# List of top-scoring protein chains for t06-100-40-40-str2+CB_burial_14_7-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 1dnlA 199 1.13e-17 1ci0A b.45.1.1 25753 1g79A 218 1.13e-17 1ci0A b.45.1.1 25752 1nrgA 261 1.58e-15 b.45.1.1 80694 1ty9A 222 3.03e-14 1rfeA 162 1.05e-12 2fhqA 141 6.23e-12 2asfA 137 1.70e-10 2fg9A 178 1.69e-09 1vl7A 157 2.04e-09 b.45.1.1 108732 2arzA 247 2.85e-09 2aq6A 147 6.70e-09 1w9aA 147 1.63e-08 2furA 209 8.23e-08 1xhnA 184 1.15e-07 1w3oA 216 3.59e-06 1flmA 122 1.08e-05 1axj b.45.1.1 25747 1ejeA 192 1.31e-03 1ejeA b.45.1.2 25757 1i0rA 169 9.92e-03 1i0rA b.45.1.2 61489 2d37A 176 3.19e-02 1rz1A 161 4.49e-02 b.45.1.2 98124 1b8aA 438 1.02e-01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1uscA 178 2.68e-01 b.45.1.2 99860 1yoaA 159 3.67e-01 1w8oA 601 6.99e-01 2b4wA 315 7.22e-01 1x54A 434 7.40e-01 1l0wA 580 8.48e-01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1e1oA 504 1.05e+00 1lylA b.40.4.1,d.104.1.1 25258,40714 1ms9A 648 1.20e+00 b.29.1.15,b.68.1.1 85088,85089 1ylnA 252 2.30e+00 1yifA 533 2.36e+00 2bjfA 329 2.40e+00 1ir6A 424 2.42e+00 c.107.1.2 71342 1y7bA 542 2.56e+00 1llnA 262 3.53e+00 d.165.1.1 84625 1lrzA 426 4.16e+00 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 2bgiA 272 4.34e+00 1n1tA 641 4.50e+00 b.29.1.15,b.68.1.1 79821,79822 1ta8A 332 4.53e+00 2cwsA 237 4.89e+00 1ckmA 330 5.08e+00 1ckmA b.40.4.6,d.142.2.3 25358,41585 1ep3B 262 5.18e+00 1ep2B b.43.4.2,c.25.1.3 25664,31554 1iwmA 186 5.50e+00 b.125.1.2 83758 7ahlA 293 5.53e+00 7ahlA f.6.1.1 43812 1w07A 659 6.33e+00 1v84A 253 6.35e+00 c.68.1.7 108419 1ko3A 230 6.80e+00 d.157.1.1 90974 1fp2A 352 7.22e+00 1fpxA a.4.5.29,c.66.1.12 59941,59942 1yqdA 366 7.42e+00 1wsrA 375 7.46e+00 1jhdA 396 7.56e+00 b.122.1.3,c.26.1.5 66712,66713 1ig8A 486 8.85e+00 2yhx c.55.1.3,c.55.1.3 64746,64747 1h72C 296 1.04e+01 d.14.1.5,d.58.26.1 60712,60713 1wosA 364 1.06e+01 b.44.2.1,d.250.1.1 109468,109469 2basA 431 1.06e+01 2fp8A 322 1.07e+01 2ar1A 172 1.09e+01 1lcyA 325 1.10e+01 b.36.1.4,b.47.1.1 73834,73835 2h1tA 188 1.16e+01 1ojrA 274 1.20e+01 c.74.1.1 93147 1gv9A 260 1.28e+01 b.29.1.13 70596 1vqzA 341 1.28e+01 2fbwA 621 1.31e+01 1rocA 155 1.35e+01 b.1.22.1 97673 1kkhA 317 1.38e+01 d.14.1.5,d.58.26.3 72645,72646 1qwzA 235 1.44e+01 b.100.1.1 96510 1vheA 373 1.48e+01 b.49.3.1,c.56.5.4 100669,100670 1ryaA 160 1.52e+01 d.113.1.5 105122 1h6lA 353 1.54e+01 b.68.3.1 60687 1zd7A 159 1.56e+01 1vclA 432 1.58e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1bqbA 