# List of top-scoring protein chains for t04-100-30-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 2.25e-01 1j0aA 325 2.48e-01 c.79.1.1 83871 1pbgA 468 5.29e-01 1e70M c.1.8.4 28946 1uanA 227 5.58e-01 c.134.1.1 99135 1brwA 433 6.03e-01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1vbuA 328 7.95e-01 1pdo 135 1.33e+00 1pdo c.54.1.1 33376 1xyzA 347 1.46e+00 1taxA c.1.8.3 28804 1hkhA 279 1.51e+00 c.69.1.12 90628 1gtzA 156 1.68e+00 c.23.13.1 70539 1pii 452 1.71e+00 1pii c.1.2.4,c.1.2.4 28559,28563 2bvyA 475 1.90e+00 1d0iA 156 2.02e+00 2dhqA c.23.13.1 31383 1uqrA 154 2.03e+00 c.23.13.1 99779 1fzqA 181 2.31e+00 1hurA c.37.1.8 32060 1pujA 282 2.98e+00 c.37.1.8 88294 1to3A 304 3.06e+00 c.1.10.1 107161 1pjqA 457 3.34e+00 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2f5xA 312 3.34e+00 1lzlA 323 3.36e+00 c.69.1.2 78306 1mw9X 592 3.36e+00 e.10.1.1 91480 1h05A 146 3.52e+00 c.23.13.1 76433 2aq4A 434 3.77e+00 2d2eA 250 3.77e+00 2b0tA 738 3.82e+00 1uqtA 482 3.86e+00 c.87.1.6 99794 1jl3A 139 4.14e+00 c.44.1.1 66826 1bn7A 294 4.19e+00 1bn6A c.69.1.8 34677 1zbqA 327 4.21e+00 2bleA 367 4.29e+00 2dhqA 146 4.49e+00 2dhqA c.23.13.1 31382 2bjvA 265 4.49e+00 1vplA 256 4.50e+00 1d3vA 323 4.83e+00 1d3vA c.42.1.1 32559 1khtA 192 4.93e+00 c.37.1.1 84401 1u2zA 433 4.98e+00 c.66.1.31 107626 1yzgA 179 5.01e+00 2pth 193 5.13e+00 2pth c.56.3.1 33793 1tuaA 191 5.27e+00 d.51.1.1,d.51.1.1 107321,107322 1zp4A 304 5.48e+00 1m1nA 491 5.83e+00 c.92.2.3 78417 1kv5A 250 6.57e+00 c.1.1.1 73052 2b6hA 192 7.01e+00 1wwkA 307 7.09e+00 2absA 383 7.27e+00 1q1gA 276 7.71e+00 c.56.2.1 95574 1l2lA 457 7.75e+00 c.72.1.3 77656 1bxkA 355 8.23e+00 1bxkA c.2.1.2 29803 1vdkA 466 8.33e+00 a.127.1.1 100561 2b7kA 200 8.56e+00 1jilA 420 8.66e+00 c.26.1.1 66745 1sqsA 242 8.72e+00 c.23.5.5 98968 2b0lA 102 9.06e+00 1gz6A 319 9.06e+00 c.2.1.2 76410 1nswA 105 9.49e+00 c.47.1.1 92097 1tv8A 340 9.89e+00 c.1.28.3 107352 1ea9C 583 1.03e+01 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1zavA 180 1.04e+01 1tpfA 250 1.08e+01 1amk c.1.1.1 28467 1r31A 428 1.15e+01 d.58.20.1,d.179.1.1 96897,96898 1vpdA 299 1.16e+01 1nw2A 105 1.26e+01 c.47.1.1 92215 1y5eA 169 1.26e+01 1tzbA 302 1.27e+01 c.80.1.1 107470 1r8sA 164 1.28e+01 c.37.1.8 97247 2fcr 173 1.30e+01 1rcf c.23.5.1 31151 1m5q1 130 1.30e+01 1jksA 294 1.31e+01 d.144.1.7 71710 1ywfA 296 1.33e+01 1x1zA 252 1.33e+01 2czdA 208 1.34e+01 1dvjA 246 1.38e+01 1dvjA c.1.2.3 28546 1u9iA 519 1.38e+01 1oltA 457 1.39e+01 c.1.28.2 93334 1x9iA 302 1.41e+01 1ki9A 192 1.44e+01 c.37.1.1 84404 1b5tA 275 1.45e+01 1b5tA c.1.23.1 29676 1q9uA 130 1.47e+01 d.129.7.1 96314 