# List of top-scoring protein chains for t04-100-30-o_sep-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 1y8qA 346 2.43e-02 1wm3A 72 6.68e-02 1f0xA 571 7.05e-02 1f0xA d.58.32.2,d.145.1.1 39483,41746 1yqfA 203 7.82e-02 2iwbA 246 8.38e-02 1a99A 344 9.94e-02 1pot c.94.1.1 35812 1z02A 446 1.18e-01 1q5yA 85 1.53e-01 d.58.18.4 95950 2dchX 216 1.59e-01 1t0hB 224 1.76e-01 c.37.1.1 106208 1sgvA 316 1.81e-01 b.122.1.1,d.265.1.2 98858,98859 1ww9A 392 1.90e-01 1r3eA 309 1.99e-01 b.122.1.1,d.265.1.2 96907,96908 1g6oA 330 2.01e-01 1g6oA c.37.1.11 32430 2bkqA 212 2.05e-01 2bkrA 212 2.30e-01 1jetA 517 2.48e-01 1jevA c.94.1.1 35718 2faoA 309 2.51e-01 1jg5A 83 2.83e-01 d.205.1.1 66666 1nb5I 98 2.89e-01 d.17.1.2 80381 1nrfA 262 2.89e-01 e.3.1.1 92086 1va4A 279 2.99e-01 c.69.1.12 108458 1f1zA 273 3.34e-01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1t3lA 337 3.52e-01 b.34.2.1,c.37.1.1 106358,106359 2bzoB 79 3.91e-01 1o51A 114 4.08e-01 d.58.5.4 92480 2gtqA 867 4.08e-01 1mgpA 313 4.09e-01 c.119.1.1 79098 1e5dA 402 4.47e-01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1v6tA 255 4.62e-01 1s68A 249 4.69e-01 d.142.2.4 98591 1u7iA 136 5.03e-01 d.32.1.7 107724 2olbA 517 5.28e-01 1jevA c.94.1.1 35721 2cvlA 124 5.74e-01 1e25A 282 6.16e-01 1e25A e.3.1.1 42731 1gefA 123 6.17e-01 1gefA c.52.1.18 60465 1zq1C 633 6.22e-01 3il8 72 6.38e-01 1tvxA d.9.1.1 37356 2bgcA 238 6.67e-01 2cybA 323 7.38e-01 2d4pA 141 7.38e-01 1wurA 220 7.42e-01 1yemA 179 7.48e-01 1zejA 293 7.58e-01 2gupA 292 7.68e-01 1f1uA 323 7.86e-01 d.32.1.3,d.32.1.3 83200,83201 1wxdA 263 7.94e-01 1xa1A 255 7.98e-01 e.3.1.1 109529 1t0fA 276 7.99e-01 1u20A 212 8.10e-01 1gt1A 159 8.12e-01 b.60.1.1 90515 1rqlA 267 8.24e-01 c.108.1.3 97750 1xkzA 255 8.33e-01 1y9kA 157 8.55e-01 1f52A 468 8.83e-01 1lgr d.15.9.1,d.128.1.1 37839,41169 2a9sA 171 9.41e-01 1mjhA 162 9.61e-01 1mjhA c.26.2.4 31639 1m6kA 251 9.66e-01 e.3.1.1 78695 2fblA 153 9.76e-01 2d5cA 263 9.81e-01 1vqoU 66 1.02e+00 1hn2A 159 1.03e+00 b.60.1.1 65890 1ldjA 760 1.04e+00 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1hnnA 282 1.08e+00 c.66.1.15 65895 1xgsA 295 1.09e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1i05A 180 1.09e+00 1mup b.60.1.1 27130 2fsjA 346 1.12e+00 1yj1A 76 1.15e+00 1s72U 66 1.15e+00 g.39.1.6 105340 1jj2T 66 1.16e+00 1ffkR g.39.1.6 63105 1k2eA 156 1.17e+00 d.113.1.1 72010 1whi 122 1.17e+00 1whi b.39.1.1 24810 2ae0X 345 1.23e+00 1rypL 212 1.30e+00 d.153.1.4 41880 1jmuB 666 1.35e+00 1jv4A 162 1.36e+00 b.60.1.1 67343 1vlqA 337 1.38e+00 c.69.1.25 108848 1xocA 520 1.41e+00 1f1xA 322 1.41e+00 