# 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 1tbxA 99 7.05e-03 a.4.5.48 106748 2a61A 145 8.26e-03 1ub9A 100 1.48e-02 a.4.5.28 99159 2f2eA 146 1.55e-02 2fbiA 142 3.22e-02 2g7uA 257 3.87e-02 1z7uA 112 4.22e-02 2fswA 107 4.77e-02 1p4xA 250 4.84e-02 a.4.5.28,a.4.5.28 87784,87785 2b0lA 102 7.77e-02 1hw1A 239 1.03e-01 1e2xA a.4.5.6,a.78.1.1 16111,18441 2cg4A 152 1.04e-01 1r7jA 95 1.57e-01 a.4.5.49 104836 1hl9A 449 1.61e-01 b.71.1.3,c.1.8.11 90650,90651 1jgsA 138 2.37e-01 a.4.5.28 66683 1stzA 338 3.48e-01 a.4.5.51,d.110.2.3 106009,106010 8rucI 123 4.69e-01 1rboC d.73.1.1 39629 1mkmA 249 5.03e-01 a.4.5.33,d.110.2.2 79242,79243 1y0uA 96 7.27e-01 1xewY 172 9.77e-01 1bm9A 122 9.90e-01 1bm9A a.4.5.7 16116 2b8tA 223 1.18e+00 2dkaA 544 1.19e+00 1wa3A 205 1.32e+00 1ir21 140 1.43e+00 1sg4A 260 1.51e+00 1wddS 128 1.52e+00 1i0dA 332 1.73e+00 1pscA c.1.9.3 61487 1vixA 420 1.83e+00 c.56.5.4,d.58.19.1 100777,100778 2b95A 106 1.84e+00 1r85A 379 1.84e+00 c.1.8.3 104839 1seiA 130 1.86e+00 1seiA d.140.1.1 41463 1gk8I 140 1.92e+00 d.73.1.1 65242 2cujA 108 2.03e+00 2fbhA 146 2.16e+00 2cfxA 144 2.24e+00 1io0A 185 2.48e+00 c.10.1.1 76753 1f7cA 231 2.71e+00 1f7cA a.116.1.1 19107 1qbjA 81 2.77e+00 1qbjA a.4.5.19 16155 1xgsA 295 2.83e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 2c5uA 375 3.12e+00 2cohA 202 3.24e+00 1q8dA 108 3.50e+00 a.228.1.1 104554 1rxwA 336 4.06e+00 a.60.7.1,c.120.1.2 98059,98060 2f71A 298 4.17e+00 1nar 290 4.23e+00 1nar c.1.8.5 28988 1erjA 393 4.27e+00 1erjA b.69.4.1 27660 1s2oA 244 4.60e+00 2fp4B 395 4.77e+00 1lddA 74 5.27e+00 a.4.5.34 73841 1j75A 67 5.87e+00 a.4.5.19 62673 1edqA 540 6.36e+00 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1z91A 147 6.83e+00 1k8kC 372 6.93e+00 b.69.4.1 68308 1y2qA 143 6.94e+00 1v1hA 103 7.33e+00 b.83.1.1,h.1.17.1 108243,108244 1a8q 274 7.90e+00 1brt c.69.1.12 34702 1vcvA 226 8.03e+00 1q2lA 939 8.34e+00 2g0wA 296 8.49e+00 1k78A 149 8.61e+00 a.4.1.5,a.4.1.5 68255,68256 1yspA 181 8.67e+00 1o6dA 163 8.91e+00 c.116.1.3 92567 1mo0A 275 8.94e+00 c.1.1.1 79329 1flmA 122 9.04e+00 1axj b.45.1.1 25747 2ethA 154 9.40e+00 1ohlA 342 9.57e+00 c.1.10.3 87035 1ulyA 192 9.82e+00 1wohA 305 9.88e+00 c.42.1.1 109446 1h5qA 265 9.92e+00 1cydA c.2.1.2 60643 1sfsA 240 9.94e+00 c.1.8.8 98846 2axoA 270 9.94e+00 1h1yA 228 9.98e+00 c.1.2.2 76506 1gkpA 458 1.01e+01 b.92.1.3,c.1.9.6 