1f74A 293 1.50e+01 1nal3 c.1.10.1 29079 2dri 271 1.51e+01 2dri c.93.1.1 35637 1sb8A 352 1.51e+01 c.2.1.2 105410 1w36B 1180 1.55e+01 2aebA 322 1.57e+01 1ja1A 622 1.58e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1uurA 473 1.59e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1km4A 247 1.60e+01 c.1.2.3 72740 1mr3F 181 1.60e+01 c.37.1.8 79422 1oj6A 151 1.61e+01 a.1.1.2 93088 1gudA 288 1.63e+01 c.93.1.1 83326 1gq6A 313 1.66e+01 c.42.1.1 70341 1wozA 177 1.66e+01 1quuA 250 1.69e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 2bsxA 253 1.70e+01 1xfoA 357 1.75e+01 1g8pA 350 1.75e+01 1g8pA c.37.1.20 60376 2cmuA 342 1.78e+01 1fh9A 312 1.79e+01 1taxA c.1.8.3 28913 1kkhA 317 1.80e+01 d.14.1.5,d.58.26.3 72645,72646 2c1lA 358 1.83e+01 1f9aA 168 1.86e+01 1f9aA c.26.1.3 31602 1b1cA 181 1.87e+01 1amoA c.23.5.2 31212 1qv9A 283 1.88e+01 c.127.1.1 96356 1r3dA 264 1.90e+01 1o3yA 166 1.92e+01 c.37.1.8 86618 1broA 277 1.92e+01 1brt c.69.1.12 34700 2a0b 125 1.95e+01 2a0b a.24.10.1 16630 1fhdA 312 1.97e+01 1taxA c.1.8.3 28915 1zxxA 319 1.99e+01 1ituA 369 2.00e+01 c.1.9.7 71423 1va4A 279 2.00e+01 c.69.1.12 108458 1blxA 326 2.02e+01 1hcl d.144.1.7 41596 1wxiA 275 2.03e+01 1g8lA 411 2.06e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1xwiA 322 2.09e+01 1jkmB 361 2.15e+01 1jkmA c.69.1.2 34634 1ihoA 283 2.18e+01 1ihoA c.26.1.4 62390 1n82A 331 2.19e+01 c.1.8.3 91703 1mzjA 339 2.20e+01 c.95.1.2,c.95.1.2 79700,79701 1rmwA 212 2.20e+01 2asbA 251 2.23e+01 2b82A 211 2.23e+01 1e4yA 214 2.24e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1x72A 334 2.26e+01 d.126.1.6 109495 1qf9A 194 2.27e+01 1zin c.37.1.1 31848 1nnsA 326 2.29e+01 c.88.1.1 85910 5abp 306 2.31e+01 8abp c.93.1.1 35651 1uuyA 167 2.32e+01 c.57.1.1 108059 1hqkA 154 2.34e+01 c.16.1.1 65902 1o4vA 183 2.43e+01 c.23.8.1 86628 1pyfA 312 2.44e+01 c.1.7.1 95334 1lyxA 248 2.46e+01 c.1.1.1 78304 2agaA 190 2.48e+01 1j4aA 333 2.48e+01 c.2.1.4,c.23.12.1 71502,71503 1htyA 1015 2.49e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1rhcA 330 2.49e+01 c.1.16.3 97468 1kamA 194 2.55e+01 c.26.1.3 72254 1ej0A 180 2.59e+01 1ej0A c.66.1.2 34179 1rpjA 288 2.62e+01 2dri c.93.1.1 35656 1fmcA 255 2.63e+01 1cydA c.2.1.2 29856 1c93A 265 2.63e+01 2ebn c.1.8.5 28998 1uz5A 402 2.64e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1y0yA 353 2.64e+01 1vl8A 267 2.65e+01 c.2.1.2 108733 1o58A 303 2.67e+01 c.79.1.1 92491 2tpt 440 2.70e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 2bgkA 278 2.70e+01 1a4iA 301 2.70e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 2c6cA 707 2.74e+01 1edt 271 2.81e+01 2ebn