# List of top-scoring protein chains for t06-100-30-str2-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 1j0dA 341 2.31e-04 c.79.1.1 83902 1i60A 278 4.33e-04 c.1.15.4 71118 1pdo 135 7.31e-04 1pdo c.54.1.1 33376 1qtwA 285 8.44e-04 1qumA c.1.15.1 29392 7a3hA 303 2.84e-03 7a3hA c.1.8.3 28817 1p1jA 533 4.64e-03 c.2.1.3,d.81.1.3 87687,87688 1f74A 293 5.29e-03 1nal3 c.1.10.1 29079 1e6uA 321 5.57e-03 1bsvA c.2.1.2 29805 1brwA 433 7.14e-03 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1gtzA 156 7.75e-03 c.23.13.1 70539 1jmvA 141 8.61e-03 c.26.2.4 66897 1fzqA 181 9.19e-03 1hurA c.37.1.8 32060 1h05A 146 1.09e-02 c.23.13.1 76433 1ufoA 238 1.23e-02 c.69.1.27 99344 1uuqA 440 1.84e-02 c.1.8.3 100015 7odcA 424 2.02e-02 7odcA b.49.2.3,c.1.6.1 26488,28650 1f60A 458 2.41e-02 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1e4iA 447 2.51e-02 1e70M c.1.8.4 59225 1hjsA 332 2.52e-02 c.1.8.3 83492 1e0tA 470 3.09e-02 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1p1xA 260 3.34e-02 c.1.10.1 104060 1c93A 265 4.09e-02 2ebn c.1.8.5 28998 1g0cA 364 5.13e-02 7a3hA c.1.8.3 60165 1czaN 917 5.14e-02 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1d2nA 272 5.77e-02 1d2nA c.37.1.20 32428 1e4yA 214 6.03e-02 1zin c.37.1.1,g.41.2.1 31901,45181 1i6pA 220 7.61e-02 1ddzA c.53.2.1 61848 1w3iA 293 8.02e-02 c.1.10.1 109152 1vyrA 364 8.91e-02 c.1.4.1 108906 1gs5A 258 9.54e-02 c.73.1.2 70395 1cnzA 363 9.57e-02 1cnzA c.77.1.1 35061 1vhwA 253 9.71e-02 c.56.2.1 100706 1eexA 554 1.09e-01 1dioA c.1.19.3 29650 1nu0A 138 1.17e-01 c.55.3.8 92165 1yxyA 234 1.22e-01 1x9iA 302 1.23e-01 1efvB 255 1.74e-01 1efvB c.26.2.3 31634 1ir6A 424 1.79e-01 c.107.1.2 71342 1km4A 247 1.95e-01 c.1.2.3 72740 1xfkA 336 1.98e-01 1vc4A 254 1.98e-01 c.1.2.4 100557 1i0dA 332 2.09e-01 1pscA c.1.9.3 61487 2pth 193 2.10e-01 2pth c.56.3.1 33793 1xzoA 174 2.31e-01 1fobA 334 2.32e-01 c.1.8.3 83255 12asA 330 2.45e-01 12asA d.104.1.1 40783 1r8sA 164 2.49e-01 c.37.1.8 97247 1gesA 450 2.58e-01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1ivnA 190 2.61e-01 c.23.10.5 83719 1pwxA 254 2.77e-01 c.2.1.2 95262 2bkaA 242 2.80e-01 1o4vA 183 2.88e-01 c.23.8.1 86628 1kid 203 3.00e-01 1derA c.8.5.1 30771 1lzlA 323 3.09e-01 c.69.1.2 78306 1lv7A 257 3.15e-01 c.37.1.20 78232 1ra0A 430 3.26e-01 1ceo 343 3.30e-01 1ceo c.1.8.3 28808 1nvmA 345 3.40e-01 a.5.7.1,c.1.10.5 86249,86250 1a8s 273 3.65e-01 1brt c.69.1.12 34710 1snyA 267 3.67e-01 c.2.1.2 105833 1qd1A 325 4.04e-01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1ug6A 