# List of top-scoring protein chains for t04-100-30-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 5.45e-03 1yyvA 131 8.57e-03 1hl9A 449 3.55e-02 b.71.1.3,c.1.8.11 90650,90651 1vlwA 217 4.20e-02 c.1.10.1 108868 1tbxA 99 7.80e-02 a.4.5.48 106748 1ub9A 100 1.18e-01 a.4.5.28 99159 2fswA 107 1.80e-01 1rxwA 336 3.17e-01 a.60.7.1,c.120.1.2 98059,98060 2a61A 145 4.50e-01 2f2eA 146 5.27e-01 2co5A 99 6.00e-01 2ethA 154 6.07e-01 1efdN 266 6.13e-01 1efdN c.92.2.1 35597 2fbiA 142 6.65e-01 1mkmA 249 6.79e-01 a.4.5.33,d.110.2.2 79242,79243 1iyxA 432 6.97e-01 c.1.11.1,d.54.1.1 83815,83816 1vbuA 328 7.70e-01 1stzA 338 9.06e-01 a.4.5.51,d.110.2.3 106009,106010 2ffjA 300 9.08e-01 1bgp 309 1.06e+00 1bgp a.93.1.1 18690 1ho1A 242 1.48e+00 1ho1A c.1.24.1 61097 2axpA 173 1.68e+00 1a8h 500 1.73e+00 1a8h a.27.1.1,c.26.1.1 16922,31589 1z7uA 112 1.81e+00 1kcxA 518 1.85e+00 b.92.1.3,c.1.9.6 90953,90954 1zjjA 263 2.34e+00 1sg4A 260 2.44e+00 1uz5A 402 2.46e+00 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 2b9hA 353 2.57e+00 3rubS 123 2.70e+00 1rboC d.73.1.1 39616 1xx4A 261 2.76e+00 8rucI 123 2.83e+00 1rboC d.73.1.1 39629 1h6pA 203 3.45e+00 a.146.1.1 60690 2c1gA 431 3.56e+00 1wxxA 382 3.63e+00 1xmaA 145 3.79e+00 1othA 321 3.79e+00 1othA c.78.1.1,c.78.1.1 35260,35261 1v7cA 351 3.84e+00 c.79.1.1 100446 2dfkA 402 3.84e+00 1wx1A 335 3.86e+00 2liv 344 3.91e+00 2liv c.93.1.1 35708 1ur4A 399 3.93e+00 2cwoA 197 4.14e+00 1tzvA 142 4.31e+00 a.79.1.1 107526 2c1iA 431 4.37e+00 1lt8A 406 4.53e+00 c.1.26.1 78186 2fpqA 444 4.68e+00 1bouB 302 4.79e+00 1bouB c.56.6.1 33859 2h17A 181 4.81e+00 1xmrA 243 5.20e+00 1zhvA 134 5.22e+00 1woyA 500 5.53e+00 1gmyA 261 5.54e+00 d.3.1.1 76236 1pqxA 91 5.55e+00 d.267.1.1 104296 1zkkA 167 5.68e+00 2azqA 311 5.70e+00 1zj6A 187 5.70e+00 1ctt 294 5.88e+00 1ctt c.97.1.1,c.97.1.1 36022,36023 2fymA 431 6.06e+00 1z15A 344 6.14e+00 2aaa 484 6.28e+00 7taa b.71.1.1,c.1.8.1 27777,28764 1z41A 338 6.32e+00 2b8tA 223 6.32e+00 1wqaA 455 6.35e+00 1hzdA 272 6.37e+00 c.14.1.3 65969 1hw1A 239 7.06e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1dpuA 99 7.07e+00 1dpuA a.4.5.16 16150 1am7A 158 7.17e+00 1am7A d.2.1.4 36981 2a2cA 478 7.42e+00 2c71A 216 7.55e+00 1ynpA 317 7.67e+00 1z1dA 103 7.90e+00 1ee8A 266 8.15e+00 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1p4xA 250 8.27e+00 a.4.5.28,a.4.5.28 87784,87785 1p0kA 349 8.55e+00 c.1.4.1 87648 1xd8A 289 8.77e+00 2a2dA 478 8.77e+00 1dpgA 485 8.83e+00 1dpgA c.2.1.3,d.81.1.5 30074,39989 1io2A 213 8.85e+00 1ekeA c.55.3.1 62612 1vkhA 273 8.92e+00 c.69.1.32 108662 1j33A 335 8.95e+00 