c.1.8.5 28993 1j0dA 341 2.82e+01 c.79.1.1 83902 2gjlA 328 2.84e+01 1iow 306 2.85e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1xr4A 509 2.86e+01 1brt 277 2.92e+01 1brt c.69.1.12 34699 1sc6A 404 2.93e+01 1vhwA 253 2.95e+01 c.56.2.1 100706 1h3fA 432 2.95e+01 c.26.1.1,d.66.1.4 76631,76632 1np7A 489 2.96e+01 a.99.1.1,c.28.1.1 80677,80678 1dkuA 317 2.99e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 2a19B 284 3.01e+01 2b06A 155 3.03e+01 1l4uA 176 3.06e+01 c.37.1.2 73568 1u9yA 284 3.08e+01 1yzbA 182 3.08e+01 1f2dA 341 3.10e+01 1f2dA c.79.1.1 35298 1w0dA 337 3.16e+01 1n8nA 212 3.18e+01 c.108.1.12 91706 2fvgA 340 3.27e+01 1xm3A 264 3.28e+01 1uwkA 557 3.29e+01 e.51.1.1 108065 1furA 467 3.31e+01 1furA a.127.1.1 19403 8abp 306 3.32e+01 8abp c.93.1.1 35647 1v93A 296 3.34e+01 c.1.23.1 100532 1ir6A 424 3.40e+01 c.107.1.2 71342 1yz7A 188 3.45e+01 16pk 415 3.46e+01 16pk c.86.1.1 35454 1xpjA 126 3.52e+01 1i6pA 220 3.58e+01 1ddzA c.53.2.1 61848 1hf8A 289 3.59e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1qwnA 1045 3.59e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1v6sA 390 3.65e+01 c.86.1.1 100424 1yxyA 234 3.69e+01 2abqA 306 3.70e+01 1x38A 602 3.71e+01 2chnA 716 3.72e+01 2ew8A 249 3.73e+01 1z41A 338 3.73e+01 1nc5A 373 3.75e+01 a.102.1.6 85548 2btzA 394 3.78e+01 1b0uA 262 3.85e+01 1b0uA c.37.1.12 32370 1fnnA 389 3.87e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 2plc 274 3.92e+01 2plc c.1.18.2 29614 5ukdA 194 3.98e+01 1zin c.37.1.1 31851 1j1uA 306 3.99e+01 c.26.1.1 83980 1z83A 196 4.00e+01 1o60A 292 4.05e+01 c.1.10.4 92532 1k1xA 659 4.06e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1ps9A 671 4.06e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1vh7A 265 4.07e+01 c.1.2.1 100646 1noyA 388 4.09e+01 1clqA c.55.3.5 33713 1y42X 392 4.16e+01 1sxjE 354 4.20e+01 a.80.1.1,c.37.1.20 106089,106090 2fuvA 549 4.21e+01 1ydnA 295 4.23e+01 1xriA 151 4.29e+01 3gcb 470 4.33e+01 3gcb d.3.1.1 37032 1nbaA 264 4.43e+01 1nbaA c.33.1.3 31753 1z15A 344 4.49e+01 1sf8A 126 4.50e+01 d.271.1.1 105472 1to6A 371 4.52e+01 c.141.1.1 107170 1squA 155 4.58e+01 d.252.1.1 98971 1cliA 345 4.61e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1dosA 358 4.61e+01 1dosA c.1.10.2 29175 1yacA 208 4.63e+01 1yacA c.33.1.3 31757 1lwjA 441 4.67e+01 b.71.1.1,c.1.8.1 74303,74304 1mc0A 368 4.67e+01 d.110.2.1,d.110.2.1 78937,78938 1kqpA 271 4.74e+01 c.26.2.1 72883 1ih8A 271 4.75e+01 2nsyA c.26.2.1 62377 1on3A 523 4.78e+01 c.14.1.4,c.14.1.4 87107,87108 1yueA 427 4.79e+01 1dqzA 280 4.81e+01 1dqyA c.69.1.3 34638 2bvlA 543 4.83e+01 1xffA 240 4.93e+01 d.153.1.1 109580 