# List of top-scoring protein chains for t06-100-30-str2-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 1u9aA 160 1.91e-01 1u9aA d.20.1.1 38333 2grrA 161 3.20e-01 1swvA 267 3.42e-01 1wxcB 134 5.71e-01 1h2kA 349 6.23e-01 b.82.2.6 76572 1uujA 88 8.30e-01 a.221.1.1 108046 1z8uA 102 1.07e+00 1h6dA 433 1.14e+00 c.2.1.3,d.81.1.5 65656,65657 1exrA 148 1.62e+00 1cll a.39.1.5 17299 1fseA 74 1.67e+00 1fseA a.4.6.2 60000 1a8y 367 1.75e+00 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1g4wR 383 1.79e+00 1g4uS a.24.11.1,c.45.1.2 16644,32692 1wg8A 285 1.80e+00 2ahqA 76 1.80e+00 2h88C 140 1.91e+00 1z5bA 469 2.09e+00 1o04A 500 2.18e+00 c.82.1.1 86508 1wx1A 335 2.26e+00 1f20A 435 2.65e+00 b.43.4.1,c.25.1.4 64932,64933 2fi9A 128 2.83e+00 1sjiA 350 2.87e+00 2a3qA 170 2.88e+00 2fbwC 141 3.13e+00 1nrjA 158 3.46e+00 d.110.4.4 86124 1m3qA 317 3.51e+00 a.96.1.3,d.129.1.2 91184,91185 1aj8A 371 3.63e+00 1aj8A a.103.1.1 18900 1uj8A 77 3.73e+00 1btkA 169 3.93e+00 1btkA b.55.1.1 26959 1v54E 109 4.27e+00 a.118.11.1 100326 1xqaA 113 4.70e+00 1sziA 247 4.84e+00 a.24.23.1 106159 1jggA 60 5.26e+00 2hddA a.4.1.1 62950 1vgmA 378 5.36e+00 1r0pA 312 5.47e+00 d.144.1.7 96734 1uwcA 261 5.52e+00 c.69.1.17 100101 2fa8A 105 6.54e+00 1lkkA 105 6.94e+00 1lckA d.93.1.1 40412 1nepA 130 7.18e+00 b.1.18.7 80440 1yirA 408 7.27e+00 1up8A 598 7.41e+00 a.111.1.2 99710 1zb1A 392 7.46e+00 2cx1A 187 7.71e+00 2ddrA 306 7.76e+00 1ggzA 148 7.81e+00 a.39.1.5 70176 1xdfA 157 7.85e+00 1cuk 203 8.18e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 2f3yA 148 8.33e+00 1zo0A 126 8.37e+00 1qgtA 149 8.56e+00 1qgtA a.62.1.1 18135 1jsdA 319 9.12e+00 b.19.1.2 63258 1uqvA 85 9.18e+00 a.60.1.2 99798 2aegA 268 9.19e+00 2db9A 149 9.24e+00 1r1qA 100 9.29e+00 d.93.1.1 104763 1mlwA 301 1.04e+01 d.178.1.1 79289 1q1vA 70 1.04e+01 a.159.4.1 104479 1b7yA 350 1.04e+01 1pysA d.104.1.1 40776 1musA 477 1.05e+01 c.55.3.4 79494 1f89A 291 1.05e+01 d.160.1.1 64988 1wzvA 155 1.07e+01 1jy2O 56 1.08e+01 h.1.8.1 67441 1td6A 306 1.10e+01 1iirA 415 1.12e+01 1iirA c.87.1.5 62453 1ztpA 251 1.13e+01 1fi2A 201 1.14e+01 1fi2A b.82.1.2 59845 2ap1A 327 1.15e+01 2b20A 403 1.15e+01 1jl5A 454 1.23e+01 c.10.2.6 66830 1eu8A 409 1.23e+01 1eu8A c.94.1.1 59502 1ayaA 101 1.25e+01 1qadA d.93.1.1 40460 1wijA 140 1.28e+01 1yovA 537 1.29e+01 1yx1A 264 1.32e+01 1ajsA 412 1.38e+01 1ajsA c.67.1.1 34276 1hulA 108 1.38e+01 1hulA a.26.1.2 16865 2aeuA 374 1.42e+01 2bidA 197 1.45e+01 2bidA f.1.4.1 43398 1p5zB 263 1.49e+01 c.37.1.1 87815 1fjlA 81 1.53e+01 2hddA a.4.1.1 16017 2et1A 201 1.55e+01 2cglA 489 1.56e+01 1b5pA 385 1.56e+01 c.67.1.1 90403 2f7fA 494 1.57e+01 1wad 112 1.63e+01 3cyr a.138.1.1 19658 1ckmA 330 1.65e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 