c.39.1.1 77069 1qavA 90 9.05e+00 1qauA b.36.1.1 24777 1yx1A 264 9.10e+00 1qorA 327 9.13e+00 1qorA b.35.1.2,c.2.1.1 24766,29782 1eyzA 392 9.35e+00 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1g6oA 330 9.59e+00 1g6oA c.37.1.11 32430 1bg4 302 9.64e+00 1taxA c.1.8.3 28806 1rqbA 539 9.89e+00 a.5.7.2,c.1.10.5 105057,105058 1a88A 275 1.01e+01 1brt c.69.1.12 34707 1rpxA 230 1.02e+01 1rpxA c.1.2.2 28536 1uox 296 1.05e+01 1uox 1m5wA 243 1.06e+01 c.1.24.1 84836 1wrrA 301 1.06e+01 1r4uA 301 1.06e+01 d.96.1.4,d.96.1.4 97047,97048 1wy5A 317 1.07e+01 2b0cA 206 1.07e+01 1y93A 159 1.09e+01 1vcvA 226 1.09e+01 1xsrA 168 1.12e+01 1xsqA 168 1.14e+01 1s7hA 200 1.16e+01 d.58.48.2 105349 1czj 111 1.18e+01 3cyr a.138.1.1 19663 2fbhA 146 1.19e+01 1hr6A 475 1.23e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1eejA 216 1.23e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 2bbhA 269 1.26e+01 1ffa 214 1.27e+01 1cex c.69.1.30 31289 1gkpA 458 1.30e+01 b.92.1.3,c.1.9.6 70231,70232 2trxA 108 1.32e+01 1thx c.47.1.1 32719 2ddrA 306 1.35e+01 1oe8A 211 1.37e+01 a.45.1.1,c.47.1.5 86905,86906 2c8vA 288 1.49e+01 1dbxA 158 1.49e+01 1dbuA d.116.1.1 40928 1ltqA 301 1.49e+01 c.108.1.9,c.37.1.1 78208,78209 1jk3A 158 1.51e+01 d.92.1.11 66790 1v30A 124 1.51e+01 1xrtA 467 1.56e+01 1d9uA 154 1.58e+01 1am7A d.2.1.4 59111 1s95A 333 1.60e+01 d.159.1.3 105375 2asfA 137 1.61e+01 1xm3A 264 1.62e+01 2b6nA 278 1.64e+01 1zfjA 491 1.66e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1yqcA 170 1.70e+01 1w9zA 283 1.74e+01 1ly1A 181 1.75e+01 c.37.1.1 74334 1tfr 305 1.78e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1noyA 388 1.80e+01 1clqA c.55.3.5 33713 1gk8I 140 1.83e+01 d.73.1.1 65242 1i0dA 332 1.86e+01 1pscA c.1.9.3 61487 1vljA 407 1.86e+01 e.22.1.2 108832 1u08A 386 1.88e+01 c.67.1.1 107543 2iu4A 336 1.90e+01 2dkaA 544 1.97e+01 2glfA 450 1.99e+01 1jw9B 249 1.99e+01 c.111.1.1 67377 1qysA 106 2.02e+01 k.41.1.1 96603 1g8aA 227 2.03e+01 c.66.1.3 90506 1n91A 108 2.07e+01 d.206.1.1 80326 1theA 260 2.10e+01 1theB d.3.1.1 37056 1brwA 433 2.13e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1flmA 122 2.20e+01 1axj b.45.1.1 25747 1u3wA 374 2.20e+01 1n1jB 97 2.28e+01 a.22.1.3 79814 1qr6A 584 2.29e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1w6tA 444 2.29e+01 1hzyA 332 2.33e+01 1pscA c.1.9.3 61468 1seiA 130 2.36e+01 1seiA d.140.1.1 41463 2g7uA 257 2.37e+01 1yzgA 179 2.39e+01 1chmA 401 2.39e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 2gdqA 382 2.40e+01 2g0uA 92 2.46e+01 2d2jA 329 2.47e+01 2b3wA 168 2.48e+01 1pbgA 468 2.48e+01 1e70M c.1.8.4 