# List of top-scoring protein chains for t06-100-30-stride-ebghtl-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 1i60A 278 3.84e-02 c.1.15.4 71118 1qtwA 285 5.24e-02 1qumA c.1.15.1 29392 1obdA 306 7.37e-02 d.143.1.1 86767 1e6uA 321 7.74e-02 1bsvA c.2.1.2 29805 1gtzA 156 1.44e-01 c.23.13.1 70539 1c93A 265 1.63e-01 2ebn c.1.8.5 28998 1jmvA 141 1.88e-01 c.26.2.4 66897 1edt 271 1.90e-01 2ebn c.1.8.5 28993 1ufoA 238 2.36e-01 c.69.1.27 99344 1x9iA 302 2.77e-01 1pdo 135 3.86e-01 1pdo c.54.1.1 33376 1f74A 293 4.20e-01 1nal3 c.1.10.1 29079 1o4vA 183 4.56e-01 c.23.8.1 86628 2pth 193 5.75e-01 2pth c.56.3.1 33793 1s99A 200 5.80e-01 1j0dA 341 6.08e-01 c.79.1.1 83902 1h05A 146 6.32e-01 c.23.13.1 76433 1brwA 433 8.72e-01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1i6pA 220 9.01e-01 1ddzA c.53.2.1 61848 1cliA 345 9.88e-01 1cliA d.79.4.1,d.139.1.1 39816,41459 1fmcA 255 1.43e+00 1cydA c.2.1.2 29856 1thfD 253 1.45e+00 1thfD c.1.2.1 28535 1mnaA 298 1.51e+00 c.69.1.22 79322 1qwgA 251 1.59e+00 c.1.27.1 96473 1c96A 753 1.73e+00 1amj c.8.2.1,c.83.1.1 30727,35403 1ir6A 424 1.87e+00 c.107.1.2 71342 1n55A 251 2.04e+00 c.1.1.1 80007 1p1jA 533 2.08e+00 c.2.1.3,d.81.1.3 87687,87688 1lv7A 257 2.10e+00 c.37.1.20 78232 1ix9A 205 2.11e+00 a.2.11.1,d.44.1.1 76899,76900 1jkmB 361 2.33e+00 1jkmA c.69.1.2 34634 1snyA 267 2.46e+00 c.2.1.2 105833 1vyrA 364 2.63e+00 c.1.4.1 108906 1dbqA 289 2.75e+00 1qpzA c.93.1.1 35666 7a3hA 303 2.91e+00 7a3hA c.1.8.3 28817 1e4yA 214 3.01e+00 1zin c.37.1.1,g.41.2.1 31901,45181 1afwA 393 3.11e+00 1afwA c.95.1.1,c.95.1.1 35900,35901 1dekA 241 3.48e+00 1dekA c.37.1.1 31842 1q9uA 130 3.62e+00 d.129.7.1 96314 1ypyA 184 3.71e+00 1h5qA 265 3.84e+00 1cydA c.2.1.2 60643 1fzqA 181 3.88e+00 1hurA c.37.1.8 32060 1a4iA 301 3.94e+00 1a4iA c.2.1.7,c.58.1.2 30278,33926 1km4A 247 4.01e+00 c.1.2.3 72740 1gzsB 165 4.10e+00 a.168.1.1 76425 1azsA 220 4.14e+00 1azsA d.58.29.1 39416 1g8mA 593 4.15e+00 1g8mA c.24.1.3,c.97.2.1 60371,60372 1hjsA 332 4.17e+00 c.1.8.3 83492 1r8sA 164 4.21e+00 c.37.1.8 97247 1a8s 273 4.34e+00 1brt c.69.1.12 34710 1ml4A 308 4.40e+00 c.78.1.1,c.78.1.1 79255,79256 1f60A 458 4.54e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1ra0A 430 4.65e+00 1qd1A 325 4.71e+00 1qd1A d.58.34.1,d.58.34.1 39493,39494 1ls1A 295 4.72e+00 a.24.13.1,c.37.1.10 78170,78171 1ewkA 490 4.79e+00 1ewkA c.93.1.1 35712 1uf5A 303 4.84e+00 d.160.1.2 107808 1a3c 181 4.84e+00 1a3c c.61.1.1 34095 1yxyA 234 5.10e+00 1p1xA 260 5.18e+00 c.1.10.1 104060 1jftA 340 5.61e+00 a.35.1.5,c.93.1.1 66652,66653 1nfp 228 5.66e+00 1nfp c.1.16.2 