70231,70232 1muwA 386 1.03e+01 c.1.15.3 79495 1r1tA 122 1.06e+01 a.4.5.5 104769 1i1qB 192 1.10e+01 1qdlB c.23.16.1 61544 1bouB 302 1.11e+01 1bouB c.56.6.1 33859 1sd4A 126 1.13e+01 a.4.5.39 105428 1jmcA 246 1.14e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1zybA 232 1.15e+01 1pa1A 310 1.15e+01 c.45.1.2 94404 2b8nA 429 1.20e+01 1jofA 365 1.21e+01 b.69.10.1 71775 1bjaA 95 1.25e+01 1bjaA a.4.5.9 16122 1u5tA 233 1.26e+01 a.4.5.54,a.4.5.54 107684,107685 2bneA 241 1.26e+01 1in6A 334 1.27e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1in4A 334 1.27e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1k77A 260 1.27e+01 c.1.15.5 72096 1nt2A 210 1.32e+01 c.66.1.3 86149 1nrwA 288 1.32e+01 c.108.1.10 86128 1y0yA 353 1.34e+01 1bia 321 1.35e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1y88A 199 1.36e+01 1mla 309 1.41e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1dlwA 116 1.41e+01 1dlyA a.1.1.1 14982 1ynfA 458 1.47e+01 2gr8A 99 1.47e+01 2cq2A 114 1.47e+01 1k61A 60 1.50e+01 a.4.1.1 77270 2cb2A 318 1.53e+01 1wxxA 382 1.54e+01 1o82A 70 1.61e+01 a.64.2.1 92630 1mml 265 1.64e+01 1mml e.8.1.2 43015 1tfr 305 1.66e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1e6yB 433 1.68e+01 1mroB a.89.1.1,d.58.31.2 18535,39453 1gefA 123 1.70e+01 1gefA c.52.1.18 60465 1s95A 333 1.70e+01 d.159.1.3 105375 1lvaA 258 1.71e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1qc7A 101 1.74e+01 1qc7A a.118.14.1 18456 1k8qA 377 1.77e+01 c.69.1.6 72177 1jjtA 228 1.79e+01 1a7tA d.157.1.1 63139 2etjA 250 1.81e+01 1o60A 292 1.83e+01 c.1.10.4 92532 1ly1A 181 1.84e+01 c.37.1.1 74334 1gxrA 337 1.85e+01 b.69.4.1 70722 1z1dA 103 1.86e+01 1uyjA 296 1.93e+01 f.8.1.2 108143 1hbnB 442 1.96e+01 1mroB a.89.1.1,d.58.31.2 60900,60901 1zarA 282 1.96e+01 1uzmA 247 1.99e+01 1z41A 338 2.00e+01 1hw5A 210 2.02e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1nxuA 333 2.04e+01 c.122.1.1 86389 1tuaA 191 2.16e+01 d.51.1.1,d.51.1.1 107321,107322 1xx6A 191 2.17e+01 1ufwA 95 2.23e+01 d.58.7.1 99358 1zchA 255 2.27e+01 1r5mA 425 2.29e+01 1nr0A 611 2.33e+01 b.69.4.1,b.69.4.1 86078,86079 2ajrA 331 2.36e+01 1ois 223 2.42e+01 1a36A e.15.1.1 43267 1f74A 293 2.46e+01 1nal3 c.1.10.1 29079 2c8sA 172 2.47e+01 1s1fA 406 2.47e+01 1m4lA 307 2.47e+01 c.56.5.1 78604 1jksA 294 2.48e+01 d.144.1.7 71710 1ynpA 317 2.54e+01 1b6rA 355 