# 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 1wa3A 205 1.03e-02 1hl9A 449 1.39e-02 b.71.1.3,c.1.8.11 90650,90651 1tbxA 99 3.74e-02 a.4.5.48 106748 1ub9A 100 4.59e-02 a.4.5.28 99159 2a61A 145 5.72e-02 2fbiA 142 9.98e-02 2fswA 107 1.32e-01 2co5A 99 2.43e-01 1rxwA 336 2.85e-01 a.60.7.1,c.120.1.2 98059,98060 2f2eA 146 3.07e-01 1stzA 338 3.48e-01 a.4.5.51,d.110.2.3 106009,106010 1ee8A 266 4.87e-01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 2dfkA 402 5.33e-01 1mkmA 249 5.99e-01 a.4.5.33,d.110.2.2 79242,79243 1bgp 309 6.89e-01 1bgp a.93.1.1 18690 2ethA 154 8.62e-01 1hr6A 475 8.68e-01 1hr6A d.185.1.1,d.185.1.1 61164,61165 2c1iA 431 9.54e-01 1z7uA 112 9.80e-01 1xrtA 467 9.98e-01 2fbhA 146 1.01e+00 2axpA 173 1.18e+00 1wqaA 455 1.24e+00 1vljA 407 1.27e+00 e.22.1.2 108832 1vbuA 328 1.41e+00 2fymA 431 1.48e+00 1jetA 517 1.49e+00 1jevA c.94.1.1 35718 1p4xA 250 1.74e+00 a.4.5.28,a.4.5.28 87784,87785 1zhvA 134 2.09e+00 2c71A 216 2.14e+00 1bouB 302 2.16e+00 1bouB c.56.6.1 33859 1h6pA 203 2.19e+00 a.146.1.1 60690 1rqbA 539 2.25e+00 a.5.7.2,c.1.10.5 105057,105058 1efdN 266 2.29e+00 1efdN c.92.2.1 35597 1sg4A 260 2.34e+00 2a2cA 478 2.55e+00 1j96A 323 2.57e+00 c.1.7.1 71616 1gmyA 261 2.68e+00 d.3.1.1 76236 1ur4A 399 2.69e+00 8rucI 123 3.00e+00 1rboC d.73.1.1 39629 2trxA 108 3.13e+00 1thx c.47.1.1 32719 1uz5A 402 3.51e+00 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1r4vA 171 3.53e+00 a.197.1.1 97049 1jw9B 249 3.86e+00 c.111.1.1 67377 2c8vA 288 4.14e+00 1g0cA 364 4.35e+00 7a3hA c.1.8.3 60165 1sdiA 213 4.51e+00 a.198.1.1 105437 1tfr 305 5.15e+00 1tfr a.60.7.1,c.120.1.2 18081,33351 1n1jB 97 5.21e+00 a.22.1.3 79814 2b9hA 353 5.32e+00 1d8wA 426 5.35e+00 1de5A c.1.15.2 29394 1tzvA 142 5.67e+00 a.79.1.1 107526 1z1dA 103 5.72e+00 2b8tA 223 5.84e+00 1tz9A 367 5.92e+00 c.1.15.6 107466 2al2A 436 6.24e+00 1hzdA 272 6.24e+00 c.14.1.3 65969 1m5wA 243 6.25e+00 c.1.24.1 84836 1oe8A 211 6.55e+00 a.45.1.1,c.47.1.5 86905,86906 2cq2A 114 6.77e+00 1mzhA 225 6.78e+00 c.1.10.1 79698 2b3wA 168 7.08e+00 1othA 321 7.16e+00 1othA c.78.1.1,c.78.1.1 35260,35261 2g0uA 92 7.18e+00 1wa5C 960 7.41e+00 1ra6A 461 7.54e+00 e.8.1.4 104879 1v7cA 351 7.58e+00 c.79.1.1 100446 2dkaA 544 7.63e+00 2fpqA 444 7.65e+00 1rkbA 173 8.04e+00 1lt8A 406 8.31e+00 c.1.26.1 78186 2ddrA 306 8.58e+00 1v30A 124 8.69e+00 1y93A 159 8.75e+00 1z41A 338 8.79e+00 1rwhA 757 8.98e+00 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1woyA 500 9.03e+00 1s1pA 331 9.16e+00 c.1.7.1 98350 1muwA 386 9.19e+00 c.1.15.3 79495 1zjjA 263 9.82e+00 1kjqA 391 9.96e+00 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1p0kA 349 1.00e+01 c.1.4.1 87648 1xsqA 168 1.01e+01 1hw1A 239 1.02e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1gk8I 140 1.03e+01 d.73.1.1 65242 1bg4 302 1.07e+01 1taxA c.1.8.3 28806 1dpgA 485 1.15e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1j0hA 588 1.16e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1y0kA 209 1.17e+01 1ltqA 301 