1gpjA 404 4.95e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1pc6A 146 4.98e+01 d.262.1.1 94430 1qxhA 167 5.02e+01 c.47.1.10 96528 1xppA 115 5.04e+01 1s72O 116 5.07e+01 c.12.1.1 105334 1vqoO 116 5.07e+01 1ej2A 181 5.10e+01 1f9aA c.26.1.3 59414 1n9lA 109 5.11e+01 d.110.3.6 85468 1tc5A 194 5.17e+01 c.110.1.1 106752 1r6xA 395 5.19e+01 b.122.1.3,c.26.1.5 97167,97168 1zq1C 633 5.21e+01 1wz3A 96 5.22e+01 1i60A 278 5.26e+01 c.1.15.4 71118 1cy9A 264 5.27e+01 1ecl e.10.1.1 43236 2d13A 227 5.32e+01 1m8jA 181 5.33e+01 c.26.1.3 84875 1nq6A 302 5.34e+01 c.1.8.3 92046 2his 312 5.35e+01 1taxA c.1.8.3 28918 1drw 273 5.38e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1sflA 238 5.40e+01 1z85A 234 5.40e+01 1ayl 541 5.48e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 2liv 344 5.49e+01 2liv c.93.1.1 35708 2c6qA 351 5.49e+01 1jsdB 176 5.52e+01 h.3.1.1 63259 1b0pA 1231 5.53e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1ix9A 205 5.56e+01 a.2.11.1,d.44.1.1 76899,76900 1gdoA 240 5.57e+01 1gdoA 1ceo 343 5.57e+01 1ceo c.1.8.3 28808 1i0hA 205 5.63e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1bw0A 416 5.66e+01 1bw0A c.67.1.1 34385 2trcP 217 5.70e+01 1b9yC c.47.1.6 33051 2br9A 234 5.75e+01 2cbiA 594 5.76e+01 1hurA 180 5.82e+01 1hurA c.37.1.8 32052 1oaoC 729 5.82e+01 e.26.1.3 86746 2fz4A 237 5.84e+01 1r6yA 115 5.85e+01 2trxA 108 5.87e+01 1thx c.47.1.1 32719 2c3mA 1231 5.91e+01 2bznA 351 5.95e+01 1o9rA 162 5.96e+01 a.25.1.1 86706 1sotA 320 5.99e+01 b.36.1.4,b.47.1.1 105852,105853 1tzjA 338 6.02e+01 1w44A 331 6.04e+01 1h7eA 245 6.06e+01 c.68.1.13 60717 1tuvA 114 6.07e+01 1g5aA 628 6.10e+01 b.71.1.1,c.1.8.1 65152,65153 1o3uA 135 6.13e+01 a.24.16.3 86615 1fp3A 402 6.13e+01 1fp3A a.102.1.3 18842 1hrhA 136 6.15e+01 1rthA c.55.3.1 33577 1dtwB 342 6.15e+01 1qs0B c.36.1.7,c.48.1.2 31828,33102 1id0A 152 6.17e+01 d.122.1.3 66111 3xis 387 6.19e+01 4xis c.1.15.3 29423 1s99A 200 6.23e+01 1zj6A 187 6.24e+01 2a2fX 325 6.26e+01 1yx1A 264 6.27e+01 1sazA 381 6.34e+01 1kekA 1231 6.37e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1p3wA 404 6.39e+01 c.67.1.3 87752 1yarO 237 6.48e+01 1muwA 386 6.49e+01 c.1.15.3 79495 1dofA 403 6.49e+01 1c3cA a.127.1.1 19429 1qvbA 481 6.55e+01 1qvbA c.1.8.4 28983 1g60A 260 6.55e+01 c.66.1.11 70151 1buoA 121 6.57e+01 1buoA d.42.1.1 38631 1nrjB 218 6.65e+01 c.37.1.8 86125 1lv7A 257 6.67e+01 c.37.1.20 78232 1zuwA 272 6.68e+01 1w1kA 560 6.68e+01 d.58.32.1,d.145.1.1 109059,109060 1s62A 106 6.70e+01 1nrgA 261 6.73e+01 b.45.1.1 80694 1ulyA 192 6.76e+01 1kcxA 518 6.79e+01 b.92.1.3,c.1.9.6 90953,90954 1e8gA 560 