431 4.26e-01 c.1.8.4 88490 1mnaA 298 4.61e-01 c.69.1.22 79322 1edg 380 4.68e-01 1edg c.1.8.3 28807 1dv1A 449 4.95e-01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1cliA 345 5.01e-01 1cliA d.79.4.1,d.139.1.1 39816,41459 1ls1A 295 5.21e-01 a.24.13.1,c.37.1.10 78170,78171 1dosA 358 5.63e-01 1dosA c.1.10.2 29175 1nthA 458 5.64e-01 c.1.25.1 80730 2tpsA 227 5.75e-01 2tpsA c.1.3.1 28591 1k7cA 233 5.78e-01 c.23.10.4 68267 1dfmA 223 5.97e-01 1d2iA c.52.1.5 33295 1jtvA 327 6.29e-01 c.2.1.2 84230 1h5qA 265 6.52e-01 1cydA c.2.1.2 60643 1ve1A 304 6.61e-01 1eny 268 6.69e-01 1eny c.2.1.2 29910 1fh9A 312 7.29e-01 1taxA c.1.8.3 28913 1eq2A 310 7.36e-01 1eq2A c.2.1.2 29814 1qwgA 251 7.38e-01 c.1.27.1 96473 1ml4A 308 7.66e-01 c.78.1.1,c.78.1.1 79255,79256 1ej0A 180 7.78e-01 1ej0A c.66.1.2 34179 1o66A 275 8.14e-01 c.1.12.8 92547 1sfsA 240 8.71e-01 c.1.8.8 98846 1kfcA 268 8.78e-01 c.1.2.4 77371 1exbA 332 8.81e-01 1qrqA c.1.7.1 28666 1lucA 355 9.01e-01 1lucA c.1.16.1 29547 1v7zA 260 9.05e-01 c.125.1.1 100488 1aj2 282 9.07e-01 1aj2 c.1.21.1 29665 1ff9A 450 9.08e-01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1nfp 228 9.28e-01 1nfp c.1.16.2 29555 1vjpA 394 9.36e-01 c.2.1.3,d.81.1.3 100828,100829 1id0A 152 9.61e-01 d.122.1.3 66111 1eziA 228 9.62e-01 1eyrA c.68.1.13 34512 1ihoA 283 9.72e-01 1ihoA c.26.1.4 62390 1lqtA 456 9.74e-01 c.3.1.1,c.4.1.1 74198,74199 1y8aA 332 9.97e-01 1edt 271 1.02e+00 2ebn c.1.8.5 28993 1j6oA 268 1.03e+00 c.1.9.12 77088 1uk8A 282 1.07e+00 c.69.1.10 107907 1jbkA 195 1.14e+00 c.37.1.20 71631 1uehA 253 1.16e+00 c.101.1.1 99259 1p1mA 406 1.17e+00 b.92.1.4,c.1.9.9 87696,87697 1odzA 386 1.18e+00 c.1.8.3 86889 1ep3A 311 1.19e+00 2dorA c.1.4.1 28597 1gr0A 367 1.19e+00 c.2.1.3,d.81.1.3 70379,70380 1yacA 208 1.22e+00 1yacA c.33.1.3 31757 1g61A 228 1.23e+00 1g61A d.126.1.1 41126 1geqA 248 1.24e+00 2tysA c.1.2.4 28589 1o97C 264 1.27e+00 c.26.2.3 81232 1ekqA 272 1.29e+00 1c3qA c.72.1.2 34941 1jftA 340 1.32e+00 a.35.1.5,c.93.1.1 66652,66653 1m1nA 491 1.40e+00 c.92.2.3 78417 1b43A 340 1.42e+00 1a76 a.60.7.1,c.120.1.2 18092,33362 1o9iA 266 1.43e+00 a.25.1.3 92671 1gteA 1025 1.44e+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 1fmcA 255 1.46e+00 1cydA c.2.1.2 29856 1gnxA 479 1.47e+00 c.1.8.4 76241 1izcA 339 1.48e+00 c.1.12.5 83838 1vdkA 466 1.50e+00 a.127.1.1 100561 1giqA 413 1.55e+00 d.166.1.1,d.166.1.1 76224,76225 1muwA 386 1.63e+00 c.1.15.3 79495 1wddA 477 1.65e+00 1yx1A 264 1.74e+00 1ii7A 333 1.80e+00 1ii7A d.159.1.4 62415 1usgA 346 