# 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 1wa3A 205 8.94e-03 1hl9A 449 3.32e-02 b.71.1.3,c.1.8.11 90650,90651 1tbxA 99 7.62e-02 a.4.5.48 106748 1ub9A 100 1.16e-01 a.4.5.28 99159 2fswA 107 1.56e-01 1rxwA 336 3.31e-01 a.60.7.1,c.120.1.2 98059,98060 2a61A 145 3.74e-01 2f2eA 146 4.86e-01 2co5A 99 4.91e-01 2fbiA 142 5.75e-01 1mkmA 249 6.85e-01 a.4.5.33,d.110.2.2 79242,79243 1efdN 266 6.99e-01 1efdN c.92.2.1 35597 2ethA 154 7.36e-01 1bgp 309 9.48e-01 1bgp a.93.1.1 18690 1z7uA 112 1.30e+00 1vbuA 328 1.39e+00 2axpA 173 1.57e+00 1stzA 338 1.70e+00 a.4.5.51,d.110.2.3 106009,106010 2fpqA 444 1.84e+00 1sg4A 260 2.00e+00 1zjjA 263 2.74e+00 1wxxA 382 2.79e+00 2b9hA 353 3.00e+00 1zkkA 167 3.35e+00 1uz5A 402 3.39e+00 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 8rucI 123 3.46e+00 1rboC d.73.1.1 39629 1ur4A 399 3.91e+00 1h6pA 203 4.08e+00 a.146.1.1 60690 1othA 321 4.63e+00 1othA c.78.1.1,c.78.1.1 35260,35261 1ctt 294 4.73e+00 1ctt c.97.1.1,c.97.1.1 36022,36023 2dfkA 402 4.96e+00 1zhvA 134 4.96e+00 1gmyA 261 5.00e+00 d.3.1.1 76236 1wx1A 335 5.15e+00 1tzvA 142 5.17e+00 a.79.1.1 107526 1hzdA 272 5.23e+00 c.14.1.3 65969 1lt8A 406 5.26e+00 c.1.26.1 78186 1woyA 500 5.90e+00 1v7cA 351 5.94e+00 c.79.1.1 100446 2a2cA 478 6.47e+00 1bouB 302 6.53e+00 1bouB c.56.6.1 33859 1p4xA 250 6.64e+00 a.4.5.28,a.4.5.28 87784,87785 1xd8A 289 6.83e+00 2b8tA 223 6.93e+00 1xsqA 168 7.00e+00 1z15A 344 7.01e+00 2h17A 181 7.31e+00 2c1iA 431 7.38e+00 1dpgA 485 7.41e+00 1dpgA c.2.1.3,d.81.1.5 30074,39989 1d9uA 154 7.69e+00 1am7A d.2.1.4 59111 1z1dA 103 7.77e+00 1y93A 159 7.99e+00 1wqaA 455 8.03e+00 1oe8A 211 8.03e+00 a.45.1.1,c.47.1.5 86905,86906 1hw1A 239 8.21e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1zj6A 187 8.80e+00 2dkaA 544 8.97e+00 2fbhA 146 9.07e+00 1p0kA 349 9.21e+00 c.1.4.1 87648 1ee8A 266 9.32e+00 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1v30A 124 9.68e+00 2fymA 431 9.98e+00 1wy5A 317 1.00e+01 2b0cA 206 1.03e+01 2c8vA 288 1.03e+01 1yx1A 264 1.03e+01 1noyA 388 1.03e+01 1clqA c.55.3.5 33713 1vcvA 226 1.04e+01 1vkhA 273 1.05e+01 c.69.1.32 108662 2ddrA 306 1.05e+01 1bg4 302 1.09e+01 1taxA c.1.8.3 28806 1jw9B 249 1.09e+01 c.111.1.1 67377 2asfA 137 1.12e+01 2trxA 108 1.15e+01 1thx c.47.1.1 32719 1io2A 213 1.16e+01 1ekeA c.55.3.1 62612 1rqbA 539 1.16e+01 a.5.7.2,c.1.10.5 105057,105058 1wrrA 301 1.17e+01 1ynpA 317 1.17e+01 1qavA 90 1.21e+01 1qauA b.36.1.1 24777 1qysA 106 1.22e+01 k.41.1.1 96603 2c71A 216 1.24e+01 1w9zA 283 1.29e+01 1s95A 333 