 b.71.1.1,c.1.8.1 76842,76843 1yx1A 264 7.79e+01 7odcA 424 7.81e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 2c4nA 250 7.84e+01 1vjpA 394 7.86e+01 c.2.1.3,d.81.1.3 100828,100829 2f6rA 281 7.88e+01 1bw0A 416 7.89e+01 1bw0A c.67.1.1 34385 1q1fA 151 7.92e+01 a.1.1.2 104476 2c71A 216 7.97e+01 1ypfA 336 8.02e+01 1ag9A 175 8.05e+01 1rcf c.23.5.1 31178 1dqpA 230 8.06e+01 1dqnA c.61.1.1 34069 1neyA 247 8.11e+01 c.1.1.1 80449 2cxcA 144 8.12e+01 1aky 221 8.17e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1mr7A 209 8.20e+01 b.81.1.3 91430 1zthA 258 8.21e+01 1u4nA 310 8.24e+01 2f1rA 171 8.25e+01 1mdl 359 8.26e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1t7lA 766 8.36e+01 1zj6A 187 8.36e+01 1w0mA 226 8.39e+01 c.1.1.1 109027 1p1jA 533 8.40e+01 c.2.1.3,d.81.1.3 87687,87688 1gx3A 284 8.40e+01 d.3.1.5 70678 1tg7A 971 8.45e+01 1r85A 379 8.56e+01 c.1.8.3 104839 2fz4A 237 8.66e+01 1ylhA 560 8.72e+01 1ek9A 428 8.73e+01 1ek9A f.5.1.1 43809 1msk 331 8.75e+01 1msk d.173.1.1 42495 2eu9A 355 8.77e+01 1k2eA 156 8.84e+01 d.113.1.1 72010 1kewA 361 8.86e+01 c.2.1.2 68544 1go4A 205 8.87e+01 d.135.1.1 70292 2trxA 108 8.87e+01 1thx c.47.1.1 32719 1vimA 200 8.88e+01 c.80.1.3 100758 1qmeA 702 8.88e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1kshA 186 8.89e+01 c.37.1.8 72914 1ujpA 271 8.89e+01 c.1.2.4 99462 1obbA 480 8.91e+01 c.2.1.5,d.162.1.2 86760,86761 1amm 174 8.93e+01 1amm b.11.1.1,b.11.1.1 23587,23588 1z0xA 220 8.99e+01