1.81e+00 c.93.1.1 99864 1thfD 253 1.86e+00 1thfD c.1.2.1 28535 1tjyA 316 1.91e+00 c.93.1.1 107062 1hl2A 297 1.97e+00 c.1.10.1 83581 1ag9A 175 1.97e+00 1rcf c.23.5.1 31178 1jflA 228 1.97e+00 c.78.2.1,c.78.2.1 71656,71657 1cvl 319 1.98e+00 1cvl c.69.1.18 34786 1guzA 310 2.01e+00 c.2.1.5,d.162.1.1 65586,65587 1fpzA 212 2.01e+00 1fpzA c.45.1.1 59976 1uuyA 167 2.10e+00 c.57.1.1 108059 1d8wA 426 2.12e+00 1de5A c.1.15.2 29394 1hqkA 154 2.12e+00 c.16.1.1 65902 1q6oA 216 2.14e+00 c.1.2.3 95986 1ix9A 205 2.15e+00 a.2.11.1,d.44.1.1 76899,76900 1rhcA 330 2.16e+00 c.1.16.3 97468 1nar 290 2.17e+00 1nar c.1.8.5 28988 16pk 415 2.18e+00 16pk c.86.1.1 35454 1ekeA 230 2.18e+00 1ekeA c.55.3.1 33572 1vkfA 188 2.21e+00 c.1.29.1 108656 1ujpA 271 2.23e+00 c.1.2.4 99462 1geeA 261 2.25e+00 c.2.1.2 90509 1jksA 294 2.27e+00 d.144.1.7 71710 1eceA 358 2.29e+00 1eceA c.1.8.3 28813 1q7zA 566 2.30e+00 c.1.21.2,c.1.26.1 96090,96091 1ewkA 490 2.41e+00 1ewkA c.93.1.1 35712 1cex 214 2.46e+00 1cex c.69.1.30 31285 1dysA 348 2.57e+00 1bvwA c.6.1.1 30669 1vpt 348 2.76e+00 3mag c.66.1.25 34207 1bkjA 240 2.77e+00 1bkjA d.90.1.1 40243 1f6yA 262 2.80e+00 1f6yA c.1.21.2 29673 1j8mF 297 2.83e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1in4A 334 2.90e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 1o98A 511 2.97e+00 c.105.1.1,c.76.1.3 86684,86685 1ccwA 137 2.99e+00 1be1 c.23.6.1 31238 1m4lA 307 2.99e+00 c.56.5.1 78604 1twdA 256 3.00e+00 c.1.30.1 107397 1hdcA 253 3.04e+00 1e6wA c.2.1.2 29862 1zoiA 276 3.08e+00 1s99A 200 3.09e+00 1npyA 271 3.21e+00 c.2.1.7,c.58.1.5 85995,85996 1js1X 324 3.22e+00 c.78.1.1,c.78.1.1 71834,71835 1bqcA 302 3.23e+00 1bqcA c.1.8.3 28831 1o7jA 327 3.27e+00 c.88.1.1 81140 1l8bA 190 3.27e+00 d.86.1.1 73683 1efvA 315 3.45e+00 1efvA c.26.2.3,c.31.1.2 31633,31728 1gqiA 708 3.49e+00 c.1.8.10,d.92.2.2 76279,76280 1aa6 715 3.60e+00 2napA b.52.2.2,c.81.1.1 26916,35324 1eg2A 319 3.68e+00 1eg2A c.66.1.11 34249 1k77A 260 3.69e+00 c.1.15.5 72096 1v6sA 390 3.77e+00 c.86.1.1 100424 1nnlA 225 3.81e+00 c.108.1.4 85906 1gtmA 419 3.83e+00 1hwyA c.2.1.7,c.58.1.1 30223,33871 1umkA 275 3.88e+00 1hkhA 279 3.92e+00 c.69.1.12 90628 1itxA 419 4.02e+00 c.1.8.5,d.26.3.1 71425,71426 1c7sA 858 4.05e+00 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1eswA 500 4.15e+00 1cwyA c.1.8.1 59500 1iirA 415 4.27e+00 1iirA c.87.1.5 62453 1a53 247 4.38e+00 1a53 c.1.2.4 28564 1jnyA 435 4.43e+00 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1f89A 291 4.48e+00 d.160.1.1 64988 1h5wA 309 4.48e+00 