1.20e+01 c.108.1.9,c.37.1.1 78208,78209 2awiA 317 1.22e+01 2czdA 208 1.25e+01 1vcvA 226 1.26e+01 1wohA 305 1.28e+01 c.42.1.1 109446 1nt2A 210 1.28e+01 c.66.1.3 86149 2acvA 463 1.28e+01 1ou0A 207 1.28e+01 c.23.17.1 93536 1wxxA 382 1.32e+01 1xo0A 324 1.34e+01 1lvaA 258 1.38e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1hrnA 337 1.40e+01 1smrA b.50.1.2 26869 1zejA 293 1.41e+01 1yhvA 297 1.41e+01 1ynpA 317 1.45e+01 1fzqA 181 1.47e+01 1hurA c.37.1.8 32060 1cuk 203 1.49e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 2g7uA 257 1.51e+01 1z5zA 271 1.52e+01 1frb 315 1.53e+01 1frb c.1.7.1 28665 1b24A 188 1.53e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1xd8A 289 1.53e+01 1e6yB 433 1.53e+01 1mroB a.89.1.1,d.58.31.2 18535,39453 2anxA 146 1.54e+01 1ly1A 181 1.64e+01 c.37.1.1 74334 1hq0A 295 1.67e+01 1hzgA d.194.1.1 61122 2cujA 108 1.70e+01 1wrrA 301 1.70e+01 1gai 472 1.70e+01 1ayx a.102.1.1 18819 1xuuA 349 1.71e+01 1h5uA 842 1.76e+01 1a8i c.87.1.4 60655 2b6nA 278 1.76e+01 1x1zA 252 1.76e+01 1ir21 140 1.81e+01 1s95A 333 1.81e+01 d.159.1.3 105375 1q59A 172 1.82e+01 f.1.4.1 95881 2bbhA 269 1.84e+01 1e87A 118 1.89e+01 1b6e d.169.1.1 42327 5nul 138 1.92e+01 5nul c.23.5.1 31191 1g6aA 271 1.93e+01 1btl e.3.1.1 42704 1eluA 390 1.98e+01 1elqA c.67.1.3 34434 1v7bA 185 1.99e+01 1seiA 130 2.00e+01 1seiA d.140.1.1 41463 1x72A 334 2.01e+01 d.126.1.6 109495 1u3wA 374 2.02e+01 1rrmA 386 2.06e+01 e.22.1.2 105081 1v73A 342 2.08e+01 1h3qA 140 2.10e+01 d.110.4.3 76652 1b35C 282 2.13e+01 1b35C 1w9zA 283 2.14e+01 1tvnA 293 2.18e+01 1va6A 518 2.19e+01 7taa 478 2.20e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1rz2A 254 2.21e+01 b.100.1.1 105130 1j2gA 319 2.24e+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 1zmoA 244 2.25e+01 1i1wA 303 2.28e+01 c.1.8.3 76732 1sjiA 350 2.30e+01 1gkpA 458 2.32e+01 b.92.1.3,c.1.9.6 70231,70232 1z15A 344 2.33e+01 1zkkA 167 2.34e+01 1d02A 202 2.38e+01 1d02A c.52.1.8 33313 1j8uA 325 2.38e+01 d.178.1.1 71611 2gq1A 332 2.40e+01 1a8s 273 2.41e+01 1brt c.69.1.12 34710 1io2A 213 2.41e+01 1ekeA c.55.3.1 62612 1jgsA 138 2.44e+01 a.4.5.28 66683 1zchA 255 2.47e+01 2al1A 436 2.47e+01 1bed 181 2.49e+01 1fvkA c.47.1.13 90330 2h21A 440 2.54e+01 1dv1A 449 2.54e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1szqA 483 2.54e+01 e.44.1.1 99045 1flmA 122 2.54e+01 1axj b.45.1.1 25747 1x79B 112 2.56e+01 2fuqA 747 2.57e+01 1wx1A 335 2.60e+01 1h1yA 228 2.61e+01 c.1.2.2 76506 1i6pA 220 2.63e+01 1ddzA c.53.2.1 61848 1zoiA 276 2.66e+01 1x0vA 354 2.68e+01 2b0cA 206 2.69e+01 1me4A 215 2.71e+01 d.3.1.1 79023 1cmcA 104 2.73e+01 1cmbA a.43.1.5 17462 1i0dA 332 2.75e+01 1pscA c.1.9.3 61487 1l6rA 227 2.77e+01 c.108.1.10 77768 1g8aA 227 2.79e+01 c.66.1.3 90506 1dbxA 158 2.83e+01 1dbuA d.116.1.1 40928 1ctt 294 2.86e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1l3lA 234 2.87e+01 a.4.6.2,d.110.5.1 73541,73542 1i1qB 192 2.90e+01 1qdlB c.23.16.1 61544 1w78A 422 2.94e+01 1ztsA 139 2.96e+01 1oneA 436 