2ae0X 345 1.72e+01 1rypA 243 1.73e+01 1pmaA d.153.1.4 41932 1ov2A 99 1.77e+01 a.13.1.1 93580 1tkeA 224 1.81e+01 1pzlA 237 1.82e+01 a.123.1.1 104393 1n4xH 120 1.87e+01 b.1.1.1 85324 1opjA 293 1.88e+01 d.144.1.7 87230 1k04A 162 1.89e+01 a.24.14.1 67904 1hs7A 97 1.96e+01 1hs7A a.47.2.1 61236 1lngA 87 1.96e+01 d.201.1.1 74045 1zd9A 188 2.01e+01 1go4A 205 2.04e+01 d.135.1.1 70292 1npeA 267 2.09e+01 b.68.5.1 92032 1woqA 267 2.22e+01 c.55.1.10,c.55.1.10 109462,109463 1nlwB 76 2.26e+01 a.38.1.1 80634 1yvhA 329 2.28e+01 1vhnA 318 2.30e+01 c.1.4.1 100693 1nkpB 83 2.31e+01 a.38.1.1 80574 1qj4A 257 2.32e+01 1qj4A c.69.1.20 34796 1sg7A 96 2.33e+01 1wmhA 89 2.36e+01 3nul 130 2.44e+01 3nul d.110.1.1 40891 1v4pA 157 2.48e+01 1dekA 241 2.48e+01 1dekA c.37.1.1 31842 1fipA 98 2.51e+01 1fipA a.4.1.12 18980 2bcfA 276 2.52e+01 1i5pA 633 2.53e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1pw4A 451 2.61e+01 f.38.1.1 95198 1na6A 404 2.64e+01 b.142.1.1,c.52.1.22 91748,91749 1s1qA 145 2.64e+01 d.20.1.2 98351 1ois 223 2.65e+01 1a36A e.15.1.1 43267 2bwvA 440 2.66e+01 2ck3A 510 2.67e+01 2hddA 61 2.75e+01 2hddA a.4.1.1 15971 1nvvS 481 2.76e+01 a.117.1.1 86279 2gaeA 346 2.77e+01 1yf9A 171 2.79e+01 1w78A 422 2.81e+01 2fupA 168 2.94e+01 1gvjA 146 2.96e+01 a.4.5.21 90525 1zhcA 76 3.00e+01 1g8iA 190 3.06e+01 1rec a.39.1.5 60363 1cg5B 141 3.08e+01 1cg5B a.1.1.2 15585 2c0rA 362 3.11e+01 1w6sB 74 3.12e+01 1ygmA 118 3.14e+01 1o5kA 306 3.15e+01 c.1.10.1 92504 2ffeA 311 3.16e+01 2g7uA 257 3.17e+01 1k7hA 476 3.20e+01 c.76.1.1 72101 1z21A 112 3.21e+01 1uvqA 197 3.22e+01 b.1.1.2,d.19.1.1 100062,100063 1shuX 182 3.24e+01 c.62.1.1 98882 1wdcC 156 3.25e+01 1wdcC a.39.1.5 17317 2cohA 202 3.26e+01 1uuhA 159 3.31e+01 d.169.1.4 100008 2al6A 375 3.34e+01 1yf2A 425 3.35e+01 1xdzA 240 3.36e+01 1avsA 90 3.36e+01 1cll a.39.1.5 17226 1qksA 567 3.37e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1mml 265 3.38e+01 1mml e.8.1.2 43015 1g03A 134 3.44e+01 1qrjB a.73.1.1 60162 2gh1A 301 3.44e+01 1euhA 475 3.47e+01 1euhA c.82.1.1 35369 1eqfA 280 3.50e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1xawA 140 3.54e+01 1uyrA 737 3.55e+01 c.14.1.4,c.14.1.4 100188,100189 1neu 124 3.55e+01 1neu b.1.1.1 19704 1ug0A 88 3.55e+01 a.217.1.1 107822 1w4tA 299 3.56e+01 1w9yA 319 3.56e+01 1q02A 52 3.58e+01 a.5.2.1 95490 1ed8A 449 3.58e+01 1b8jA c.76.1.1 34988 1vknA 351 3.61e+01 c.2.1.3,d.81.1.1 108676,108677 1sauA 115 3.61e+01 1gd8A 118 3.66e+01 d.188.1.1 60445 1o26A 232 3.68e+01 d.207.1.1 86566 2fqpA 97 3.69e+01 1rdfA 267 3.70e+01 c.108.1.3 104884 1xttA 216 3.71e+01 1ehyA 294 3.73e+01 1ehyA c.69.1.11 34693 2glzA 153 3.76e+01 1dq3A 454 3.78e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1qhtA 775 