# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1dvoA 152 9.41e-16 1dvoA a.136.1.1 19623 1dpuA 99 2.88e-01 1dpuA a.4.5.16 16150 1z1dA 103 7.79e-01 2arsA 262 9.07e-01 2c8mA 262 1.03e+00 1sknP 92 1.91e+00 1sknP a.37.1.1 17127 2fswA 107 2.35e+00 1w33A 181 2.59e+00 1pmzA 86 2.61e+00 a.39.1.10 104195 1s4bP 674 2.66e+00 d.92.1.5 105252 2apoA 357 2.74e+00 2d2mB 142 2.86e+00 1ucrA 78 2.94e+00 a.4.5.45 99188 1bc8C 93 3.05e+00 1awcA a.4.5.21 16168 1gvnA 90 3.39e+00 a.8.2.1 76353 1wrvA 308 3.64e+00 1v3wA 173 3.68e+00 b.81.1.5 100291 1yr2A 741 3.73e+00 1qsgA 265 4.17e+00 1eny c.2.1.2 29935 1txdA 385 4.23e+00 a.87.1.1,b.55.1.1 107422,107423 1mzbA 136 4.46e+00 a.4.5.42 91497 2cxxA 190 5.36e+00 1o5zA 442 6.11e+00 c.59.1.2,c.72.2.2 92530,92531 1p4cA 380 6.97e+00 c.1.4.1 94100 1hw1A 239 7.34e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1x8bA 289 7.60e+00 1gvjA 146 7.77e+00 a.4.5.21 90525 2acvA 463 8.71e+00 1umnA 165 9.05e+00 a.25.1.1 99607 1vp7A 100 9.65e+00 1apyB 141 1.04e+01 1apyB 1nz0A 118 1.04e+01 d.14.1.2 86433 2ae2A 260 1.08e+01 1bdb c.2.1.2 29945 2av5A 120 1.15e+01 1tca 317 1.15e+01 1tca c.69.1.17 34726 1w0mA 226 1.15e+01 c.1.1.1 109027 1v54E 109 1.15e+01 a.118.11.1 100326 1vl8A 267 1.17e+01 c.2.1.2 108733 1fxrA 64 1.19e+01 1fxd d.58.1.4 38993 1k94A 165 1.21e+01 a.39.1.8 68333 2occE 109 1.23e+01 2occE a.118.11.1 19224 2ffsA 157 1.24e+01 1k9uA 78 1.30e+01 a.39.1.10 84348 1z5hA 780 1.30e+01 1hlvA 131 1.38e+01 a.4.1.7,a.4.1.7 65854,65855 1fo1A 271 1.39e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 1zxiC 288 1.40e+01 1usyA 275 1.41e+01 1njhA 119 1.41e+01 b.128.1.1 85787 1f4qA 165 1.48e+01 1alvA a.39.1.8 17360 1ji0A 240 1.50e+01 c.37.1.12 71665 1n62C 288 1.53e+01 d.87.2.1,d.145.1.3 80094,80095 2b1eA 564 1.62e+01 2ck3G 272 1.62e+01 1f53A 84 1.63e+01 1f53A b.11.1.4 23632 2fu4A 83 1.66e+01 1vjpA 394 1.69e+01 c.2.1.3,d.81.1.3 100828,100829 1pgvA 197 1.72e+01 c.10.1.1 88073 1no1A 126 1.74e+01 a.179.1.1 85913 1yb3A 175 1.74e+01 1x3kA 152 1.84e+01 1qj2C 285 1.95e+01 1qj2C 2bycA 137 1.95e+01 2b5gA 171 1.97e+01 2fazA 78 1.99e+01 2d2yA 145 2.04e+01 1r3eA 309 2.04e+01 b.122.1.1,d.265.1.2 96907,96908 1xriA 151 2.06e+01 1sz2A 332 2.08e+01 1p4oA 322 2.11e+01 d.144.1.7 87775 1oxwA 373 2.14e+01 c.19.1.3 87539 1xygD 359 2.16e+01 1z7aA 308 2.19e+01 1zy9A 564 2.21e+01 1fftC 204 2.23e+01 1fftC f.25.1.1 43629 1q0sA 259 2.23e+01 c.66.1.28 95509 1e79G 272 2.26e+01 1e79G c.49.2.1 33158 1xknA 355 2.28e+01 1vg5A 73 2.28e+01 2cybA 323 2.30e+01 1v71A 323 2.30e+01 1llfA 534 2.31e+01 c.69.1.17 78094 1rl0A 255 2.32e+01 1gbs 185 2.35e+01 153l d.2.1.5 36986 1m5q1 130 2.46e+01 1sglA 209 2.49e+01 d.124.1.1 105536 1pbjA 125 2.53e+01 d.37.1.1,d.37.1.1 94414,94415 1qj4A 257 2.58e+01 1qj4A c.69.1.20 34796 1j2jB 45 2.61e+01 a.7.8.1 84017 1nm8A 616 2.69e+01 c.43.1.3,c.43.1.3 85872,85873 1vpbA 451 2.69e+01 1zupA 315 2.72e+01 2aucA 126 2.79e+01 1zxiF 288 2.79e+01 1jksA 294 2.81e+01 d.144.1.7 71710 1yasA 257 2.94e+01 1qj4A c.69.1.20 34801 1thg 544 3.04e+01 1thg c.69.1.17 34763 1dkmA 410 3.09e+01 1dklA c.60.1.2 34000 1v4xB 146 3.13e+01 