29555 1jl3A 139 5.72e+00 c.44.1.1 66826 1vhwA 253 5.79e+00 c.56.2.1 100706 1uuqA 440 6.31e+00 c.1.8.3 100015 1ihoA 283 6.80e+00 1ihoA c.26.1.4 62390 7odcA 424 6.84e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1o9iA 266 6.85e+00 a.25.1.3 92671 1gs5A 258 6.99e+00 c.73.1.2 70395 1mw9X 592 7.40e+00 e.10.1.1 91480 1yx1A 264 7.40e+00 1o7jA 327 7.45e+00 c.88.1.1 81140 2tpsA 227 7.90e+00 2tpsA c.1.3.1 28591 1h5wA 309 7.96e+00 e.27.1.1 65635 1gesA 450 8.10e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1q52A 314 8.13e+00 c.14.1.3 95846 1efvA 315 8.37e+00 1efvA c.26.2.3,c.31.1.2 31633,31728 1eg2A 319 8.93e+00 1eg2A c.66.1.11 34249 1uv7A 110 9.16e+00 d.67.4.1 100040 1dysA 348 9.19e+00 1bvwA c.6.1.1 30669 1vjpA 394 9.34e+00 c.2.1.3,d.81.1.3 100828,100829 1rliA 184 9.75e+00 c.23.5.6 97647 1dqzA 280 1.01e+01 1dqyA c.69.1.3 34638 1jw9B 249 1.03e+01 c.111.1.1 67377 1izcA 339 1.05e+01 c.1.12.5 83838 1dqwA 267 1.06e+01 1dqwA c.1.2.3 28551 1hkhA 279 1.07e+01 c.69.1.12 90628 1in4A 334 1.08e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 12asA 330 1.10e+01 12asA d.104.1.1 40783 1npyA 271 1.11e+01 c.2.1.7,c.58.1.5 85995,85996 4uagA 437 1.11e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1jksA 294 1.12e+01 d.144.1.7 71710 1lfpA 249 1.14e+01 e.39.1.1 73885 1gr0A 367 1.16e+01 c.2.1.3,d.81.1.3 70379,70380 1ga6A 372 1.18e+01 1ga1A c.41.1.2 32556 16pk 415 1.22e+01 16pk c.86.1.1 35454 1xfkA 336 1.23e+01 1gtmA 419 1.34e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1gteA 1025 1.34e+01 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 1y0bA 197 1.37e+01 1fh9A 312 1.37e+01 1taxA c.1.8.3 28913 1k4nA 192 1.42e+01 d.32.1.5 72059 1nthA 458 1.44e+01 c.1.25.1 80730 1j8mF 297 1.44e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1in6A 334 1.46e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1e8gA 560 1.48e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1ekqA 272 1.49e+01 1c3qA c.72.1.2 34941 1nu0A 138 1.49e+01 c.55.3.8 92165 1vc4A 254 1.53e+01 c.1.2.4 100557 1i88A 389 1.55e+01 c.95.1.2,c.95.1.2 66070,66071 1uozA 315 1.60e+01 1s2wA 295 1.60e+01 c.1.12.7 98407 1qw9A 502 1.62e+01 b.71.1.2,c.1.8.3 96466,96467 1gudA 288 1.62e+01 c.93.1.1 83326 1tl9A 339 1.62e+01 1dz3A 130 1.63e+01 1dz3A c.23.1.1 31105 1cqmA 101 1.64e+01 1ris d.58.14.1 39321 1v5vA 401 1.66e+01 1rkqA 282 1.69e+01 c.108.1.10 97621 1efvB 255 1.76e+01 1efvB c.26.2.3 31634 1es9A 232 1.80e+01 1wab c.23.10.3 31340 1jf8A 131 1.86e+01 c.44.1.1 66621 1tuaA 191 1.88e+01 d.51.1.1,d.51.1.1 107321,107322 1wvfA 520 1.89e+01 1xttA 216 1.90e+01 1ff9A 