d.32.1.3,d.32.1.3 83208,83209 2cy0A 263 1.43e+00 1mp9A 198 1.45e+00 d.129.1.1,d.129.1.1 91385,91386 2bolA 314 1.52e+00 1xt9A 212 1.53e+00 1iukA 140 1.57e+00 c.2.1.8 83712 2fb0A 94 1.59e+00 2an3A 289 1.64e+00 1k38A 254 1.64e+00 e.3.1.1 84303 1ju3A 583 1.67e+00 b.18.1.13,c.69.1.21 67300,67301 1qtoA 122 1.68e+00 1bylA d.32.1.2 38494 1fyhB 229 1.69e+00 1jrhI b.1.2.1,b.1.2.1 22055,22056 2bkrB 77 1.70e+00 1qo7A 394 1.75e+00 1qo7A c.69.1.11 34697 1obpA 159 1.79e+00 1obpA b.60.1.1 27092 1wteA 272 1.82e+00 1nh8A 304 1.82e+00 c.94.1.1,d.58.5.3 80507,80508 1innA 166 1.84e+00 1j98A d.185.1.2 62608 1yqzA 438 1.86e+00 1aw7A 194 1.86e+00 1aw7A b.40.2.2,d.15.6.1 25164,37753 2bgsA 344 1.86e+00 1n9lA 109 1.87e+00 d.110.3.6 85468 1t6t1 118 1.97e+00 1m2oA 768 1.98e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1jzuA 157 2.06e+00 b.60.1.1 84271 2fi0A 81 2.08e+00 1dazC 99 2.12e+00 1hvc b.50.1.1 26501 2mhr 118 2.13e+00 2mhr a.24.4.1 16581 1e0bA 68 2.13e+00 1e0bA b.34.13.2 37476 1zo2A 129 2.16e+00 1f5mA 180 2.18e+00 1f5mB d.110.2.1 40895 1frb 315 2.21e+00 1frb c.1.7.1 28665 2fulA 178 2.23e+00 3seb 238 2.23e+00 3seb b.40.2.2,d.15.6.1 25184,37773 2ao0A 324 2.24e+00 2aqjA 538 2.43e+00 1vmiA 355 2.45e+00 1j1uA 306 2.46e+00 c.26.1.1 83980 1vp8A 201 2.47e+00 1vpqA 273 2.47e+00 1bt0A 76 2.48e+00 1ubi d.15.1.1 37607 1mkiA 330 2.51e+00 e.3.1.2 84994 1htqA 477 2.53e+00 d.15.9.1,d.128.1.1 71035,71036 1fe0A 68 2.57e+00 1cc8A d.58.17.1 39345 1j97A 211 2.58e+00 1f5sA c.108.1.4 62753 2ctoA 93 2.59e+00 1gz6A 319 2.63e+00 c.2.1.2 76410 1tfe 145 2.69e+00 1tfe d.43.1.1 38680 1opjA 293 2.70e+00 d.144.1.7 87230 2dc4A 165 2.73e+00 1l7mA 211 2.73e+00 c.108.1.4 73664 1wu7A 434 2.74e+00 1j3mA 129 2.80e+00 d.129.7.1 103836 1wyuA 438 2.81e+00 1zbfA 142 2.82e+00 2ganA 190 2.83e+00 1y60A 169 2.83e+00 2d8sA 80 2.84e+00 1qftA 175 2.85e+00 1qftA b.60.1.1 27151 1ooeA 236 2.86e+00 c.2.1.2 87196 1xuuA 349 2.89e+00 1wosA 364 2.94e+00 b.44.2.1,d.250.1.1 109468,109469 1v7rA 186 2.97e+00 c.51.4.1 100482 2gi3A 476 2.98e+00 1wojA 214 2.98e+00 1tl0D 103 2.98e+00 2avnA 260 3.03e+00 1qysA 106 3.03e+00 k.41.1.1 96603 2dclA 127 3.16e+00 1ynfA 458 3.17e+00 1w6tA 444 3.21e+00 2d1pA 140 3.21e+00 1bf6A 291 3.21e+00 1pscA c.1.9.3 29065 1o4wA 147 3.23e+00 c.120.1.1 86629 1v25A 541 3.25e+00 e.23.1.1 108275 1jidA 128 3.32e+00 d.201.1.1 66735 1x74A 360 3.34e+00 1fc4A 401 3.36e+00 1bs0A c.67.1.4 59760 2f20A 240 3.36e+00 1h75A 81 3.41e+00 1h75A c.47.1.1 60716 1obbA 480 3.44e+00 c.2.1.5,d.162.1.2 86760,86761 1zndA 174 3.44e+00 2gaeA 346 3.45e+00 1uekA 275 3.46e+00 d.14.1.5,d.58.26.5 88483,88484 1qy1A 174 