28946 1z5zA 271 2.50e+01 1a8s 273 2.52e+01 1brt c.69.1.12 34710 1yl38 64 2.54e+01 2a72A 146 2.56e+01 1xuuA 349 2.57e+01 2ajrA 331 2.61e+01 1mzhA 225 2.61e+01 c.1.10.1 79698 1l6rA 227 2.62e+01 c.108.1.10 77768 2cbuA 468 2.71e+01 2c0cA 362 2.71e+01 1zy9A 564 2.74e+01 2b0lA 102 2.76e+01 2aamA 309 2.79e+01 2b81A 323 2.83e+01 1zin 217 2.84e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2anxA 146 2.89e+01 1j2gA 319 2.93e+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 1o1zA 234 2.94e+01 c.1.18.3 86555 2cujA 108 2.95e+01 1zmoA 244 2.96e+01 2acvA 463 2.98e+01 1wy1A 172 2.98e+01 1tvnA 293 2.99e+01 1mqsA 671 3.00e+01 e.25.1.1 79414 1va6A 518 3.01e+01 1gvnB 287 3.05e+01 c.37.1.21 76354 1w78A 422 3.06e+01 1ir21 140 3.09e+01 1hekA 131 3.15e+01 a.61.1.5 65818 1hu4A 288 3.15e+01 1hu4A 1n5dA 288 3.15e+01 c.2.1.2 80030 1vjnA 220 3.15e+01 d.157.1.4 100825 1xw8A 252 3.17e+01 1jgsA 138 3.18e+01 a.4.5.28 66683 1x72A 334 3.18e+01 d.126.1.6 109495 2g8lA 299 3.23e+01 1dv1A 449 3.29e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1rypB 250 3.29e+01 1rypB d.153.1.4 41933 1j1tA 233 3.31e+01 b.29.1.18 90771 1b35C 282 3.34e+01 1b35C 2b0jA 358 3.34e+01 1zip 217 3.43e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1umdA 367 3.48e+01 c.36.1.11 99599 1qnnA 191 3.50e+01 1avmA a.2.11.1,d.44.1.1 15792,38755 1rfeA 162 3.51e+01 1q59A 172 3.54e+01 f.1.4.1 95881 2b9eA 303 3.54e+01 2h21A 440 3.55e+01 1pytA 94 3.56e+01 1pytA d.58.3.1 39064 1e87A 118 3.57e+01 1b6e d.169.1.1 42327 1g0uL 241 3.57e+01 d.153.1.4 41894 1b24A 188 3.59e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1q6hA 224 3.61e+01 d.26.1.1 95975 1e4iA 447 3.69e+01 1e70M c.1.8.4 59225 1w3jA 468 3.72e+01 c.1.8.4 109156 1fecA 490 3.73e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1rkbA 173 3.74e+01 1lvaA 258 3.74e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1ockA 412 3.74e+01 c.117.1.1 86802 1zoiA 276 3.78e+01 1fzqA 181 3.79e+01 1hurA c.37.1.8 32060 1q6uA 245 3.80e+01 d.26.1.1 95998 1tz9A 367 3.80e+01 c.1.15.6 107466 2d13A 227 3.80e+01 1cex 214 3.81e+01 1cex c.69.1.30 31285 1z0pA 84 3.86e+01 2bm8A 236 3.86e+01 2czdA 208 3.90e+01 2fuqA 747 3.91e+01 1hq0A 295 3.94e+01 1hzgA d.194.1.1 61122 1wlnA 120 3.97e+01 1btkA 169 3.99e+01 1btkA b.55.1.1 26959 2f51A 118 4.00e+01 1gu7A 364 4.03e+01 b.35.1.2,c.2.1.1 83321,83322 4crxA 322 4.04e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 3xis 387 4.06e+01 4xis c.1.15.3 29423 1zchA 255 4.06e+01 4xis 387 4.14e+01 4xis c.1.15.3 29421 1q1hA 110 4.19e+01 a.4.5.41 95580 1kjqA 391 4.25e+01 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1orjA 