301 1.58e+01 1hyt d.92.1.2 58962 1dkzA 219 1.63e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 2czrA 226 1.71e+01 1cruA 454 1.78e+01 1c9uA b.68.2.1 27617 1fgkA 310 1.81e+01 1fgkA d.144.1.7 41693 2gc9A 179 1.81e+01 1zc1A 208 1.84e+01 1h5wA 309 1.85e+01 e.27.1.1 65635 1l0qA 391 1.86e+01 b.1.3.1,b.69.2.3 77644,77645 1914 232 1.91e+01 1914 d.49.1.1,d.49.1.1 83028,83029 2gjgA 248 1.95e+01 2c0nA 203 1.95e+01 1g291 372 1.96e+01 1g291 1o54A 277 1.98e+01 c.66.1.13 92482 1lqtA 456 2.00e+01 c.3.1.1,c.4.1.1 74198,74199 1k32A 1045 2.00e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 2bw3A 534 2.00e+01 1czyA 168 2.04e+01 1d0aB b.8.1.1,h.1.2.1 23220,45427 1tdzA 272 2.10e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1yh2A 175 2.11e+01 1xzwA 426 2.12e+01 2bkkA 264 2.17e+01 1l3iA 192 2.22e+01 c.66.1.22 77676 2grrA 161 2.27e+01 2gtqA 867 2.35e+01 1chmA 401 2.36e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1agjA 242 2.40e+01 1agjA b.47.1.1 25827 1ryp1 222 2.40e+01 1ryp1 1rypK 198 2.45e+01 d.153.1.4 41879 1t62A 166 2.47e+01 b.122.1.4 106541 2gpjA 252 2.48e+01 1rypF 233 2.62e+01 1rypF d.153.1.4 41937 2cw8A 537 2.71e+01 2fauA 341 2.80e+01 1tv8A 340 2.83e+01 c.1.28.3 107352 1pbyA 489 2.84e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1yfqA 342 2.86e+01 1pgl2 370 2.88e+01 1kshB 152 2.93e+01 b.1.18.8 72915 1u9aA 160 2.95e+01 1u9aA d.20.1.1 38333 1xipA 388 3.01e+01 1zvdA 380 3.02e+01 2gukA 120 3.03e+01 1wp5A 323 3.07e+01 1xypA 190 3.14e+01 1axkA b.29.1.11 24327 1rypI 222 3.15e+01 d.153.1.4 41877 1rjoA 646 3.19e+01 1w6gA 646 3.22e+01 2bu3A 254 3.26e+01 1pn0A 665 3.26e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1ir21 140 3.26e+01 1y12A 165 3.32e+01 1vfgA 390 3.36e+01 a.173.1.1,d.218.1.4 108570,108571 1v0jA 399 3.38e+01 1u7bA 261 3.53e+01 1e0tA 470 3.59e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1feuA 206 3.60e+01 1feuA b.53.1.1 59801 2ffyA 358 3.61e+01 1ihoA 283 3.67e+01 1ihoA c.26.1.4 62390 1xkpC 143 3.70e+01 1xr4A 509 3.77e+01 1zghA 260 3.77e+01 1meoA 209 3.78e+01 c.65.1.1 79035 1uufA 369 3.79e+01 b.35.1.2,c.2.1.1 100006,100007 1qznA 173 3.80e+01 b.2.2.2 104669 2ew0A 192 3.82e+01 1mg4A 113 3.90e+01 d.15.11.1 84953 1pieA 419 3.96e+01 d.14.1.5,d.58.26.7 94706,94707 2eveA 157 3.99e+01 1hx6A 394 4.04e+01 1cjdA b.121.2.1,b.121.2.1 58995,58996 2f9zC 159 4.07e+01 1gt1A 159 4.20e+01 b.60.1.1 90515 1jy1A 464 4.33e+01 d.136.1.3,d.136.1.3 67438,67439 1j0hA 588 4.33e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 