3.46e+00 b.60.1.1 96568 1iicA 422 3.47e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1i06A 180 3.68e+00 1mup b.60.1.1 27131 1nt4A 391 3.69e+00 c.60.1.2 92102 2b18A 164 3.70e+00 1wvfA 520 3.71e+00 1r0rE 274 3.75e+00 c.41.1.1 96735 1nbfD 76 3.77e+00 d.15.1.1 80390 1kngA 156 3.77e+00 c.47.1.10 72777 1hh1A 143 3.84e+00 1gefA c.52.1.18 61036 1d3bA 75 3.86e+00 1d3bA b.38.1.1 24798 1yfsA 465 3.87e+00 2a9kA 187 3.91e+00 2c1lA 358 3.92e+00 2agtA 319 3.92e+00 1gu7A 364 3.97e+00 b.35.1.2,c.2.1.1 83321,83322 1j8rA 196 4.02e+00 1j8rA b.2.3.3 62745 1zowA 313 4.06e+00 2bj7A 138 4.09e+00 1nd4A 264 4.20e+00 d.144.1.6 91815 2bvcA 486 4.22e+00 1h7mA 102 4.22e+00 d.79.3.1 83485 1no5A 114 4.25e+00 d.218.1.5 92014 1t9xA 1049 4.26e+00 1zu0A 529 4.27e+00 1q77A 138 4.28e+00 c.26.2.4 96023 1vd4A 62 4.29e+00 1j79A 347 4.32e+00 1j79A c.1.9.4 62675 2fomB 185 4.37e+00 2fp7B 172 4.41e+00 1skoB 130 4.45e+00 d.110.7.1 105677 1nrwA 288 4.46e+00 c.108.1.10 86128 1t4hA 290 4.46e+00 d.144.1.7 106420 1dl5A 317 4.49e+00 1dl5A c.66.1.7,d.197.1.1 64720,64721 1y9wA 140 4.51e+00 1m55A 197 4.56e+00 d.89.1.3 74469 1jg1A 235 4.60e+00 c.66.1.7 66661 1xf1A 926 4.65e+00 2gs5A 198 4.70e+00 1difA 99 4.70e+00 1fmb b.50.1.1 26503 1z9tA 255 4.72e+00 1ubi 76 4.77e+00 1ubi d.15.1.1 37584 1pwmA 316 4.80e+00 c.1.7.1 95231 1qo2A 241 4.80e+00 1qo2A c.1.2.1 28533 2c6qA 351 4.82e+00 1djrD 103 4.84e+00 3chbD b.40.2.1 24865 2gu1A 361 4.87e+00 1uohA 226 4.87e+00 d.211.1.1 99690 1wd7A 261 4.91e+00 1w79A 489 4.94e+00 2b0cA 206 4.96e+00 1vl5A 260 4.98e+00 c.66.1.41 108720 1lt5D 103 4.99e+00 3chbD b.40.2.1 24875 1nr4A 71 5.05e+00 d.9.1.1 92077 1z2mA 155 5.16e+00 1m22A 503 5.17e+00 c.117.1.1 78464 2a14A 263 5.18e+00 1juvA 193 5.20e+00 c.71.1.1 90912 1ufkA 254 5.21e+00 c.66.1.39 99340 1li4A 432 5.23e+00 c.2.1.4,c.23.12.3 84616,84617 1c5cH 215 5.28e+00 1igtB b.1.1.1,b.1.1.2 20475,21439 2c1gA 431 5.28e+00 1xmrA 243 5.29e+00 1h7zA 194 5.30e+00 1qhvA b.21.1.1 60733 1nf2A 268 5.34e+00 c.108.1.10 91849 1wy5A 317 5.35e+00 1okjA 251 5.37e+00 c.55.1.9,c.55.1.9 103998,103999 1ycoA 279 5.38e+00 1vjeA 166 5.41e+00 d.185.1.2 100807 1vqoM 195 5.46e+00 1qpcA 279 5.47e+00 1fgkA d.144.1.7 41685 1pvvA 315 5.51e+00 c.78.1.1,c.78.1.1 95190,95191 8abp 306 5.60e+00 8abp c.93.1.1 35647 2frnA 278 5.62e+00 1wj9A 211 5.67e+00 2fhzA 109 5.68e+00 1amf 233 5.68e+00 1wod c.94.1.1 35833 1bywA 110 5.70e+00 1bywA d.110.3.6 40912 1l2uA 245 5.72e+00 c.1.2.3 73516 1a0tP 413 5.73e+00 1a0tP f.4.3.2 43794 2fb6A 117 5.75e+00 1yu6A 275 5.78e+00 2b3yA 888 5.83e+00 2acy 98 5.85e+00 2acy d.58.10.1 39298 1yovA 537 5.92e+00 1w41A 101 