3.78e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1l3kA 196 3.82e+01 d.58.7.1,d.58.7.1 73539,73540 1xubA 298 3.86e+01 1vqoM 195 3.88e+01 1e0bA 68 3.90e+01 1e0bA b.34.13.2 37476 1hbnC 248 3.90e+01 1mroC d.58.31.1 60902 1j2mA 99 3.98e+01 a.165.1.1 84018 2cxcA 144 4.01e+01 1zgdA 312 4.02e+01 1d9cA 121 4.04e+01 1d9cA a.26.1.3 16901 2bycA 137 4.05e+01 1k8rB 110 4.05e+01 d.15.1.5 72180 1h0hA 977 4.08e+01 b.52.2.2,c.81.1.1 76435,76436 2a5lA 200 4.11e+01 1lu4A 136 4.16e+01 c.47.1.10 91124 1sk4A 163 4.17e+01 d.118.1.1 105664 1yleA 342 4.21e+01 1ufzA 83 4.28e+01 a.5.9.1 107821 2fulA 178 4.35e+01 1khyA 148 4.37e+01 a.174.1.1 77410 1vlaA 150 4.43e+01 d.227.1.2 108735 2fj6A 82 4.50e+01 2cs7A 55 4.51e+01 1iyjB 817 4.59e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 2ex5A 207 4.65e+01 1gk8I 140 4.84e+01 d.73.1.1 65242 1r8sA 164 4.85e+01 c.37.1.8 97247 1nq7A 244 4.89e+01 a.123.1.1 92047 1n82A 331 4.89e+01 c.1.8.3 91703 1n2zA 245 4.91e+01 c.92.2.2 79865 1hn0A 1021 4.96e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1twiA 434 4.97e+01 b.49.2.3,c.1.6.1 107399,107400 1vqoW 154 4.99e+01 1h8eA 510 5.00e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 4ubpA 101 5.06e+01 1ubpA d.8.1.1 37352 1rrmA 386 5.07e+01 e.22.1.2 105081 2bh8A 101 5.12e+01 2fh1A 344 5.17e+01 1usmA 80 5.19e+01 d.74.1.1 99876 2dfkA 402 5.24e+01 1xn5A 146 5.24e+01 1jyrA 96 5.24e+01 d.93.1.1 71969 1l8bA 190 5.25e+01 d.86.1.1 73683 1ufiA 64 5.26e+01 a.30.4.1 99336 1qx2A 76 5.26e+01 a.39.1.1 104622 1ii7A 333 5.30e+01 1ii7A d.159.1.4 62415 1kr4A 125 5.32e+01 d.58.5.2 72889 2b2yA 187 5.41e+01 1obbA 480 5.42e+01 c.2.1.5,d.162.1.2 86760,86761 2cr9A 139 5.45e+01 1ez0A 510 5.45e+01 1eyyA c.82.1.1 35385 1brwA 433 5.46e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1guxA 218 5.49e+01 1guxA a.74.1.3 18388 2g50A 530 5.49e+01 1zvnA 99 5.51e+01 2ga9D 469 5.52e+01 1h3nA 878 5.55e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1rhfA 182 5.57e+01 b.1.1.1,b.1.1.4 97469,97470 1dkzA 219 5.59e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1p8xA 344 5.65e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1r8iA 213 5.68e+01 a.8.7.1 97239 1gvfA 286 5.68e+01 c.1.10.2 70599 1z2mA 155 5.72e+01 1uzbA 516 5.72e+01 c.82.1.1 100220 1kvkA 395 5.74e+01 d.14.1.5,d.58.26.3 73060,73061 1kveB 77 5.74e+01 1kveB 2bgcA 238 5.76e+01 1zg2A 107 5.76e+01 1t17A 148 5.79e+01 1gpr 162 5.81e+01 1gpr b.84.3.1 28267 1r4pB 70 5.83e+01 b.40.2.1 97026 1z2lA 423 5.88e+01 2gl5A 410 5.99e+01 1b3uA 588 5.99e+01 1b3uA a.118.1.2 19135 2ajrA 331 6.01e+01 1j54A 186 6.01e+01 c.55.3.5 77077 1lvfA 110 6.05e+01 a.47.2.1 74280 2bjkA 516 6.08e+01 2avdA 219 6.13e+01 1yzmA 51 6.13e+01 1vetA 124 6.21e+01 d.110.7.1 108553 1ig5A 75 6.27e+01 4icb a.39.1.1 62363 1yrtA 