1.37e+01 d.159.1.3 105375 1ltqA 301 1.42e+01 c.108.1.9,c.37.1.1 78208,78209 1j2gA 319 1.45e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 2glfA 450 1.46e+01 1z41A 338 1.49e+01 1dbxA 158 1.57e+01 1dbuA d.116.1.1 40928 1m5wA 243 1.60e+01 c.1.24.1 84836 1i0dA 332 1.64e+01 1pscA c.1.9.3 61487 1flmA 122 1.70e+01 1axj b.45.1.1 25747 1n1jB 97 1.78e+01 a.22.1.3 79814 1rypB 250 1.81e+01 1rypB d.153.1.4 41933 2b6nA 278 1.82e+01 1brwA 433 1.84e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2gdqA 382 1.86e+01 1u3wA 374 1.86e+01 1vljA 407 1.88e+01 e.22.1.2 108832 1j1tA 233 1.90e+01 b.29.1.18 90771 1gkpA 458 1.93e+01 b.92.1.3,c.1.9.6 70231,70232 1seiA 130 1.99e+01 1seiA d.140.1.1 41463 1ly1A 181 1.99e+01 c.37.1.1 74334 2bbhA 269 2.01e+01 2anxA 146 2.04e+01 1eejA 216 2.04e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1xrtA 467 2.08e+01 1hr6A 475 2.09e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1b35C 282 2.12e+01 1b35C 1n91A 108 2.14e+01 d.206.1.1 80326 2iu4A 336 2.14e+01 2g0uA 92 2.20e+01 1rfeA 162 2.23e+01 1tfr 305 2.25e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1xuuA 349 2.25e+01 1gk8I 140 2.28e+01 d.73.1.1 65242 1mzhA 225 2.29e+01 c.1.10.1 79698 2cbuA 468 2.33e+01 1vjnA 220 2.34e+01 d.157.1.4 100825 1xm3A 264 2.35e+01 2b3wA 168 2.35e+01 1g8aA 227 2.35e+01 c.66.1.3 90506 2acvA 463 2.43e+01 1zfjA 491 2.46e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1chmA 401 2.48e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1jgsA 138 2.53e+01 a.4.5.28 66683 1wy1A 172 2.56e+01 1b24A 188 2.57e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 2b81A 323 2.57e+01 2f51A 118 2.59e+01 1x72A 334 2.66e+01 d.126.1.6 109495 1zmoA 244 2.71e+01 1z5zA 271 2.73e+01 1btkA 169 2.73e+01 1btkA b.55.1.1 26959 1w78A 422 2.75e+01 1a8s 273 2.75e+01 1brt c.69.1.12 34710 2g7uA 257 2.78e+01 1ockA 412 2.80e+01 c.117.1.1 86802 1ryp1 222 2.80e+01 1ryp1 1khbA 625 2.86e+01 c.91.1.1,c.109.1.1 68606,68607 2b0lA 102 2.94e+01 2cujA 108 2.95e+01 1xw8A 252 2.98e+01 1hq0A 295 3.00e+01 1hzgA d.194.1.1 61122 1hekA 131 3.05e+01 a.61.1.5 65818 1fecA 490 3.06e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1pytA 94 3.16e+01 1pytA d.58.3.1 39064 1zin 217 3.20e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1e87A 118 3.20e+01 1b6e d.169.1.1 42327 1cex 214 3.20e+01 1cex c.69.1.30 31285 1l6rA 227 3.22e+01 c.108.1.10 77768 1dv1A 449 3.23e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1rwhA 757 3.25e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1a8y 