450 1.92e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1dpgA 485 1.94e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1ii7A 333 1.94e+01 1ii7A d.159.1.4 62415 2bhuA 602 1.96e+01 1h3fA 432 2.00e+01 c.26.1.1,d.66.1.4 76631,76632 1rhcA 330 2.02e+01 c.1.16.3 97468 1sbyA 254 2.03e+01 1ve1A 304 2.09e+01 1a70 97 2.10e+01 1awd d.15.4.1 37678 1dwkA 156 2.11e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1vhtA 218 2.11e+01 c.37.1.1 100700 1k3yA 221 2.11e+01 a.45.1.1,c.47.1.5 77245,77246 1k0wA 231 2.14e+01 c.74.1.1 77220 1m7yA 435 2.14e+01 c.67.1.4 78761 1hleA 345 2.16e+01 1ovaA e.1.1.1 42618 1edg 380 2.19e+01 1edg c.1.8.3 28807 1yacA 208 2.22e+01 1yacA c.33.1.3 31757 1bco 327 2.23e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1mba 147 2.25e+01 2fal a.1.1.2 15149 1o97C 264 2.25e+01 c.26.2.3 81232 1ag9A 175 2.25e+01 1rcf c.23.5.1 31178 1gnwA 211 2.25e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1iugA 352 2.26e+01 c.67.1.3 90699 1nr0A 611 2.31e+01 b.69.4.1,b.69.4.1 86078,86079 1uk8A 282 2.33e+01 c.69.1.10 107907 1g61A 228 2.35e+01 1g61A d.126.1.1 41126 1wvgA 359 2.38e+01 1byi 224 2.39e+01 1byi c.37.1.10 32199 1k7cA 233 2.41e+01 c.23.10.4 68267 1d8wA 426 2.41e+01 1de5A c.1.15.2 29394 1jwiB 125 2.41e+01 d.169.1.1 67384 8abp 306 2.43e+01 8abp c.93.1.1 35647 1pa7A 130 2.46e+01 a.40.1.1 94410 1i58A 189 2.47e+01 1b3qA d.122.1.3 61773 1rvkA 382 2.49e+01 c.1.11.2,d.54.1.1 97928,97929 1f0nA 285 2.51e+01 1dqyA c.69.1.3 34636 1faaA 124 2.58e+01 1erv c.47.1.1 32738 1iirA 415 2.58e+01 1iirA c.87.1.5 62453 1vimA 200 2.58e+01 c.80.1.3 100758 1geeA 261 2.66e+01 c.2.1.2 90509 1nnlA 225 2.69e+01 c.108.1.4 85906 1pwxA 254 2.70e+01 c.2.1.2 95262 1p1mA 406 2.73e+01 b.92.1.4,c.1.9.9 87696,87697 1o98A 511 2.77e+01 c.105.1.1,c.76.1.3 86684,86685 1pfvA 551 2.80e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1y8aA 332 2.83e+01 1g8lA 411 2.86e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1eemA 241 2.87e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1muwA 386 2.92e+01 c.1.15.3 79495 1n62B 809 2.96e+01 d.41.1.1,d.133.1.1 80092,80093 1cvl 319 2.97e+01 1cvl c.69.1.18 34786 1ayl 541 2.97e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1uekA 275 2.98e+01 d.14.1.5,d.58.26.5 88483,88484 1orvA 728 2.99e+01 b.70.3.1,c.69.1.24 87354,87355 1jo0A 98 3.02e+01 d.68.4.1 77140 1id0A 152 3.08e+01 d.122.1.3 66111 1ep3A 311 3.10e+01 2dorA c.1.4.1 28597 1tjyA 316 3.19e+01 c.93.1.1 107062 1el5A 389 3.20e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1uteA 313 3.23e+01 1uteA d.159.1.1 42078 1aa6 715 3.25e+01 