130 4.32e+01 a.24.19.1 93456 1f44A 324 4.32e+01 a.60.9.1,d.163.1.1 64982,64983 1khbA 625 4.34e+01 c.91.1.1,c.109.1.1 68606,68607 1zsyA 357 4.47e+01 1gwmA 153 4.50e+01 b.18.1.19 83348 1wmaA 276 4.56e+01 1j8yF 297 4.61e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 5nul 138 4.64e+01 5nul c.23.5.1 31191 8rucA 475 4.65e+01 1burA c.1.14.1,d.58.9.1 29339,39245 1l6oA 95 4.74e+01 b.36.1.1 84534 1i60A 278 4.78e+01 c.1.15.4 71118 1ry6A 360 4.78e+01 c.37.1.9 98090 1v6tA 255 4.81e+01 2au3A 407 4.86e+01 2b8nA 429 4.90e+01 2etjA 250 4.92e+01 1g6sA 427 4.94e+01 1eps d.68.2.2 39584 1rxdA 159 4.95e+01 1rypE 242 5.00e+01 1rypE d.153.1.4 41936 1w0mA 226 5.03e+01 c.1.1.1 109027 1jb0F 164 5.10e+01 1jb0F f.23.16.1 62825 1yemA 179 5.19e+01 1xo0A 324 5.19e+01 1i1wA 303 5.27e+01 c.1.8.3 76732 1xa0A 328 5.27e+01 1ispA 181 5.30e+01 c.69.1.18 76778 1qc7A 101 5.34e+01 1qc7A a.118.14.1 18456 1elqA 390 5.37e+01 1elqA c.67.1.3 34436 1eluA 390 5.37e+01 1elqA c.67.1.3 34434 1a8y 367 5.37e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1sur 215 5.42e+01 1sur c.26.2.2 31620 1mlwA 301 5.43e+01 d.178.1.1 79289 1ryp1 222 5.46e+01 1ryp1 7taa 478 5.50e+01 7taa b.71.1.1,c.1.8.1 27778,28765 2dbbA 151 5.50e+01 1p3dA 475 5.55e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1zckA 154 5.58e+01 1jetA 517 5.60e+01 1jevA c.94.1.1 35718 1d8wA 426 5.61e+01 1de5A c.1.15.2 29394 2bnjA 303 5.63e+01 2cu1A 103 5.68e+01 2cg4A 152 5.70e+01 1m2kA 249 5.70e+01 c.31.1.5 84754 2f6uA 234 5.77e+01 1aky 221 5.79e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1avyA 74 5.80e+01 1avyB h.1.17.1 45656 1me4A 215 5.85e+01 d.3.1.1 79023 1x79B 112 5.86e+01 2gqrA 237 5.89e+01 1f2aA 215 5.92e+01 1cs8A d.3.1.1 37040 2f0aA 98 5.93e+01 2f8lA 344 5.97e+01 1frb 315 5.99e+01 1frb c.1.7.1 28665 1pd21 199 6.00e+01 1pd21 1rypA 243 6.02e+01 1pmaA d.153.1.4 41932 2aj2A 208 6.08e+01 1cnv 299 6.11e+01 1cnv c.1.8.5 28989 1k68A 140 6.11e+01 c.23.1.1 90943 2gshA 414 6.16e+01 1zi8A 236 6.17e+01 1mi3A 322 6.20e+01 c.1.7.1 91274 1e1hB 174 6.23e+01 1pyfA 312 6.24e+01 c.1.7.1 95334 1pu6A 218 6.25e+01 a.96.1.5 95123 1tqjA 230 6.29e+01 c.1.2.2 107228 2adcA 229 6.29e+01 1v5lA 103 6.31e+01 b.36.1.1 108378 1ra6A 461 6.46e+01 e.8.1.4 104879 1z7xW 461 6.52e+01 1ujpA 271 6.52e+01 c.1.2.4 99462 1tm9A 137 6.54e+01 a.225.1.1 107150 1h4wA 224 6.55e+01 b.47.1.2 65622 1hrnA 337 6.55e+01 1smrA b.50.1.2 26869 2a6cA 83 6.63e+01 1cuk 203 6.68e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1vpqA 273 6.74e+01 1or7C 90 6.75e+01 a.180.1.1 87336 1b5tA 275 6.78e+01 1b5tA c.1.23.1 29676 