e.27.1.1 65635 1uf5A 303 4.50e+00 d.160.1.2 107808 1h3fA 432 4.54e+00 c.26.1.1,d.66.1.4 76631,76632 1gjwA 637 4.56e+00 b.71.1.1,c.1.8.1 60582,60583 1ct5A 256 4.57e+00 1ct5A c.1.6.2 28663 1fiuA 286 4.61e+00 1fiuA c.52.1.10 33317 1in6A 334 4.68e+00 1hqcA a.4.5.11,c.37.1.20 62601,62602 1vsrA 136 4.72e+00 1vsrA c.52.1.15 33332 1i39A 225 4.74e+00 1ekeA c.55.3.1 61585 1brt 277 4.75e+00 1brt c.69.1.12 34699 1n55A 251 4.82e+00 c.1.1.1 80007 1pv5A 264 4.94e+00 d.251.1.1 95150 1vfjA 116 4.97e+00 1ga6A 372 5.05e+00 1ga1A c.41.1.2 32556 1nvmB 312 5.07e+00 c.2.1.3,d.81.1.1 86251,86252 1xfiA 367 5.10e+00 e.50.1.1 109584 1jkmB 361 5.11e+00 1jkmA c.69.1.2 34634 1es9A 232 5.28e+00 1wab c.23.10.3 31340 1vhtA 218 5.30e+00 c.37.1.1 100700 1xm3A 264 5.36e+00 1dkuA 317 5.43e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 1s2wA 295 5.48e+00 c.1.12.7 98407 1i24A 404 5.51e+00 c.2.1.2 83663 4uagA 437 5.53e+00 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1b7yB 785 5.55e+00 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1jakA 512 5.64e+00 c.1.8.6,d.92.2.1 66472,66473 1d4oA 184 5.72e+00 1d4oA c.31.1.4 31748 1kolA 398 5.76e+00 b.35.1.2,c.2.1.1 77474,77475 1rv9A 259 5.97e+00 d.194.1.2 105105 1rkuA 206 6.05e+00 c.108.1.11 97627 1jeyB 565 6.10e+00 1jeqB b.131.1.2,c.62.1.4 90372,90373 1w2wB 191 6.25e+00 1uwcA 261 6.42e+00 c.69.1.17 100101 1g8lA 411 6.53e+00 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1vjvA 415 6.69e+00 d.3.1.9 108632 1gudA 288 6.71e+00 c.93.1.1 83326 1oc7A 364 6.75e+00 c.6.1.1 86794 1m7yA 435 6.76e+00 c.67.1.4 78761 1q8fA 313 6.81e+00 c.70.1.1 96203 1j4aA 333 6.86e+00 c.2.1.4,c.23.12.1 71502,71503 1g0oA 283 6.87e+00 1ybvA c.2.1.2 60181 1nofA 383 6.96e+00 b.71.1.2,c.1.8.3 92020,92021 1a5t 334 7.06e+00 1a5t a.80.1.1,c.37.1.20 18450,32423 1f5vA 240 7.22e+00 1bkjA d.90.1.1 40255 1ig3A 263 7.23e+00 1ig3A b.82.6.1,c.100.1.1 62358,62359 1gk8A 475 7.52e+00 c.1.14.1,d.58.9.1 65234,65235 1d3vA 323 7.63e+00 1d3vA c.42.1.1 32559 1h6dA 433 7.67e+00 c.2.1.3,d.81.1.5 65656,65657 1f0kA 364 7.85e+00 1f0kA c.87.1.2 35465 1edqA 540 7.90e+00 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1dbqA 289 7.92e+00 1qpzA c.93.1.1 35666 1c7gA 456 7.95e+00 c.67.1.2 90415 1ad2 228 8.04e+00 1ad2 e.24.1.1 43353 1iv3A 152 8.05e+00 d.79.5.1 76828 1ei9A 279 8.33e+00 1ei9A c.69.1.13 34713 1e6yA 569 8.51e+00 1mroA a.89.1.1,d.58.31.2 18529,39447 1iibA 106 8.56e+00 1iibA c.44.2.1 32648 1obdA 306 8.57e+00 d.143.1.1 86767 1fvpA 231 8.61e+00 1nfp c.1.16.2 29556 1b0uA 262 