2napA b.52.2.2,c.81.1.1 26916,35324 1qgvA 142 3.25e+01 1qgvA c.47.1.8 33056 1fnnA 389 3.25e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1v7zA 260 3.27e+01 c.125.1.1 100488 1zoiA 276 3.28e+01 1xmzA 241 3.33e+01 1ig3A 263 3.36e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1l8bA 190 3.39e+01 d.86.1.1 73683 1uaiA 224 3.40e+01 b.29.1.18 107761 1i39A 225 3.46e+01 1ekeA c.55.3.1 61585 1j3bA 529 3.51e+01 c.91.1.1,c.109.1.1 77071,77072 1w96A 554 3.51e+01 1rv9A 259 3.55e+01 d.194.1.2 105105 1eziA 228 3.56e+01 1eyrA c.68.1.13 34512 1brt 277 3.68e+01 1brt c.69.1.12 34699 1evlA 401 3.79e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1jeyA 609 3.91e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1c7sA 858 3.92e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1ug6A 431 3.93e+01 c.1.8.4 88490 1fc4A 401 3.97e+01 1bs0A c.67.1.4 59760 1hf8A 289 4.01e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1sz7A 200 4.05e+01 1m1nA 491 4.06e+01 c.92.2.3 78417 1nofA 383 4.07e+01 b.71.1.2,c.1.8.3 92020,92021 1usgA 346 4.07e+01 c.93.1.1 99864 4eugA 229 4.08e+01 3eugA c.18.1.1 31019 1s1fA 406 4.10e+01 1g6hA 257 4.12e+01 1gajA c.37.1.12 60318 1lzlA 323 4.14e+01 c.69.1.2 78306 1hdcA 253 4.14e+01 1e6wA c.2.1.2 29862 1auk 489 4.15e+01 1auk c.76.1.2 35030 1o66A 275 4.16e+01 c.1.12.8 92547 1ui0A 205 4.27e+01 c.18.1.2 99411 1e4iA 447 4.27e+01 1e70M c.1.8.4 59225 1m4lA 307 4.35e+01 c.56.5.1 78604 1h5uA 842 4.35e+01 1a8i c.87.1.4 60655 1vjvA 415 4.35e+01 d.3.1.9 108632 1w3iA 293 4.37e+01 c.1.10.1 109152 1ail 73 4.41e+01 1ail a.16.1.1 16381 1xffA 240 4.43e+01 d.153.1.1 109580 1kfcA 268 4.49e+01 c.1.2.4 77371 1eq2A 310 4.50e+01 1eq2A c.2.1.2 29814 1eqfA 280 4.53e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1b6rA 355 4.55e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1xzoA 174 4.56e+01 1f9vA 347 4.57e+01 1bg2 c.37.1.9 59745 1cg2A 393 4.65e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1e6yA 569 4.72e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1jqlB 140 4.72e+01 c.37.1.20 63234 1gkmA 509 4.75e+01 a.127.1.2 70228 1ogwA 76 4.80e+01 d.15.1.1 87001 1vjoA 393 4.80e+01 c.67.1.3 100827 1aq5A 47 4.87e+01 1aq5A h.1.6.1 45577 1wpnA 188 4.90e+01 1b65A 375 4.91e+01 1b65A d.154.1.1 42020 1g0cA 364 4.94e+01 7a3hA c.1.8.3 60165 1twdA 256 4.95e+01 c.1.30.1 107397 1m33A 258 4.96e+01 c.69.1.26 78514 2fneA 117 4.99e+01 1gnkA 112 5.02e+01 2pii d.58.5.1 39073 1cfr 285 5.06e+01 1cfr c.52.1.7 33312 1s2oA 244 5.08e+01 1zin 217 5.08e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1nxuA 333 5.17e+01 c.122.1.1 