2c78A 405 4.38e+01 1zv9A 172 4.44e+01 1kxoA 184 4.48e+01 b.60.1.1 84475 1usrA 454 4.50e+01 b.68.1.1 99881 2bibA 547 4.50e+01 1oruA 195 4.51e+01 b.58.1.2 93464 1ln4A 104 4.53e+01 d.68.4.1 74043 1s14A 194 4.56e+01 d.122.1.2 98329 1dusA 194 4.61e+01 1dusA c.66.1.4 34182 1vhsA 175 4.70e+01 d.108.1.1 100698 1oz2A 331 4.71e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1wb9A 800 4.76e+01 1e5dA 402 4.79e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1z2mA 155 4.82e+01 1n6aA 259 4.83e+01 b.76.2.1,b.85.7.1 80121,80122 1tt7A 330 4.84e+01 1h54A 754 4.87e+01 a.102.1.4,b.30.5.3 60634,60635 2bhvA 246 4.90e+01 1zsoA 164 4.90e+01 1w2tA 432 4.91e+01 1y8tA 324 4.94e+01 2cdcA 366 4.94e+01 2bkrA 212 4.96e+01 1jd1A 129 5.02e+01 1qu9A d.79.1.1 62890 1q32A 544 5.03e+01 d.136.1.3,d.136.1.3 104507,104508 1xqbA 247 5.04e+01 1h3gA 601 5.08e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1g1kA 143 5.16e+01 1aohA b.2.2.2 22404 1ev7A 317 5.16e+01 1ev7B c.52.1.9 33315 2fclA 169 5.18e+01 2cxhA 217 5.22e+01 1yt3A 375 5.22e+01 1dq3A 454 5.23e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1pl8A 356 5.23e+01 b.35.1.2,c.2.1.1 94878,94879 1viaA 175 5.24e+01 c.37.1.2 100754 2bjqA 345 5.31e+01 1h4rA 314 5.33e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1d2sA 170 5.33e+01 1d2sA b.29.1.4 24221 2arpA 116 5.37e+01 1r4xA 275 5.45e+01 b.1.10.3,d.105.1.2 97054,97055 1n9eA 787 5.50e+01 b.30.2.1,d.17.2.1,d.17.2.1 91708,91709,91710 1uypA 432 5.52e+01 b.29.1.19,b.67.2.3 100176,100177 1vqoN 187 5.59e+01 1ogoX 574 5.60e+01 b.133.1.1,b.80.1.10 92925,92926 1rloA 271 5.63e+01 2aq5A 402 5.66e+01 1y0yA 353 5.69e+01 1vlyA 338 5.70e+01 b.44.2.1,d.250.1.1 108871,108872 1aohA 147 5.71e+01 1aohA b.2.2.2 22401 1ayoA 130 5.86e+01 1ayoA b.2.4.1 22431 1wr2A 238 5.89e+01 1z5bA 469 5.90e+01 1tdhA 364 5.90e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1xdnA 277 6.02e+01 1h2cA 140 6.03e+01 b.31.1.1 83462 1hfc 169 6.06e+01 1hfc d.92.1.11 40335 1kjlA 146 6.13e+01 1pvtA 238 6.13e+01 c.74.1.1 95189 1ee8A 266 6.18e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1gk9B 557 6.21e+01 1tuvA 114 6.23e+01 1bvoA 175 6.24e+01 1a3qA b.2.5.3 22457 1whsA 255 6.25e+01 1ivyA c.69.1.5 34649 1o8bA 219 6.28e+01 c.124.1.4,d.58.40.1 81180,81181 1n4kA 381 6.32e+01 a.118.22.1,b.42.6.1 79992,79993 1y0kA 209 6.32e+01 2bjrA 368 6.48e+01 2fp4B 395 6.50e+01 1ijqA 316 6.51e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1bec 238 6.55e+01 1bec b.1.1.1,b.1.1.2 