2.56e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1r2rA 248 2.58e+01 c.1.1.1 96875 1dtdA 303 2.60e+01 1aye c.56.5.1 33823 1dekA 241 2.66e+01 1dekA c.37.1.1 31842 1xfiA 367 2.69e+01 e.50.1.1 109584 1l6sA 323 2.70e+01 c.1.10.3 73627 2avuE 192 2.71e+01 1wi9A 72 2.71e+01 2g45A 129 2.76e+01 1ihoA 283 2.76e+01 1ihoA c.26.1.4 62390 1wrrA 301 2.84e+01 1wa5B 530 2.84e+01 1ny1A 240 2.84e+01 c.6.2.3 86395 1u9cA 224 2.86e+01 1vqqA 646 2.87e+01 2msbA 115 2.88e+01 1rtm1 d.169.1.1 42355 1t77A 414 2.88e+01 1q7fA 286 2.89e+01 b.68.9.1 96036 1wj5A 120 2.91e+01 1yj7A 171 2.92e+01 1ceo 343 2.94e+01 1ceo c.1.8.3 28808 1ummA 172 2.96e+01 a.3.1.1 107958 2gwgA 350 2.97e+01 2fxaA 207 2.97e+01 1ujpA 271 2.97e+01 c.1.2.4 99462 1snnA 227 3.00e+01 d.115.1.2 105821 2fhzA 109 3.04e+01 1ixcA 294 3.05e+01 a.4.5.37,c.94.1.1 83764,83765 1lvmA 229 3.06e+01 b.47.1.3 78243 2b99A 156 3.10e+01 1rvkA 382 3.11e+01 c.1.11.2,d.54.1.1 97928,97929 2fnuA 375 3.11e+01 1n35A 1267 3.15e+01 e.8.1.4 79935 1rxdA 159 3.18e+01 1jhfA 202 3.19e+01 a.4.5.2,b.87.1.1 63057,63058 1h72C 296 3.20e+01 d.14.1.5,d.58.26.1 60712,60713 1sfuA 75 3.27e+01 a.4.5.19 105503 1zbfA 142 3.32e+01 1v73A 342 3.34e+01 1mzhA 225 3.52e+01 c.1.10.1 79698 1on2A 142 3.53e+01 a.4.5.24,a.76.1.1 87103,87104 1wkbA 810 3.54e+01 1gs5A 258 3.55e+01 c.73.1.2 70395 1zi8A 236 3.58e+01 1wojA 214 3.59e+01 2gqrA 237 3.65e+01 7a3hA 303 3.65e+01 7a3hA c.1.8.3 28817 1ne2A 200 3.66e+01 c.66.1.32 85586 1ltqA 301 3.66e+01 c.108.1.9,c.37.1.1 78208,78209 2ab0A 205 3.68e+01 1v77A 212 3.68e+01 c.6.3.2 108402 1ooeA 236 3.69e+01 c.2.1.2 87196 2d1sA 548 3.72e+01 2ae0X 345 3.73e+01 1zthA 258 3.77e+01 1zoiA 276 3.80e+01 1qz9A 416 3.84e+01 c.67.1.3 96621 1xyzA 347 3.88e+01 1taxA c.1.8.3 28804 1yvoA 172 3.89e+01 2gaeA 346 3.89e+01 1q1aA 289 3.92e+01 c.31.1.5 95561 1avyA 74 3.98e+01 1avyB h.1.17.1 45656 1mzbA 136 3.99e+01 a.4.5.42 91497 2atzA 180 4.05e+01 1c3pA 375 4.10e+01 1c3pA c.42.1.2 32606 1t95A 240 4.13e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1xn7A 78 4.18e+01 1qxoA 388 4.26e+01 d.258.1.1 96539 1r1uA 106 4.26e+01 a.4.5.5 104771 1wdtA 665 4.30e+01 1tzyB 126 4.31e+01 a.22.1.1 107531 1sq9A 397 4.37e+01 b.69.4.1 105889 2bo9A 308 4.44e+01 1utg 70 4.46e+01 1utg a.101.1.1 18813 1mg7A 417 4.46e+01 d.14.1.6,d.58.26.6 84954,84955 1efnB 152 4.51e+01 1efnB d.102.1.1 40699 1qwgA 251 4.54e+01 c.1.27.1 96473 1w3oA 