5.93e+00 1ayfA 105 5.93e+00 1ayfA d.15.4.1 37684 2bt6A 108 5.98e+00 1i7nA 309 6.04e+00 c.30.1.5,d.142.1.3 83681,83682 2dtr 226 6.05e+00 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 1heiA 451 6.09e+00 1heiA c.37.1.14,c.37.1.14 32463,32464 1y7rA 133 6.12e+00 2f7fA 494 6.14e+00 1wa3A 205 6.20e+00 5abp 306 6.25e+00 8abp c.93.1.1 35651 1jnrB 150 6.29e+00 d.58.1.5 66969 1brwA 433 6.44e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1v8gA 329 6.45e+00 a.46.2.1,c.27.1.1 100505,100506 1l8bA 190 6.46e+00 d.86.1.1 73683 1hr6B 443 6.55e+00 1be3A d.185.1.1,d.185.1.1 61166,61167 4mbp 370 6.60e+00 4mbp c.94.1.1 35777 1hmt 132 6.69e+00 1hmt b.60.1.2 27169 1w6uA 302 6.74e+00 1ads 315 6.76e+00 1frb c.1.7.1 28671 2axiA 115 6.79e+00 3chbD 104 6.99e+00 3chbD b.40.2.1 24970 1ryt 190 7.02e+00 1ryt a.25.1.1,g.41.5.1 16646,45245 2ew8A 249 7.04e+00 1riqA 465 7.11e+00 a.203.1.1,d.104.1.1 97516,97517 1i8oA 114 7.11e+00 1ycc a.3.1.1 61979 1ta3B 303 7.12e+00 c.1.8.3 106732 1xdzA 240 7.14e+00 1nzjA 298 7.17e+00 c.26.1.1 92377 1kr4A 125 7.18e+00 d.58.5.2 72889 1iyxA 432 7.18e+00 c.1.11.1,d.54.1.1 83815,83816 1mbyA 88 7.29e+00 d.223.1.1 78931 1ignA 246 7.35e+00 1ignA a.4.1.6,a.4.1.6 16048,16049 2c1iA 431 7.36e+00 1vlmA 219 7.41e+00 c.66.1.41 108836 1b0uA 262 7.46e+00 1b0uA c.37.1.12 32370 1us0A 316 7.47e+00 c.1.7.1 99850 1mbmA 198 7.51e+00 b.47.1.3 78916 1j5yA 187 7.54e+00 a.4.5.1,d.94.2.1 71592,71593 1othA 321 7.62e+00 1othA c.78.1.1,c.78.1.1 35260,35261 1r77A 103 7.67e+00 2bznA 351 7.72e+00 1xrkA 124 7.73e+00 1ispA 181 7.75e+00 c.69.1.18 76778 1j27A 102 7.77e+00 d.58.50.1 90778 1gmxA 108 7.78e+00 c.46.1.3 65355 2fl4A 149 7.81e+00 2c4wA 176 7.84e+00 1oyeA 1049 7.84e+00 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1g6gA 127 7.88e+00 1g6gA b.26.1.2 23916 1r1dA 247 7.88e+00 c.69.1.29 96813 1gnkA 112 7.93e+00 2pii d.58.5.1 39073 2gsfA 373 8.03e+00 1wwhA 119 8.08e+00 3tss 194 8.10e+00 1aw7A b.40.2.2,d.15.6.1 25160,37749 1ivyA 452 8.12e+00 1ivyA c.69.1.5 34654 1o22A 170 8.16e+00 d.238.1.1 86557 1o0xA 262 8.25e+00 d.127.1.1 80755 1v5iB 76 8.28e+00 1gmlA 178 8.42e+00 c.8.5.2 70273 1r89A 437 8.44e+00 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1reqB 637 8.44e+00 1reqB c.1.19.1,c.23.6.1 29621,31248 1nbwA 607 8.52e+00 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 2ivyA 101 8.56e+00 1kllA 130 8.67e+00 d.32.1.2 72720 1bylA 125 8.72e+00 1bylA d.32.1.2 38495 1u6mA 199 8.76e+00 1vchA 175 8.78e+00 1z7aA 308 8.83e+00 1m1cA 680 8.85e+00 e.42.1.1 78395 1gs5A 258 8.86e+00 c.73.1.2 70395 1jl3A 139 8.87e+00 c.44.1.1 66826 1dzkA 157 8.92e+00 