# 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 1pdo 135 1.54e-02 1pdo c.54.1.1 33376 1e6uA 321 2.98e-02 1bsvA c.2.1.2 29805 1i60A 278 3.91e-02 c.1.15.4 71118 1i6pA 220 7.58e-02 1ddzA c.53.2.1 61848 1qtwA 285 7.76e-02 1qumA c.1.15.1 29392 1obdA 306 1.47e-01 d.143.1.1 86767 1jmvA 141 1.59e-01 c.26.2.4 66897 1ufoA 238 1.79e-01 c.69.1.27 99344 12asA 330 2.21e-01 12asA d.104.1.1 40783 1gesA 450 2.62e-01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1gtzA 156 4.41e-01 c.23.13.1 70539 1h05A 146 5.25e-01 c.23.13.1 76433 1ewkA 490 5.72e-01 1ewkA c.93.1.1 35712 1p1xA 260 6.32e-01 c.1.10.1 104060 1c93A 265 7.55e-01 2ebn c.1.8.5 28998 1ix9A 205 7.79e-01 a.2.11.1,d.44.1.1 76899,76900 7odcA 424 9.33e-01 7odcA b.49.2.3,c.1.6.1 26488,28650 1lzlA 323 9.64e-01 c.69.1.2 78306 2pth 193 1.17e+00 2pth c.56.3.1 33793 1p1jA 533 1.17e+00 c.2.1.3,d.81.1.3 87687,87688 1o9iA 266 1.19e+00 a.25.1.3 92671 1brwA 433 1.39e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1yxyA 234 1.48e+00 1j0dA 341 1.67e+00 c.79.1.1 83902 1x9iA 302 1.68e+00 1edt 271 1.69e+00 2ebn c.1.8.5 28993 7a3hA 303 1.71e+00 7a3hA c.1.8.3 28817 1gqiA 708 1.72e+00 c.1.8.10,d.92.2.2 76279,76280 1o4vA 183 1.86e+00 c.23.8.1 86628 1e4yA 214 1.97e+00 1zin c.37.1.1,g.41.2.1 31901,45181 1ag9A 175 1.99e+00 1rcf c.23.5.1 31178 1f74A 293 2.10e+00 1nal3 c.1.10.1 29079 1c3cA 429 2.32e+00 1c3cA a.127.1.1 19425 1dekA 241 2.32e+00 1dekA c.37.1.1 31842 1ir6A 424 2.50e+00 c.107.1.2 71342 1s99A 200 2.81e+00 1ta8A 332 2.84e+00 16pk 415 2.88e+00 16pk c.86.1.1 35454 1vc4A 254 2.92e+00 c.1.2.4 100557 1dbqA 289 3.39e+00 1qpzA c.93.1.1 35666 1iugA 352 3.71e+00 c.67.1.3 90699 1c96A 753 3.77e+00 1amj c.8.2.1,c.83.1.1 30727,35403 1czaN 917 4.09e+00 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1bkjA 240 4.27e+00 1bkjA d.90.1.1 40243 1cliA 345 4.30e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1lv7A 257 5.06e+00 c.37.1.20 78232 1thfD 253 5.09e+00 1thfD c.1.2.1 28535 1pwxA 254 5.37e+00 c.2.1.2 95262 1fmcA 255 5.40e+00 1cydA c.2.1.2 29856 1mw9X 592 5.45e+00 e.10.1.1 91480 1gteA 1025 5.90e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1mnaA 298 6.20e+00 c.69.1.22 79322 1uuqA 440 6.23e+00 c.1.8.3 100015 1jhdA 396 6.40e+00 b.122.1.3,c.26.1.5 66712,66713 1efvA 315 6.52e+00 1efvA c.26.2.3,c.31.1.2 31633,31728 1eg2A 319 6.58e+00 1eg2A c.66.1.11 34249 1f60A 458 6.60e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1e4iA 447 6.91e+00 1e70M c.1.8.4 59225 1gs5A 258 7.17e+00 c.73.1.2 