3.00e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1wy5A 317 3.07e+01 1mlwA 301 3.11e+01 d.178.1.1 79289 1cyo 93 3.14e+01 1cyo d.120.1.1 41065 1ic6A 279 3.21e+01 1gci c.41.1.1 62257 1a41 234 3.24e+01 1a41 d.163.1.2 42174 1xrsA 516 3.25e+01 3thiA 371 3.26e+01 2thiA c.94.1.1 35792 1i60A 278 3.29e+01 c.1.15.4 71118 1rypA 243 3.35e+01 1pmaA d.153.1.4 41932 1tr9A 341 3.37e+01 1xedA 117 3.42e+01 1j1tA 233 3.49e+01 b.29.1.18 90771 1rypB 250 3.60e+01 1rypB d.153.1.4 41933 1d9uA 154 3.62e+01 1am7A d.2.1.4 59111 1rr7A 129 3.69e+01 a.4.1.14 105075 1z0pA 84 3.72e+01 1btkA 169 3.73e+01 1btkA b.55.1.1 26959 5eau 548 3.77e+01 5eat a.102.4.1,a.128.1.3 18851,19443 2iu4A 336 3.78e+01 1qysA 106 3.79e+01 k.41.1.1 96603 1gppA 237 3.83e+01 b.86.1.2 76262 1rfeA 162 3.86e+01 1rro 108 3.94e+01 1a75A a.39.1.4 17195 1ydwA 362 3.98e+01 1ysqA 193 4.02e+01 1ef8A 261 4.06e+01 1ef8A c.14.1.3 30921 1ry6A 360 4.07e+01 c.37.1.9 98090 2ftwA 521 4.10e+01 2asfA 137 4.10e+01 1a0p 290 4.13e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1q77A 138 4.20e+01 c.26.2.4 96023 1s2dA 167 4.25e+01 c.23.14.1 98377 2gdqA 382 4.25e+01 1xw8A 252 4.27e+01 1ji1A 637 4.31e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1ujpA 271 4.33e+01 c.1.2.4 99462 1zin 217 4.37e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2b81A 323 4.37e+01 1zy9A 564 4.42e+01 1jdw 423 4.44e+01 1jdw d.126.1.2 41129 1h3fA 432 4.46e+01 c.26.1.1,d.66.1.4 76631,76632 1c1dA 355 4.57e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1m2kA 249 4.59e+01 c.31.1.5 84754 1vpqA 273 4.60e+01 1lj9A 144 4.65e+01 a.4.5.28 78035 2e2aA 105 4.68e+01 a.7.2.1 88499 1xb4A 202 4.73e+01 1v6tA 255 4.75e+01 1kid 203 4.76e+01 1derA c.8.5.1 30771 1rsgA 516 4.77e+01 1p3dA 475 4.79e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1kkhA 317 4.82e+01 d.14.1.5,d.58.26.3 72645,72646 1hekA 131 4.83e+01 a.61.1.5 65818 1r45A 204 4.88e+01 2erfA 209 4.93e+01 1brwA 433 4.96e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2au3A 407 4.99e+01 1j8mF 297 5.00e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1pu6A 218 5.02e+01 a.96.1.5 95123 1cex 214 5.05e+01 1cex c.69.1.30 31285 2gwgA 350 5.08e+01 1xf1A 926 5.08e+01 1wlyA 333 5.11e+01 1ispA 181 5.16e+01 c.69.1.18 76778 2d13A 227 5.16e+01 1aky 221 5.17e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1iynA 295 5.20e+01 a.93.1.1 90722 1mzgA 146 5.24e+01 d.224.1.1 79696 1eejA 216 5.28e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 2b8nA 429 5.35e+01 1orjA 130 5.40e+01 a.24.19.1 93456 1h99A 224 5.42e+01 a.142.1.1,a.142.1.1 60814,60815 1wy1A 172 5.46e+01 2gqrA 237 5.47e+01 1nofA 383 5.47e+01 b.71.1.2,c.1.8.3 92020,92021 1wcgA 464 5.53e+01 2b0lA 102 5.57e+01 1khbA 625 5.58e+01 c.91.1.1,c.109.1.1 68606,68607 1vkhA 273 5.59e+01 c.69.1.32 108662 1vjnA 220 5.63e+01 d.157.1.4 100825 1q4uA 151 5.63e+01 d.38.1.5 95828 2fl4A 149 5.64e+01 1ockA 412 5.66e+01 c.117.1.1 86802 1iu4A 331 5.70e+01 d.3.1.8 71430 1fmtA 314 5.71e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1ywqA 