367 3.25e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1kjqA 391 3.30e+01 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 2bm8A 236 3.41e+01 2a72A 146 3.44e+01 2gqrA 237 3.44e+01 1zy9A 564 3.51e+01 1tvnA 293 3.52e+01 1o1zA 234 3.54e+01 c.1.18.3 86555 1e4iA 447 3.56e+01 1e70M c.1.8.4 59225 1tz9A 367 3.60e+01 c.1.15.6 107466 2aamA 309 3.63e+01 1wmaA 276 3.65e+01 2au3A 407 3.66e+01 2f6uA 234 3.67e+01 1lvaA 258 3.72e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1rypA 243 3.74e+01 1pmaA d.153.1.4 41932 1gu7A 364 3.85e+01 b.35.1.2,c.2.1.1 83321,83322 2b0jA 358 3.86e+01 1ir21 140 3.87e+01 2fuqA 747 3.89e+01 1gvnB 287 3.90e+01 c.37.1.21 76354 1v6tA 255 3.96e+01 5nul 138 3.99e+01 5nul c.23.5.1 31191 1z0pA 84 4.02e+01 1gwmA 153 4.04e+01 b.18.1.19 83348 1zejA 293 4.05e+01 1zoiA 276 4.18e+01 2a33A 215 4.23e+01 1x79B 112 4.24e+01 1ry6A 360 4.33e+01 c.37.1.9 98090 2b9eA 303 4.33e+01 1yemA 179 4.38e+01 1jetA 517 4.39e+01 1jevA c.94.1.1 35718 2ajrA 331 4.39e+01 1g6sA 427 4.41e+01 1eps d.68.2.2 39584 2etjA 250 4.51e+01 1va6A 518 4.53e+01 1xo0A 324 4.62e+01 1q59A 172 4.69e+01 f.1.4.1 95881 2d13A 227 4.70e+01 2g8lA 299 4.77e+01 1fzqA 181 4.79e+01 1hurA c.37.1.8 32060 1k5nB 100 4.80e+01 b.1.1.2 77268 1ra6A 461 4.82e+01 e.8.1.4 104879 1mi3A 322 4.84e+01 c.1.7.1 91274 2b8nA 429 4.89e+01 2czdA 208 4.91e+01 2gq1A 332 4.91e+01 1ws0A 156 4.96e+01 1rkbA 173 5.04e+01 1rxdA 159 5.07e+01 1eluA 390 5.08e+01 1elqA c.67.1.3 34434 1qc7A 101 5.16e+01 1qc7A a.118.14.1 18456 1i1wA 303 5.19e+01 c.1.8.3 76732 1xewY 172 5.21e+01 1zi8A 236 5.22e+01 1e1hB 174 5.22e+01 1iooA 196 5.27e+01 d.124.1.1 71250 1cnv 299 5.36e+01 1cnv c.1.8.5 28989 1fukA 165 5.40e+01 1fukA c.37.1.19 32409 1mlwA 301 5.41e+01 d.178.1.1 79289 2gshA 414 5.41e+01 1uesA 191 5.49e+01 a.2.11.1,d.44.1.1 107798,107799 2dbbA 151 5.54e+01 1a0p 290 5.64e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1orjA 130 5.65e+01 a.24.19.1 93456 1umdA 367 5.67e+01 c.36.1.11 99599 1h4wA 224 5.74e+01 b.47.1.2 65622 1h99A 224 5.78e+01 a.142.1.1,a.142.1.1 60814,60815 1itxA 419 5.85e+01 c.1.8.5,d.26.3.1 71425,71426 1tqjA 230 5.89e+01 c.1.2.2 107228 1z2iA 358 5.90e+01 1zchA 255 5.91e+01 1v73A 342 5.95e+01 1z7xW 461 5.96e+01 1zsyA 357 5.97e+01 1jksA 294 6.00e+01 d.144.1.7 71710 1jatB 138 6.07e+01 1jatB d.20.1.1 62819 1frb 315 6.07e+01 1frb c.1.7.1 28665 1pu6A 218 6.07e+01 a.96.1.5 95123 1p3dA 475 6.10e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1i1qB 192 6.12e+01 1qdlB c.23.16.1 61544 7taa 478 