216 4.56e+01 1je0A 236 4.60e+01 c.56.2.1 66581 2cc0A 195 4.63e+01 2cbuA 468 4.64e+01 2awkA 228 4.64e+01 1zin 217 4.67e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2agaA 190 4.69e+01 1a76 326 4.74e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1o1zA 234 4.81e+01 c.1.18.3 86555 1me4A 215 4.87e+01 d.3.1.1 79023 1byfA 125 4.90e+01 1byfA d.169.1.1 42419 1geqA 248 4.94e+01 2tysA c.1.2.4 28589 1m5wA 243 4.94e+01 c.1.24.1 84836 1xmkA 79 5.00e+01 1brt 277 5.04e+01 1brt c.69.1.12 34699 1j8fA 323 5.04e+01 1j8fA c.31.1.5 62738 1frb 315 5.06e+01 1frb c.1.7.1 28665 1dpgA 485 5.10e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1zsyA 357 5.17e+01 1qzzA 374 5.21e+01 a.4.5.29,c.66.1.12 96719,96720 1rcqA 357 5.25e+01 b.49.2.2,c.1.6.1 104882,104883 1x1zA 252 5.27e+01 2aamA 309 5.28e+01 1gx5A 536 5.44e+01 e.8.1.4 70682 2f6uA 234 5.45e+01 1yh2A 175 5.50e+01 2d42A 249 5.55e+01 2fokA 579 5.55e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1a8y 367 5.60e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1tm9A 137 5.66e+01 a.225.1.1 107150 1yn9A 169 5.69e+01 1nkiA 135 5.69e+01 d.32.1.2 91941 1d3vA 323 5.71e+01 1d3vA c.42.1.1 32559 1ex7A 186 5.73e+01 1gky c.37.1.1 59537 1ufmA 84 5.76e+01 a.4.5.47 107816 1p42A 270 5.79e+01 d.14.1.7,d.14.1.7 87754,87755 1gky 187 5.80e+01 1gky c.37.1.1 31839 1fnnA 389 5.82e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1csh 435 5.86e+01 1csh a.103.1.1 18880 1sqhA 312 5.88e+01 d.108.1.5 98966 1h3qA 140 5.90e+01 d.110.4.3 76652 1izoA 417 5.93e+01 a.104.1.1 83851 1twiA 434 5.95e+01 b.49.2.3,c.1.6.1 107399,107400 1squA 155 5.97e+01 d.252.1.1 98971 1rk6A 496 5.99e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1u9tA 354 6.01e+01 1u7nA 336 6.04e+01 c.77.1.4 107726 1bqbA 301 6.08e+01 1hyt d.92.1.2 58962 1qxyA 252 6.10e+01 d.127.1.1 96565 1jndA 420 6.13e+01 c.1.8.5,d.26.3.1 71757,71758 1v02A 565 6.14e+01 c.1.8.4 108194 2c1iA 431 6.23e+01 1chuA 540 6.23e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1l7mA 211 6.30e+01 c.108.1.4 73664 1sgwA 214 6.33e+01 c.37.1.12 105541 2dg5A 366 6.34e+01 1us0A 316 6.34e+01 c.1.7.1 99850 1t3yA 141 6.36e+01 1ob8A 135 6.36e+01 1jbeA 128 6.41e+01 3chy c.23.1.1 62845 1din 236 6.42e+01 1din c.69.1.9 34682 1h6gA 256 6.42e+01 1h6gA a.24.9.1,a.24.9.1 60669,60670 1fpzA 212 6.46e+01 1fpzA c.45.1.1 59976 1n6zA 105 6.49e+01 d.263.1.1 85369 