70395 1hjsA 332 7.39e+00 c.1.8.3 83492 1kkoA 413 7.53e+00 c.1.11.2,d.54.1.1 68675,68676 1jw9B 249 7.85e+00 c.111.1.1 67377 1snyA 267 8.03e+00 c.2.1.2 105833 1l8bA 190 8.08e+00 d.86.1.1 73683 1ursA 402 8.19e+00 c.94.1.1 99833 1g8mA 593 8.20e+00 1g8mA c.24.1.3,c.97.2.1 60371,60372 1rhcA 330 8.51e+00 c.1.16.3 97468 1uk8A 282 8.83e+00 c.69.1.10 107907 1g61A 228 8.96e+00 1g61A d.126.1.1 41126 1h5wA 309 9.25e+00 e.27.1.1 65635 1k7cA 233 9.40e+00 c.23.10.4 68267 1g0cA 364 9.56e+00 7a3hA c.1.8.3 60165 1jl3A 139 9.57e+00 c.44.1.1 66826 1fzqA 181 9.59e+00 1hurA c.37.1.8 32060 1fh9A 312 9.65e+00 1taxA c.1.8.3 28913 1nu0A 138 1.05e+01 c.55.3.8 92165 1km4A 247 1.05e+01 c.1.2.3 72740 1nr0A 611 1.06e+01 b.69.4.1,b.69.4.1 86078,86079 1in4A 334 1.06e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1vyrA 364 1.06e+01 c.1.4.1 108906 1pv5A 264 1.08e+01 d.251.1.1 95150 1gzsB 165 1.09e+01 a.168.1.1 76425 1id0A 152 1.09e+01 d.122.1.3 66111 1guzA 310 1.11e+01 c.2.1.5,d.162.1.1 65586,65587 1dofA 403 1.14e+01 1c3cA a.127.1.1 19429 1ra0A 430 1.14e+01 1efvB 255 1.21e+01 1efvB c.26.2.3 31634 1es9A 232 1.23e+01 1wab c.23.10.3 31340 1ml4A 308 1.27e+01 c.78.1.1,c.78.1.1 79255,79256 1jksA 294 1.28e+01 d.144.1.7 71710 1o7jA 327 1.28e+01 c.88.1.1 81140 1ep3A 311 1.28e+01 2dorA c.1.4.1 28597 1tjyA 316 1.33e+01 c.93.1.1 107062 1y8aA 332 1.35e+01 1ls1A 295 1.43e+01 a.24.13.1,c.37.1.10 78170,78171 1giqA 413 1.43e+01 d.166.1.1,d.166.1.1 76224,76225 1xzoA 174 1.44e+01 1lqtA 456 1.45e+01 c.3.1.1,c.4.1.1 74198,74199 1v7zA 260 1.49e+01 c.125.1.1 100488 1uf5A 303 1.51e+01 d.160.1.2 107808 1dqzA 280 1.52e+01 1dqyA c.69.1.3 34638 1d2nA 272 1.53e+01 1d2nA c.37.1.20 32428 1eceA 358 1.54e+01 1eceA c.1.8.3 28813 1nar 290 1.55e+01 1nar c.1.8.5 28988 1eexA 554 1.61e+01 1dioA c.1.19.3 29650 1ypyA 184 1.61e+01 4uagA 437 1.63e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1zin 217 1.64e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1jbkA 195 1.64e+01 c.37.1.20 71631 1o54A 277 1.66e+01 c.66.1.13 92482 1lfpA 249 1.69e+01 e.39.1.1 73885 1izcA 339 1.76e+01 c.1.12.5 83838 1eo6A 117 1.78e+01 1eo6A d.15.1.3 37609 1in6A 334 1.80e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1s0aA 429 1.82e+01 c.67.1.4 98263 1xttA 216 1.86e+01 1a3c 181 1.87e+01 1a3c c.61.1.1 34095 1jftA 340 1.87e+01 a.35.1.5,c.93.1.1 66652,66653 1el5A 389 1.91e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1r8sA 164 1.91e+01 c.37.1.8 97247 1q6oA 216 2.01e+01 c.1.2.3 95986 2tpsA 227 2.05e+01 