200 5.73e+01 1tx4A 198 5.79e+01 1tx4A a.116.1.1 19098 1oi6A 205 5.89e+01 b.82.1.1 103940 1pytA 94 5.94e+01 1pytA d.58.3.1 39064 1uesA 191 6.06e+01 a.2.11.1,d.44.1.1 107798,107799 1qhoA 686 6.06e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1lzlA 323 6.08e+01 c.69.1.2 78306 1sgwA 214 6.09e+01 c.37.1.12 105541 1knwA 425 6.16e+01 b.49.2.3,c.1.6.1 90969,90970 1dlwA 116 6.18e+01 1dlyA a.1.1.1 14982 1rcqA 357 6.18e+01 b.49.2.2,c.1.6.1 104882,104883 1wwiA 148 6.20e+01 1ow4A 129 6.21e+01 a.39.2.1 93628 1zi8A 236 6.23e+01 1uh4A 637 6.27e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1ny1A 240 6.27e+01 c.6.2.3 86395 1e8aA 91 6.34e+01 1b4cA a.39.1.2 17188 4ubpC 570 6.36e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1qavA 90 6.38e+01 1qauA b.36.1.1 24777 1chmA 401 6.39e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 2jdxA 385 6.40e+01 1jdw d.126.1.2 41139 1edqA 540 6.42e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1e4iA 447 6.44e+01 1e70M c.1.8.4 59225 1c3pA 375 6.70e+01 1c3pA c.42.1.2 32606 2a72A 146 6.77e+01 1a8y 367 6.77e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1ia8A 289 6.79e+01 1ia8A d.144.1.7 62112 1zp4A 304 6.84e+01 1y9aA 360 6.88e+01 2g8lA 299 6.93e+01 1ocxA 182 6.97e+01 b.81.1.3 86814 1gu7A 364 7.01e+01 b.35.1.2,c.2.1.1 83321,83322 1icpA 376 7.02e+01 1oyc c.1.4.1 62270 1yw0A 276 7.05e+01 1xewY 172 7.05e+01 1k7cA 233 7.08e+01 c.23.10.4 68267 2d69A 430 7.23e+01 1ryoA 327 7.28e+01 c.94.1.2 98108 2aamA 309 7.38e+01 1in4A 334 7.41e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 2cmuA 342 7.42e+01 2ez9A 603 7.44e+01 2etjA 250 7.46e+01 1cnzA 363 7.48e+01 1cnzA c.77.1.1 35061 2cwxA 430 7.48e+01 1kutA 230 7.51e+01 d.143.1.1 73017 1eny 268 7.51e+01 1eny c.2.1.2 29910 1o66A 275 7.61e+01 c.1.12.8 92547 1vlmA 219 7.67e+01 c.66.1.41 108836 2axoA 270 7.70e+01 1t0qA 498 7.73e+01 a.25.1.2 106220 1cnv 299 7.74e+01 1cnv c.1.8.5 28989 1fecA 490 7.79e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1o5zA 442 7.88e+01 c.59.1.2,c.72.2.2 92530,92531 2f6uA 234 7.92e+01 1kqfB 294 8.01e+01 d.58.1.5,f.23.22.1 75900,75901 7a3hA 303 8.04e+01 7a3hA c.1.8.3 28817 1r7jA 95 8.05e+01 a.4.5.49 104836 2es4D 332 8.06e+01 1z7xW 461 8.09e+01 1z5yE 149 8.18e+01 1fpzA 212 8.19e+01 1fpzA c.45.1.1 59976 1u2wA 122 8.28e+01 1o6dA 163 8.30e+01 c.116.1.3 92567 1m7vA 363 8.35e+01 d.174.1.1 78748 2b1xB 172 8.55e+01 1pinA 163 8.61e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1in6A 334 8.61e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1ituA 369 8.63e+01 c.1.9.7 71423 1iq4A 179 8.65e+01 1iq4A d.77.1.1 62641 1vhcA 224 8.66e+01 c.1.10.1 100661 2cbuA 468 8.74e+01 1cfr 285 8.75e+01 1cfr c.52.1.7 33312 1mla 309 8.78e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1l2tA 235 8.79e+01 c.37.1.12 73514 1q0rA 298 8.87e+01 c.69.1.28 95508 2glfA 450 8.89e+01 1gtmA 419 8.96e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1pa7A 130 8.97e+01 a.40.1.1 94410 1z94A 147 8.97e+01