1nu0A 138 6.51e+01 c.55.3.8 92165 2dpmA 284 6.53e+01 2dpmA c.66.1.28 34246 2gx9A 129 6.56e+01 1bdmA 327 6.57e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 2b9hA 353 6.58e+01 2fl4A 149 6.63e+01 2f5gA 133 6.64e+01 1khbA 625 6.68e+01 c.91.1.1,c.109.1.1 68606,68607 1aa7A 158 6.75e+01 1aa7A a.95.1.1 18741 1s1hC 192 6.80e+01 i.1.1.1 105156 1zhvA 134 6.81e+01 1qntA 176 6.84e+01 1sfe a.4.2.1,c.55.7.1 16074,33749 1tljA 213 6.86e+01 d.282.1.1 107126 1c7gA 456 6.90e+01 c.67.1.2 90415 2c3nA 247 6.92e+01 2evaA 307 6.97e+01 1wqaA 455 7.03e+01 1y08A 323 7.03e+01 1unkA 87 7.04e+01 1cei a.28.2.1 16935 1lfb 99 7.06e+01 1lfb a.4.1.1 15989 2cxcA 144 7.15e+01 1cnzA 363 7.26e+01 1cnzA c.77.1.1 35061 1go4E 100 7.30e+01 h.1.22.1 70296 1ti5A 46 7.32e+01 1q1vA 70 7.36e+01 a.159.4.1 104479 1kgsA 225 7.45e+01 a.4.6.1,c.23.1.1 68596,68597 2acvA 463 7.45e+01 1o9wA 177 7.46e+01 b.2.3.5 86713 1jhgA 101 7.46e+01 1jhgA a.4.12.1 19009 3proC 166 7.48e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1xd8A 289 7.48e+01 1ucrA 78 7.50e+01 a.4.5.45 99188 2fpoA 202 7.56e+01 2az4A 429 7.61e+01 1iomA 377 7.66e+01 a.103.1.1 83698 1fm4A 159 7.67e+01 1bv1 d.129.3.1 76186 1r6lA 239 7.69e+01 d.14.1.4,d.101.1.1 97153,97154 1ptmA 329 7.69e+01 c.77.1.3 95104 1knwA 425 7.75e+01 b.49.2.3,c.1.6.1 90969,90970 1byrA 155 7.82e+01 1byrA d.136.1.1 41450 1dzfA 215 7.83e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1tz9A 367 7.85e+01 c.1.15.6 107466 2c8mA 262 7.88e+01 1fp1D 372 7.91e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1d8wA 426 7.94e+01 1de5A c.1.15.2 29394 1w9hA 427 7.96e+01 2a1fA 247 7.97e+01 1zd3A 555 7.98e+01 1h2wA 710 8.07e+01 b.69.7.1,c.69.1.4 76596,76597 2f06A 144 8.15e+01 1bjt 793 8.16e+01 1bjt e.11.1.1 43249 1z67A 135 8.22e+01 1n7hA 381 8.26e+01 c.2.1.2 80250 1tf1A 198 8.31e+01 d.110.2.2 106826 1jfxA 217 8.37e+01 c.1.8.8 62943 1mx3A 347 8.40e+01 c.2.1.4,c.23.12.1 79638,79639 1t6cA 315 8.44e+01 c.55.1.8,c.55.1.8 106558,106559 1ugjA 141 8.53e+01 b.41.1.3 107826 2fdsA 352 8.60e+01 1lnsA 763 8.60e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 2f23A 156 8.61e+01 1t1dA 100 8.69e+01 1t1dA d.42.1.2 38637 1tuvA 114 8.72e+01 1senA 164 8.72e+01 c.47.1.1 105465 1vljA 407 8.81e+01 e.22.1.2 108832 1dsxA 87 8.86e+01 1t1dA d.42.1.2 38644 2bvcA 486 8.88e+01 1p4fA 293 8.97e+01 d.144.1.7 104063 1oxdA 227 8.97e+01 d.22.1.1 93687