8.87e+00 1b0uA c.37.1.12 32370 1o54A 277 8.94e+00 c.66.1.13 92482 1dqwA 267 9.22e+00 1dqwA c.1.2.3 28551 1efpB 252 9.30e+00 1efvB c.26.2.3 31636 1hzdA 272 9.45e+00 c.14.1.3 65969 1i1wA 303 9.54e+00 c.1.8.3 76732 1mba 147 9.63e+00 2fal a.1.1.2 15149 1r6dA 337 9.76e+00 c.2.1.2 97148 1sgwA 214 9.96e+00 c.37.1.12 105541 1jdpA 441 9.97e+00 c.93.1.1 62906 1pg4A 652 1.02e+01 e.23.1.1 88067 1ro7A 259 1.02e+01 c.130.1.1 97667 8abp 306 1.02e+01 8abp c.93.1.1 35647 1jb7A 495 1.04e+01 1otcA b.40.4.3,b.40.4.3,b.40.4.3 62836,62837,62838 1r6xA 395 1.08e+01 b.122.1.3,c.26.1.5 97167,97168 1gveA 327 1.08e+01 c.1.7.1 70597 1dpgA 485 1.08e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1goiA 499 1.09e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1zin 217 1.09e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1vl2A 421 1.11e+01 c.26.2.1,d.210.1.1 108708,108709 2baa 243 1.13e+01 1cnsA d.2.1.1 36243 1iloA 77 1.13e+01 c.47.1.1 66205 1byi 224 1.19e+01 1byi c.37.1.10 32199 1c7qA 445 1.20e+01 2pgi c.80.1.2 35307 1xszA 356 1.21e+01 1qw9A 502 1.22e+01 b.71.1.2,c.1.8.3 96466,96467 1eb6A 177 1.24e+01 d.92.1.12 64895 1fiqC 763 1.24e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1am2 199 1.24e+01 1am2 b.86.1.2 28381 1go4A 205 1.26e+01 d.135.1.1 70292 1vmhA 144 1.27e+01 1qwnA 1045 1.28e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1hdoA 206 1.33e+01 1he2A c.2.1.2 60965 1csh 435 1.34e+01 1csh a.103.1.1 18880 1ixcA 294 1.35e+01 a.4.5.37,c.94.1.1 83764,83765 1v77A 212 1.37e+01 c.6.3.2 108402 2bl8A 103 1.37e+01 1orrA 347 1.39e+01 c.2.1.2 93460 1h1nA 305 1.40e+01 c.1.8.3 70855 1jqlB 140 1.41e+01 c.37.1.20 63234 1bjt 793 1.41e+01 1bjt e.11.1.1 43249 1a99A 344 1.42e+01 1pot c.94.1.1 35812 1rliA 184 1.43e+01 c.23.5.6 97647 1vljA 407 1.44e+01 e.22.1.2 108832 1uufA 369 1.45e+01 b.35.1.2,c.2.1.1 100006,100007 1g2qA 187 1.46e+01 c.61.1.1 65117 1v7rA 186 1.46e+01 c.51.4.1 100482 1fnnA 389 1.47e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1fecA 490 1.47e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1xmzA 241 1.49e+01 1f1eA 154 1.49e+01 a.22.1.2 64927 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73885 1gvhA 396 8.80e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1qq5A 253 8.80e+01 1qq5A c.108.1.1 43327 1jzgA 128 8.80e+01 b.6.1.1 67855 1iam 185 8.85e+01 1zxq b.1.1.3,b.1.1.4 21653,21689 1moq 368 8.87e+01 1moq c.80.1.1 35302 1je0A 236 8.93e+01 c.56.2.1 66581 1xq6A 253 8.96e+01 1vicA 262 8.97e+01 c.68.1.13 100756 1bgc 174 8.98e+01 1bgc a.26.1.1 16822