6.84e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1gp6A 356 6.86e+01 b.82.2.1 65441 7odcA 424 6.92e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1nm2A 317 6.95e+01 c.19.1.1,d.58.23.1 80654,80655 1udxA 416 6.96e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1t4hA 290 7.05e+01 d.144.1.7 106420 1p0kA 349 7.07e+01 c.1.4.1 87648 1ecpA 238 7.07e+01 1ecpA c.56.2.1 33775 1gcb 454 7.09e+01 3gcb d.3.1.1 37034 1v8fA 276 7.11e+01 c.26.1.4 100503 4pgaA 337 7.13e+01 4pgaA c.88.1.1 35565 1dqsA 393 7.14e+01 1dqsA e.22.1.1 43347 2ts1 419 7.19e+01 2ts1 c.26.1.1 31564 1psdA 409 7.19e+01 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1l6wA 220 7.22e+01 c.1.10.1 73632 1sg6A 393 7.25e+01 e.22.1.1 105522 1ex1A 605 7.28e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1a0rP 245 7.30e+01 1b9yC c.47.1.6 33054 1ltzA 297 7.32e+01 d.178.1.1 74254 1k9sA 237 7.36e+01 c.56.2.1 68359 1s7hA 200 7.36e+01 d.58.48.2 105349 2g5cA 281 7.37e+01 1lxjA 104 7.40e+01 d.58.48.1 84736 2bneA 241 7.44e+01 1rm6A 769 7.49e+01 2d0iA 333 7.49e+01 1hfs 160 7.52e+01 1hfc d.92.1.11 40370 1vk3A 615 7.52e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1ktbA 405 7.53e+01 b.71.1.1,c.1.8.1 72960,72961 1l8aA 886 7.58e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 2axpA 173 7.62e+01 1kicA 339 7.63e+01 c.70.1.1 72510 1vixA 420 7.79e+01 c.56.5.4,d.58.19.1 100777,100778 1om4A 422 7.81e+01 d.174.1.1 87067 1x8bA 289 7.84e+01 2eu9A 355 7.84e+01 2aotA 292 7.85e+01 1rthA 560 7.88e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 2bo9A 308 7.92e+01 1q1fA 151 7.95e+01 a.1.1.2 104476 1ofuA 320 7.99e+01 c.32.1.1,d.79.2.1 86972,86973 1g8fA 511 8.11e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1ujpA 271 8.14e+01 c.1.2.4 99462 1o2dA 371 8.29e+01 e.22.1.2 86591 1dbqA 289 8.42e+01 1qpzA c.93.1.1 35666 1a0cA 438 8.43e+01 1a0cA c.1.15.3 29529 1x7yB 342 8.45e+01 1mmvB 419 8.46e+01 d.174.1.1 91318 1g9mG 321 8.47e+01 1gc1G d.172.1.1 42492 1php 394 8.47e+01 16pk c.86.1.1 35452 1whtB 153 8.49e+01 1whtB 1whsB 153 8.52e+01 1whtB 3mag 307 8.57e+01 3mag c.66.1.25 34205 1hyeA 313 8.58e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1o5kA 306 8.58e+01 c.1.10.1 92504 1o5xA 248 8.65e+01 c.1.1.1 92528 1ny1A 240 8.67e+01 c.6.2.3 86395 1pa7A 130 8.68e+01 a.40.1.1 94410 2ax4A 198 8.70e+01 1vp8A 201 8.73e+01 2gnxA 365 8.75e+01 1auiA 521 8.79e+01 1auiA d.159.1.3 42085 2f6rA 281 8.80e+01 1gcoA 261 8.83e+01 1ybvA c.2.1.2 29884 1e7wA 291 8.84e+01 c.2.1.2 59373 1geeA 261 8.85e+01 c.2.1.2 90509 1i4jA 110 8.90e+01 d.55.1.1 76734 1p1jA 533 8.90e+01 c.2.1.3,d.81.1.3 87687,87688 1t3iA 420 8.96e+01 c.67.1.3 106354