2tpsA c.1.3.1 28591 1qd1A 325 2.05e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1xffA 240 2.12e+01 d.153.1.1 109580 1nfp 228 2.13e+01 1nfp c.1.16.2 29555 1nthA 458 2.21e+01 c.1.25.1 80730 1h5qA 265 2.22e+01 1cydA c.2.1.2 60643 1mba 147 2.24e+01 2fal a.1.1.2 15149 1f0nA 285 2.27e+01 1dqyA c.69.1.3 34636 1xfiA 367 2.32e+01 e.50.1.1 109584 1q9uA 130 2.36e+01 d.129.7.1 96314 1geqA 248 2.36e+01 2tysA c.1.2.4 28589 1ve1A 304 2.41e+01 1evlA 401 2.46e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1wmaA 276 2.48e+01 1e0tA 470 2.50e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1fobA 334 2.59e+01 c.1.8.3 83255 1w3iA 293 2.63e+01 c.1.10.1 109152 1h3fA 432 2.74e+01 c.26.1.1,d.66.1.4 76631,76632 1f5vA 240 2.75e+01 1bkjA d.90.1.1 40255 1dz3A 130 2.75e+01 1dz3A c.23.1.1 31105 1cnzA 363 2.78e+01 1cnzA c.77.1.1 35061 1dqwA 267 2.78e+01 1dqwA c.1.2.3 28551 1v6sA 390 2.81e+01 c.86.1.1 100424 1eb6A 177 2.83e+01 d.92.1.12 64895 1c7qA 445 2.84e+01 2pgi c.80.1.2 35307 1npyA 271 2.86e+01 c.2.1.7,c.58.1.5 85995,85996 2dfkA 402 2.87e+01 1azsA 220 2.93e+01 1azsA d.58.29.1 39416 1eswA 500 2.95e+01 1cwyA c.1.8.1 59500 1ekqA 272 2.95e+01 1c3qA c.72.1.2 34941 1fvpA 231 2.97e+01 1nfp c.1.16.2 29556 1g5hA 454 2.99e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1qw9A 502 3.02e+01 b.71.1.2,c.1.8.3 96466,96467 1jbwA 428 3.03e+01 c.59.1.2,c.72.2.2 62860,62861 1iq8A 582 3.05e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1gkmA 509 3.13e+01 a.127.1.2 70228 1vhwA 253 3.21e+01 c.56.2.1 100706 1rv9A 259 3.22e+01 d.194.1.2 105105 1wb4A 297 3.23e+01 1i39A 225 3.27e+01 1ekeA c.55.3.1 61585 1gjwA 637 3.31e+01 b.71.1.1,c.1.8.1 60582,60583 1ug6A 431 3.32e+01 c.1.8.4 88490 1q8fA 313 3.47e+01 c.70.1.1 96203 1k4nA 192 3.48e+01 d.32.1.5 72059 1n3lA 372 3.49e+01 c.26.1.1 79966 1odzA 386 3.56e+01 c.1.8.3 86889 1am2 199 3.58e+01 1am2 b.86.1.2 28381 1ohlA 342 3.65e+01 c.1.10.3 87035 1bn7A 294 3.67e+01 1bn6A c.69.1.8 34677 1izmA 184 3.73e+01 a.199.1.1 90725 1edg 380 3.75e+01 1edg c.1.8.3 28807 1v7wA 807 3.76e+01 a.102.1.4,b.30.5.3 108411,108412 1uaiA 224 3.80e+01 b.29.1.18 107761 1cvl 319 3.82e+01 1cvl c.69.1.18 34786 1sz7A 200 3.82e+01 1jwiB 125 3.84e+01 d.169.1.1 67384 1p4oA 322 3.87e+01 d.144.1.7 87775 1io0A 185 3.87e+01 c.10.1.1 76753 1shuX 182 3.92e+01 c.62.1.1 98882 1i0lA 221 3.95e+01 c.61.1.1 71096 1jnyA 435 4.03e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1ispA 181 4.06e+01 c.69.1.18 76778 1eqfA 280 4.12e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1oboA 