6.13e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1m2kA 249 6.18e+01 c.31.1.5 84754 1vpqA 273 6.20e+01 1tr9A 341 6.23e+01 1ic6A 279 6.25e+01 1gci c.41.1.1 62257 1w0mA 226 6.26e+01 c.1.1.1 109027 2cg4A 152 6.30e+01 1cuk 203 6.30e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1y0kA 209 6.31e+01 1hrnA 337 6.32e+01 1smrA b.50.1.2 26869 7a3hA 303 6.39e+01 7a3hA c.1.8.3 28817 1v7bA 185 6.40e+01 1x1iA 752 6.46e+01 1i60A 278 6.53e+01 c.1.15.4 71118 1s4nA 348 6.56e+01 c.68.1.16 98501 2cq2A 114 6.60e+01 1h3nA 878 6.60e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1sxrA 183 6.62e+01 d.118.1.1 106101 2f0aA 98 6.63e+01 1rypI 222 6.66e+01 d.153.1.4 41877 1aky 221 6.66e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1ispA 181 6.72e+01 c.69.1.18 76778 1mzgA 146 6.74e+01 d.224.1.1 79696 1rsgA 516 6.80e+01 2f9dP 43 6.85e+01 1v1hA 103 6.90e+01 b.83.1.1,h.1.17.1 108243,108244 1j6qA 136 6.91e+01 b.40.9.1 77091 2a6cA 83 6.92e+01 1bed 181 7.02e+01 1fvkA c.47.1.13 90330 1pyfA 312 7.03e+01 c.1.7.1 95334 2napA 723 7.10e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1g0cA 364 7.18e+01 7a3hA c.1.8.3 60165 2e2aA 105 7.23e+01 a.7.2.1 88499 1t71A 281 7.25e+01 1h3qA 140 7.30e+01 d.110.4.3 76652 1ysqA 193 7.31e+01 1x9pA 523 7.33e+01 1fmtA 314 7.36e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1knwA 425 7.39e+01 b.49.2.3,c.1.6.1 90969,90970 1d8wA 426 7.50e+01 1de5A c.1.15.2 29394 2h21A 440 7.54e+01 2fl4A 149 7.54e+01 1me4A 215 7.59e+01 d.3.1.1 79023 1muwA 386 7.60e+01 c.1.15.3 79495 2axoA 270 7.62e+01 1zh5A 195 7.68e+01 2a4aA 281 7.71e+01 1q7zA 566 7.73e+01 c.1.21.2,c.1.26.1 96090,96091 1h5uA 842 7.76e+01 1a8i c.87.1.4 60655 1sjiA 350 7.88e+01 2f8lA 344 7.95e+01 1avyA 74 8.01e+01 1avyB h.1.17.1 45656 1oi6A 205 8.02e+01 b.82.1.1 103940 1wraA 308 8.07e+01 1s2dA 167 8.20e+01 c.23.14.1 98377 1qbjA 81 8.21e+01 1qbjA a.4.5.19 16155 1u19A 349 8.22e+01 1jd1A 129 8.24e+01 1qu9A d.79.1.1 62890 1dekA 241 8.25e+01 1dekA c.37.1.1 31842 1zud1 251 8.25e+01 1po5A 476 8.29e+01 a.104.1.1 94963 1ta3B 303 8.32e+01 c.1.8.3 106732 1tm9A 137 8.34e+01 a.225.1.1 107150 1o5zA 442 8.37e+01 c.59.1.2,c.72.2.2 92530,92531 2fj6A 82 8.40e+01 1ny1A 240 8.41e+01 c.6.2.3 86395 1ydwA 362 8.47e+01 1u2wA 122 8.48e+01 1oywA 523 8.53e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 2c8mA 262 8.53e+01 1w3oA 216 8.54e+01 1ujpA 271 8.60e+01 c.1.2.4 99462 1j8uA 325 8.65e+01 d.178.1.1 71611 1pprM 312 8.87e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1g55A 343 8.99e+01 1g55A c.66.1.26 34247