1nt2A 210 6.78e+01 c.66.1.3 86149 1zejA 293 6.78e+01 4enl 436 6.78e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1s4nA 348 6.79e+01 c.68.1.16 98501 1rwhA 757 6.84e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1zud1 251 6.87e+01 7a3hA 303 6.90e+01 7a3hA c.1.8.3 28817 2axoA 270 6.92e+01 1ydwA 362 6.94e+01 1p3jA 217 7.01e+01 c.37.1.1,g.41.2.1 94022,94023 1un7A 400 7.06e+01 b.92.1.5,c.1.9.10 99657,99658 1ydyA 356 7.08e+01 2a33A 215 7.09e+01 1h1yA 228 7.09e+01 c.1.2.2 76506 1i6wA 181 7.14e+01 1i6wA c.69.1.18 61859 1h99A 224 7.18e+01 a.142.1.1,a.142.1.1 60814,60815 1qbjA 81 7.21e+01 1qbjA a.4.5.19 16155 1aoa 275 7.21e+01 1aoa a.40.1.1,a.40.1.1 17396,17397 1ja9A 274 7.22e+01 c.2.1.2 62817 1sxrA 183 7.25e+01 d.118.1.1 106101 1ic6A 279 7.26e+01 1gci c.41.1.1 62257 1xgkA 352 7.34e+01 1k6xA 352 7.35e+01 c.2.1.2 68238 2lbp 346 7.35e+01 2liv c.93.1.1 35709 1tr9A 341 7.37e+01 1ta3B 303 7.39e+01 c.1.8.3 106732 4ubpC 570 7.42e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1zh5A 195 7.44e+01 1oywA 523 7.55e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1ny1A 240 7.59e+01 c.6.2.3 86395 1i4fB 100 7.63e+01 1agdB b.1.1.2 61689 1k5nB 100 7.63e+01 b.1.1.2 77268 2b30A 301 7.65e+01 1fukA 165 7.76e+01 1fukA c.37.1.19 32409 1vmeA 410 7.81e+01 c.23.5.1,d.157.1.3 108893,108894 1mzgA 146 7.91e+01 d.224.1.1 79696 1xewY 172 7.93e+01 1jakA 512 7.96e+01 c.1.8.6,d.92.2.1 66472,66473 1hp5A 512 7.97e+01 1hp4A c.1.8.6,d.92.2.1 61113,61114 1uesA 191 7.99e+01 a.2.11.1,d.44.1.1 107798,107799 1zq6A 359 8.00e+01 1q7zA 566 8.01e+01 c.1.21.2,c.1.26.1 96090,96091 1h3qA 140 8.05e+01 d.110.4.3 76652 1h3nA 878 8.08e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1sxjE 354 8.08e+01 a.80.1.1,c.37.1.20 106089,106090 2bexA 460 8.08e+01 1fmtA 314 8.08e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1knqA 175 8.13e+01 c.37.1.17 72786 1x24A 180 8.22e+01 1t71A 281 8.24e+01 2f9dP 43 8.29e+01 1y63A 184 8.29e+01 1j6qA 136 8.30e+01 b.40.9.1 77091 1e2aA 105 8.30e+01 1e2aA a.7.2.1 16322 2napA 723 8.32e+01 2napA b.52.2.2,c.81.1.1 26926,35334 2erfA 209 8.32e+01 1mzbA 136 8.41e+01 a.4.5.42 91497 1u2fA 90 8.43e+01 1u2fA d.58.7.1 39168 2al2A 436 8.48e+01 1zclA 180 8.51e+01 1z6aA 500 8.56e+01 1igs 248 8.57e+01 1a53 c.1.2.4 28565 1itxA 419 8.61e+01 c.1.8.5,d.26.3.1 71425,71426 1yoyA 175 8.61e+01 1u19A 349 8.63e+01 1v73A 342 8.68e+01 1mx3A 347 8.73e+01 c.2.1.4,c.23.12.1 79638,79639 1uz1A 468 8.74e+01 1p0iA 529 8.76e+01 c.69.1.1 93867 1sjiA 350 8.85e+01 1j0hA 588 8.98e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1ezwA 349 8.99e+01 1ezwA c.1.16.3 29558