169 4.14e+01 c.23.5.1 86776 1e8gA 560 4.22e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1qgvA 142 4.38e+01 1qgvA c.47.1.8 33056 1p5vB 147 4.39e+01 b.2.3.2 87814 1ui0A 205 4.40e+01 c.18.1.2 99411 1uv7A 110 4.46e+01 d.67.4.1 100040 1jf8A 131 4.47e+01 c.44.1.1 66621 1ff9A 450 4.53e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1pa7A 130 4.63e+01 a.40.1.1 94410 1vjpA 394 4.73e+01 c.2.1.3,d.81.1.3 100828,100829 1sbyA 254 4.77e+01 1go4A 205 4.79e+01 d.135.1.1 70292 1iirA 415 4.82e+01 1iirA c.87.1.5 62453 1hqkA 154 4.83e+01 c.16.1.1 65902 1vjoA 393 4.83e+01 c.67.1.3 100827 2bl8A 103 4.83e+01 1bx4A 345 4.91e+01 1bx4A c.72.1.1 34935 1g3kA 174 4.92e+01 1nedA d.153.1.4 41989 1b43A 340 4.95e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1ail 73 4.96e+01 1ail a.16.1.1 16381 1jo0A 98 5.00e+01 d.68.4.1 77140 1ga6A 372 5.02e+01 1ga1A c.41.1.2 32556 1o97C 264 5.04e+01 c.26.2.3 81232 1xm3A 264 5.09e+01 1c7sA 858 5.15e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1uozA 315 5.16e+01 1ihoA 283 5.20e+01 1ihoA c.26.1.4 62390 1umkA 275 5.21e+01 1d3vA 323 5.22e+01 1d3vA c.42.1.1 32559 1wvgA 359 5.28e+01 1gs9A 165 5.40e+01 a.24.1.1 83313 1f89A 291 5.51e+01 d.160.1.1 64988 1gnkA 112 5.52e+01 2pii d.58.5.1 39073 1hdcA 253 5.54e+01 1e6wA c.2.1.2 29862 1dfmA 223 5.62e+01 1d2iA c.52.1.5 33295 1g87A 614 5.78e+01 a.102.1.2,b.2.2.2 83275,83276 8abp 306 5.79e+01 8abp c.93.1.1 35647 1jsmA 325 5.84e+01 b.19.1.2 63264 1o66A 275 5.85e+01 c.1.12.8 92547 1gr0A 367 5.92e+01 c.2.1.3,d.81.1.3 70379,70380 1dkuA 317 5.93e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1gx3A 284 5.99e+01 d.3.1.5 70678 1y0bA 197 6.25e+01 1sfsA 240 6.26e+01 c.1.8.8 98846 1m4lA 307 6.27e+01 c.56.5.1 78604 1f0lA 535 6.27e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1n55A 251 6.28e+01 c.1.1.1 80007 1f0kA 364 6.29e+01 1f0kA c.87.1.2 35465 1hf8A 289 6.32e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1g5aA 628 6.34e+01 b.71.1.1,c.1.8.1 65152,65153 1vimA 200 6.37e+01 c.80.1.3 100758 2g7jA 124 6.38e+01 1t4hA 290 6.38e+01 d.144.1.7 106420 1f1eA 154 6.43e+01 a.22.1.2 64927 1aj8A 371 6.44e+01 1aj8A a.103.1.1 18900 1jkmB 361 6.47e+01 1jkmA c.69.1.2 34634 1dqaA 467 6.58e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1ysqA 193 6.59e+01 1twdA 256 6.63e+01 c.1.30.1 107397 1j3bA 529 6.64e+01 c.91.1.1,c.109.1.1 77071,77072 1mixA 206 6.65e+01 a.11.2.1,b.55.1.5 79166,79167 1tuaA 191 6.68e+01 d.51.1.1,d.51.1.1 107321,107322 1hrhA 