20627,21561 2aq9A 262 6.56e+01 1y89A 238 6.58e+01 1e4cP 215 6.62e+01 2fua c.74.1.1 34969 1jvbA 347 6.64e+01 b.35.1.2,c.2.1.1 77181,77182 2a7bA 120 6.65e+01 1quqB 121 6.82e+01 1quqB b.40.4.3 25305 1vplA 256 6.87e+01 1h7zA 194 6.89e+01 1qhvA b.21.1.1 60733 2askA 113 6.91e+01 1pguA 615 6.92e+01 b.69.4.1,b.69.4.1 88069,88070 1vpqA 273 6.96e+01 1lf6A 684 7.04e+01 a.102.1.5,b.30.5.5 77918,77919 1lfdA 87 7.04e+01 1lfdA d.15.1.5 37622 1y9lA 115 7.07e+01 1ucnA 152 7.07e+01 d.58.6.1 99183 1xpkC 388 7.10e+01 1yz4A 160 7.10e+01 1v3eA 431 7.10e+01 b.68.1.1 100287 1ex2A 189 7.13e+01 1ex2A c.51.4.2 33225 1xv2A 237 7.17e+01 1gwyA 175 7.34e+01 b.97.1.1 83356 1xpmA 396 7.35e+01 1zh1A 163 7.37e+01 2bcjB 340 7.40e+01 1vk6A 269 7.41e+01 d.113.1.4,d.113.1.4 100851,100852 1gyvA 120 7.48e+01 b.1.10.2 70790 1g8aA 227 7.48e+01 c.66.1.3 90506 1v1hA 103 7.49e+01 b.83.1.1,h.1.17.1 108243,108244 1kcqA 104 7.54e+01 d.109.1.1 68449 1wrmA 165 7.59e+01 1o5uA 101 7.61e+01 b.82.1.8 92518 2csbA 519 7.65e+01 1zgkA 308 7.66e+01 1r1mA 164 7.67e+01 d.79.7.1 96820 1w44A 331 7.68e+01 1p32A 209 7.71e+01 1p32A d.25.1.1 38379 1z0wA 207 7.74e+01 1dfmA 223 7.76e+01 1d2iA c.52.1.5 33295 1b6a 478 7.77e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1z5hA 780 7.88e+01 2cxcA 144 7.89e+01 1ci9A 392 7.94e+01 e.3.1.1 64767 1sq9A 397 7.95e+01 b.69.4.1 105889 1vqoS 85 7.98e+01 1bfg 146 7.98e+01 1bfg b.42.1.1 25485 1bd0A 388 7.99e+01 1bd0A b.49.2.2,c.1.6.1 26480,28642 1i3zA 103 8.03e+01 d.93.1.1 83667 2a84A 300 8.03e+01 1vavA 222 8.05e+01 b.29.1.18 108472 1m1zA 513 8.13e+01 c.26.2.1,d.153.1.1 78457,78458 1fxoA 293 8.14e+01 1g0rA c.68.1.6 34524 1e8yA 966 8.15e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1gtkA 313 8.26e+01 c.94.1.1,d.50.2.1 76346,76347 1c8nA 276 8.28e+01 1smvA b.121.4.7 23308 1xccA 220 8.29e+01 2cw5A 255 8.38e+01 1vk4A 298 8.39e+01 c.72.1.1 100850 1q2yA 140 8.46e+01 d.108.1.1 95655 1h4gA 207 8.52e+01 b.29.1.11 70863 1go4A 205 8.58e+01 d.135.1.1 70292 2fvgA 340 8.61e+01 1d2oA 187 8.61e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1dgwA 178 8.70e+01 1dgwA b.82.1.2 28090 1rypJ 204 8.75e+01 d.153.1.4 41878 1hs6A 611 8.75e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 2ebn 289 8.83e+01 2ebn c.1.8.5 28990 1r6xA 395 8.84e+01 b.122.1.3,c.26.1.5 97167,97168 1z6bA 154 8.85e+01 1rxyA 253 8.94e+01 c.56.2.1 98065 1k8kC 372 8.95e+01 b.69.4.1 68308 1wmmA 145 8.97e+01 1cz4A 185 8.98e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 1v5rA 97 8.99e+01