1obpA b.60.1.1 27096 1ej2A 181 9.01e+00 1f9aA c.26.1.3 59414 1lkoA 191 9.02e+00 a.25.1.1,g.41.5.1 78063,78064 1r0pA 312 9.05e+00 d.144.1.7 96734 1atzA 189 9.07e+00 1atzA c.62.1.1 34132 1u2pA 163 9.07e+00 1y81A 138 9.12e+00 1gw5S 142 9.14e+00 d.110.4.2 70633 1yioA 208 9.26e+00 2czrA 226 9.26e+00 1nh0A 99 9.27e+00 b.50.1.1 91869 1s72M 194 9.28e+00 d.12.1.2 105332 1wod 233 9.34e+00 1wod c.94.1.1 35832 1gqpA 221 9.39e+00 b.18.1.9 70372 1c24A 263 9.43e+00 1c24A d.127.1.1 41148 2btfA 375 9.50e+00 1yagA c.55.1.1,c.55.1.1 33429,33430 1aisA 182 9.54e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1jj2L 194 9.61e+00 1ffkI d.12.1.2 63097 1om1A 332 9.66e+00 d.144.1.7 93347 1nofA 383 9.67e+00 b.71.1.2,c.1.8.3 92020,92021 1vf8A 377 9.69e+00 1wz7A 111 9.72e+00 2bj0A 203 9.81e+00 1laxA 370 9.83e+00 c.94.1.1 84576 1ny1A 240 9.85e+00 c.6.2.3 86395 1vkiA 181 9.85e+00 d.116.1.1 108664 2ah5A 210 9.89e+00 2b9eA 303 1.01e+01 1e8gA 560 1.01e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1vzyA 291 1.01e+01 1xe7A 203 1.02e+01 1nv8A 284 1.02e+01 c.66.1.30 86224 1kkoA 413 1.03e+01 c.1.11.2,d.54.1.1 68675,68676 2cthA 107 1.03e+01 3cyr a.138.1.1 19652 1p1lA 102 1.04e+01 d.58.5.2 87695 1qe5A 266 1.04e+01 1b8oA c.56.2.1 33784 1srb 21 1.04e+01 j.28.1.1 46201 2b30A 301 1.04e+01 1ytvA 366 1.05e+01 1jbeA 128 1.05e+01 3chy c.23.1.1 62845 2ggcA 263 1.05e+01 1i4uA 181 1.06e+01 b.60.1.1 61732 1d7yA 408 1.07e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1fmb 104 1.07e+01 1fmb b.50.1.1 26777 1k20A 310 1.07e+01 c.107.1.1 68027 1wuaA 375 1.07e+01 1y1pA 342 1.08e+01 2f5gA 133 1.08e+01 1vlwA 217 1.08e+01 c.1.10.1 108868 1ospO 257 1.09e+01 1ospO b.76.1.1 27971 1k55A 246 1.09e+01 e.3.1.1 68156 1wqsA 173 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8.74e+01 3cla c.43.1.1 32610 2b4aA 138 8.74e+01 1jhdA 396 8.76e+01 b.122.1.3,c.26.1.5 66712,66713 2ervA 150 8.76e+01 2bodX 286 8.77e+01 1i0sA 169 8.78e+01 1i0rA b.45.1.2 61491 6paxA 133 8.79e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1q1uA 144 8.80e+01 b.42.1.1 95608 1x3sA 195 8.80e+01 1cm9A 74 8.81e+01 1b3aA d.9.1.1 37405 1mp8A 281 8.82e+01 d.144.1.7 91384 1acf 125 8.82e+01 3nul d.110.1.1 40882 2fz4A 237 8.83e+01 1un3A 123 8.83e+01 d.5.1.1 99646 1f4qA 165 8.85e+01 1alvA a.39.1.8 17360 1xw3A 110 8.85e+01 1ih8A 271 8.89e+01 2nsyA c.26.2.1 62377 2ar0A 541 8.89e+01 1v3yA 192 8.95e+01 1pm1X 180 8.96e+01 b.60.1.1 104189 1b74A 254 8.97e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1vqvA 306 8.97e+01 1oatA 439 8.97e+01 2dkb c.67.1.4 34461 1efyA 350 8.99e+01 1a26 a.41.1.1,d.166.1.2 17413,42275