136 6.74e+01 1rthA c.55.3.1 33577 1d8wA 426 6.74e+01 1de5A c.1.15.2 29394 1hbnA 549 6.75e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1bl0A 129 6.77e+01 1d5yA a.4.1.8,a.4.1.8 16053,16054 1cex 214 6.78e+01 1cex c.69.1.30 31285 1faaA 124 6.87e+01 1erv c.47.1.1 32738 1eziA 228 6.87e+01 1eyrA c.68.1.13 34512 1iooA 196 6.93e+01 d.124.1.1 71250 1xmzA 241 6.94e+01 1ct5A 256 7.02e+01 1ct5A c.1.6.2 28663 1jz8A 1023 7.03e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1vpt 348 7.10e+01 3mag c.66.1.25 34207 1k0wA 231 7.11e+01 c.74.1.1 77220 1ayl 541 7.12e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1m1nA 491 7.15e+01 c.92.2.3 78417 1q92A 197 7.16e+01 c.108.1.8 96250 1ltzA 297 7.22e+01 d.178.1.1 74254 1iejA 332 7.23e+01 1nnt c.94.1.2 62328 1fiuA 286 7.25e+01 1fiuA c.52.1.10 33317 1lucA 355 7.31e+01 1lucA c.1.16.1 29547 1dosA 358 7.39e+01 1dosA c.1.10.2 29175 1csh 435 7.41e+01 1csh a.103.1.1 18880 1nxuA 333 7.47e+01 c.122.1.1 86389 1iyeA 309 7.51e+01 e.17.1.1 83786 1q52A 314 7.55e+01 c.14.1.3 95846 1e9pA 151 7.59e+01 1mfmA b.1.8.1 22215 1b0uA 262 7.71e+01 1b0uA c.37.1.12 32370 1i4jA 110 7.72e+01 d.55.1.1 76734 1kid 203 7.75e+01 1derA c.8.5.1 30771 1fi4A 416 7.76e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 2bkaA 242 7.77e+01 1jndA 420 7.81e+01 c.1.8.5,d.26.3.1 71757,71758 1vfjA 116 7.81e+01 1e3oC 160 7.82e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1fnnA 389 7.83e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1afwA 393 7.83e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1aq5A 47 7.84e+01 1aq5A h.1.6.1 45577 1nvmB 312 7.91e+01 c.2.1.3,d.81.1.1 86251,86252 1jjfA 268 7.99e+01 c.69.1.2 66765 1v70A 105 8.03e+01 1eemA 241 8.13e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1ib2A 349 8.13e+01 1ib2A a.118.1.8 62141 1l1lA 739 8.25e+01 c.7.1.4 73470 1ek9A 428 8.34e+01 1ek9A f.5.1.1 43809 1q7zA 566 8.36e+01 c.1.21.2,c.1.26.1 96090,96091 1xfkA 336 8.37e+01 1v8yA 170 8.41e+01 1fecA 490 8.45e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1kfcA 268 8.55e+01 c.1.2.4 77371 1tfzA 424 8.67e+01 d.32.1.3,d.32.1.3 106886,106887 1r0mA 375 8.67e+01 c.1.11.2,d.54.1.1 104747,104748 1f9zA 135 8.68e+01 1qipA d.32.1.1 38484 1rkuA 206 8.68e+01 c.108.1.11 97627 1byi 224 8.69e+01 1byi c.37.1.10 32199 1gk9B 557 8.70e+01 1ez3A 127 8.72e+01 1dn1B a.47.2.1 17768 1qnrA 344 8.75e+01 1qnoA c.1.8.3 28834 1d4oA 184 8.83e+01 1d4oA c.31.1.4 31748 1qwgA 251 8.91e+01 c.1.27.1 96473 1eny 268 8.96e+01 1eny c.2.1.2 29910