86389 1dfmA 223 5.22e+01 1d2iA c.52.1.5 33295 2baa 243 5.28e+01 1cnsA d.2.1.1 36243 1e19A 314 5.31e+01 1b7bA c.73.1.1 34967 1g3kA 174 5.32e+01 1nedA d.153.1.4 41989 1j31A 262 5.34e+01 d.160.1.2 90808 1dxy 333 5.38e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1gjwA 637 5.39e+01 b.71.1.1,c.1.8.1 60582,60583 1e0eA 55 5.48e+01 1wjcA a.4.10.1 59147 1f1eA 154 5.50e+01 a.22.1.2 64927 1f89A 291 5.54e+01 d.160.1.1 64988 1ccwA 137 5.56e+01 1be1 c.23.6.1 31238 1q0pA 223 5.57e+01 c.62.1.1 95507 1xk7A 408 5.57e+01 1j96A 323 5.62e+01 c.1.7.1 71616 1gk9B 557 5.66e+01 1hyvA 166 5.75e+01 1b9dA c.55.3.2 61424 1hl9A 449 5.75e+01 b.71.1.3,c.1.8.11 90650,90651 1lxjA 104 5.80e+01 d.58.48.1 84736 1h6kZ 98 5.88e+01 d.58.7.1 60686 1geqA 248 5.91e+01 2tysA c.1.2.4 28589 1oi2A 366 5.93e+01 c.119.1.2 103802 1f0lA 535 5.94e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1eny 268 5.96e+01 1eny c.2.1.2 29910 1hb6A 86 5.96e+01 a.11.1.1 70959 1nogA 177 5.97e+01 a.25.2.2 85923 1vsrA 136 6.09e+01 1vsrA c.52.1.15 33332 1ebfA 358 6.13e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1b43A 340 6.15e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1duvG 333 6.22e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1af7 274 6.25e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1iloA 77 6.37e+01 c.47.1.1 66205 1d7oA 297 6.41e+01 1enp c.2.1.2 29907 1fiqC 763 6.41e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 2igd 61 6.42e+01 2igd d.15.7.1 37821 1a8l 226 6.48e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1j9lA 247 6.49e+01 c.106.1.1 62762 1xqoA 256 6.55e+01 1dofA 403 6.55e+01 1c3cA a.127.1.1 19429 1am2 199 6.57e+01 1am2 b.86.1.2 28381 1smbA 154 6.62e+01 d.111.1.1 105756 1ctqA 166 6.62e+01 1ctqA c.37.1.8 31965 1ituA 369 6.69e+01 c.1.9.7 71423 1d3vA 323 6.71e+01 1d3vA c.42.1.1 32559 1sdsA 117 6.77e+01 d.79.3.1 105439 1w2wB 191 6.80e+01 1bc5A 269 6.86e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1v8yA 170 6.87e+01 1jnyA 435 6.89e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1e0tA 470 6.91e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1iw0A 215 6.94e+01 a.132.1.1 83720 1uehA 253 6.96e+01 c.101.1.1 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1g1xC 88 8.64e+01 1fjfR a.4.8.1 16249 1orrA 347 8.65e+01 c.2.1.2 93460 1ep3B 262 8.73e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1gvfA 286 8.78e+01 c.1.10.2 70599 1gk8A 475 8.79e+01 c.1.14.1,d.58.9.1 65234,65235 1jakA 512 8.79e+01 c.1.8.6,d.92.2.1 66472,66473 1exbA 332 8.81e+01 1qrqA c.1.7.1 28666 1d0qA 103 8.99e+01 1d0qA g.41.3.2 45208