364 6.30e+01 1ww9A 392 6.30e+01 1a41 234 6.34e+01 1a41 d.163.1.2 42174 1d2vC 466 6.37e+01 1mhlC 1xkzA 255 6.41e+01 1zbqA 327 6.41e+01 1op4A 159 6.55e+01 b.1.6.1 93397 2c43A 323 6.56e+01 1mijA 152 6.58e+01 a.4.1.1 79150 1ars 396 6.60e+01 1ajsA c.67.1.1 34287 1wk2A 121 6.62e+01 5pal 109 6.63e+01 1a75A a.39.1.4 17215 1ev0A 58 6.70e+01 1ev0A d.71.1.1 39594 2gkpA 167 6.75e+01 1m4rA 151 6.80e+01 a.26.1.3 84799 1l8dA 112 6.80e+01 h.4.12.1 73687 1k8qA 377 6.85e+01 c.69.1.6 72177 2g0uA 92 6.90e+01 1kllA 130 6.92e+01 d.32.1.2 72720 1sx7A 164 6.94e+01 1gmjA 84 6.95e+01 h.4.8.1 65310 1yoeA 322 6.96e+01 1iapA 211 7.02e+01 a.91.1.1 62119 1ywxA 102 7.03e+01 1l3eB 101 7.03e+01 g.53.1.1 73536 1ldfA 281 7.04e+01 f.19.1.1 73845 2bikB 313 7.07e+01 2d3jA 157 7.12e+01 2f96A 224 7.17e+01 1hcd 118 7.20e+01 1hce b.42.5.2 25624 1kxoA 184 7.21e+01 b.60.1.1 84475 1sur 215 7.23e+01 1sur c.26.2.2 31620 1fmjA 351 7.30e+01 c.37.1.5 59879 1vjlA 164 7.30e+01 d.257.1.1 100822 1oj4A 283 7.32e+01 d.14.1.5,d.58.26.5 93083,93084 1upqA 123 7.37e+01 1k61A 60 7.38e+01 a.4.1.1 77270 1t6fA 37 7.39e+01 h.1.28.1 106565 1dozA 309 7.40e+01 1ak1 c.92.1.1 35592 1z0kB 69 7.41e+01 2a2pA 129 7.43e+01 2d7vA 162 7.46e+01 1yg2A 179 7.49e+01 1x2mA 64 7.50e+01 2fauA 341 7.52e+01 1s9kD 53 7.56e+01 2fjlA 150 7.57e+01 1l8nA 679 7.57e+01 c.1.8.10,d.92.2.2 84564,84565 1kw4A 89 7.58e+01 a.60.1.2 73077 2lhb 149 7.61e+01 2fal a.1.1.2 15597 1uxtA 501 7.66e+01 c.82.1.1 108125 1wi6A 88 7.70e+01 1t23A 93 7.71e+01 1xqoA 256 7.72e+01 1wvqA 167 7.78e+01 1yzsA 121 7.81e+01 1rq6A 62 7.84e+01 1gqeA 365 7.85e+01 e.38.1.1 70351 1a92A 50 7.92e+01 1a92A h.4.6.1 45791 1gwiA 411 7.93e+01 a.104.1.1 76364 2bayA 61 7.95e+01 1ywzA 175 8.03e+01 1t3iA 420 8.04e+01 c.67.1.3 106354 1yz4A 160 8.07e+01 1p5fA 189 8.11e+01 c.23.16.2 94142 1suuA 312 8.12e+01 b.68.10.1 99006 1zczA 464 8.14e+01 1knvA 293 8.16e+01 c.52.1.7 68707 1akz 223 8.19e+01 3eugA c.18.1.1 31007 2d81A 318 8.20e+01 1qhkA 47 8.20e+01 1qhkA d.100.1.2 40694 1iujA 106 8.21e+01 d.58.4.5 90701 2ftxA 90 8.21e+01 1h97A 147 8.22e+01 1h97A a.1.1.2 60812 1qipA 183 8.27e+01 1qipA d.32.1.1 38470 2dbgA 103 8.34e+01 1i7nA 309 8.36e+01 c.30.1.5,d.142.1.3 83681,83682 1xg8A 111 8.39e+01 1zwwA 256 8.43e+01 1shfA 59 8.46e+01 1bbzA b.34.2.1 24462 2gd5A 179 8.46e+01 1jr7A 311 8.51e+01 b.82.2.3 63255 1m2tB 263 8.51e+01 b.42.2.1,b.42.2.1 84762,84763 1sxrA 183 8.52e+01 d.118.1.1 106101 1z6oM 191 8.59e+01 1otsA 465 8.60e+01 f.20.1.1 87415 1tzzA 392 8.64e+01 1xffA 240 8.64e+01 d.153.1.1 109580 1p6oA 161 8.67e+01 c.97.1.2 94185 1s62A 106 8.67e+01 1fzqA 181 8.67e+01 1hurA c.37.1.8 32060 2bwfA 77 8.83e+01 1pufB 73 8.91e+01 a.4.1.1 95132 1stzA 338 8.94e+01 a.4.5.51,d.110.2.3 106009,106010 1q3eA 207 8.97e+01 b.82.3.2 95669