a.1.1.2 108364 1s9rA 410 3.24e+01 d.126.1.4 98758 2dafA 118 3.27e+01 2g0wA 296 3.34e+01 1te2A 226 3.40e+01 c.108.1.6 106792 1cleA 534 3.44e+01 1thg c.69.1.17 34771 153l 185 3.46e+01 153l d.2.1.5 36984 2bl0B 145 3.47e+01 1n82A 331 3.48e+01 c.1.8.3 91703 1hnnA 282 3.54e+01 c.66.1.15 65895 2an3A 289 3.55e+01 1fjgI 128 3.62e+01 1fjfI d.14.1.1 37559 1xg8A 111 3.64e+01 1g5gA 481 3.70e+01 f.12.1.1,h.3.2.1 65155,65156 1zzmA 259 3.78e+01 1jqgA 433 3.81e+01 c.56.5.1,d.58.3.1 71791,71792 1dowA 205 3.84e+01 1dovA a.24.9.1 16626 2a9iA 113 3.88e+01 1uj8A 77 3.88e+01 1s72C 246 3.89e+01 c.22.1.1 105321 1v9wA 130 3.89e+01 c.47.1.16 108453 1jj2C 246 3.90e+01 1ffkC c.22.1.1 63087 2b5hA 200 3.91e+01 2atfA 200 3.96e+01 1ov9A 50 3.98e+01 a.155.1.1 93591 1q18A 332 4.30e+01 c.55.1.7,c.55.1.7 104470,104471 1ab8A 220 4.35e+01 1azsA d.58.29.1 39414 1azsA 220 4.44e+01 1azsA d.58.29.1 39416 3erk 364 4.45e+01 1hcl d.144.1.7 41654 1odfA 290 4.45e+01 c.37.1.6 92782 1zghA 260 4.49e+01 1psdA 409 4.54e+01 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1azsB 212 4.63e+01 1azsA d.58.29.1 39423 1shuX 182 4.68e+01 c.62.1.1 98882 1dkqA 410 4.69e+01 1dklA c.60.1.2 33998 1xg9A 260 4.72e+01 1hurA 180 4.77e+01 1hurA c.37.1.8 32052 1k3pA 426 4.78e+01 a.103.1.1 77237 1vqoC 246 4.85e+01 2cs7A 55 4.91e+01 1v77A 212 4.91e+01 c.6.3.2 108402 1z3eA 132 5.04e+01 2a7kA 250 5.04e+01 1nu4A 97 5.16e+01 d.58.7.1 80731 1z6gA 218 5.18e+01 1q08A 99 5.18e+01 a.6.1.3 95497 1srrA 124 5.21e+01 1dz3A c.23.1.1 31110 1ytw 306 5.21e+01 1ytw c.45.1.2 32689 1j1uA 306 5.29e+01 c.26.1.1 83980 1x9uA 116 5.32e+01 1ub9A 100 5.38e+01 a.4.5.28 99159 1qi7A 253 5.41e+01 1qi7A d.165.1.1 42210 5pal 109 5.43e+01 1a75A a.39.1.4 17215 1vc3B 97 5.46e+01 2cwxA 430 5.54e+01 1uox 296 5.56e+01 1uox 2ffcA 353 5.74e+01 1s95A 333 5.76e+01 d.159.1.3 105375 1zbmA 280 5.78e+01 1yyvA 131 5.84e+01 2af4C 333 5.86e+01 2g39A 497 5.87e+01 1urnA 97 5.89e+01 1urnA d.58.7.1 39153 1ve3A 227 5.92e+01 2go7A 207 5.93e+01 1vlpA 441 5.95e+01 d.41.2.2,d.41.2.3 108840,108841 1owcA 427 6.04e+01 a.103.1.1 104039 1clxA 347 6.14e+01 1taxA c.1.8.3 28899 1njrA 284 6.20e+01 c.50.1.2 103858 1rypB 250 6.20e+01 1rypB d.153.1.4 41933 1xppA 115 6.21e+01 1pa7A 130 6.26e+01 a.40.1.1 94410 1yirA 408 6.28e+01 2kfnA 605 6.28e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1vlrA 350 6.37e+01 d.13.1.3,d.246.1.1 108860,108861 1h2sA 225 6.41e+01 f.13.1.1 76578 1vk9A 151 6.42e+01 c.139.1.1 108640 1sviA 195 6.45e+01 c.37.1.8 106048 1wz7A 111 6.46e+01 2gl5A 410 6.52e+01 1t82A 155 6.54e+01 d.38.1.5 106639 1nekA 588 6.55e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 2c1cA 312 6.57e+01 2fifB 70 6.72e+01 1h8eG 272 6.72e+01 1e79G c.49.2.1 60756 1yf3A 259 6.76e+01 1dixA 208 6.90e+01 1bk7A d.124.1.1 41122 1i76A 163 6.97e+01 1hfc d.92.1.11 61877 1vqoX 92 7.02e+01 1lp8A 254 7.11e+01 d.165.1.1 91082 1gewA 356 7.18e+01 1gewA c.67.1.1 60470 1mveA 243 7.20e+01 b.29.1.2 85140 1wrrA 301 7.25e+01 1r4uA 301 7.28e+01 d.96.1.4,d.96.1.4 97047,97048 1ng6A 148 7.31e+01 a.182.1.1 85670 1ef8A 261 7.44e+01 1ef8A c.14.1.3 30921 1jgjA 217 7.44e+01 1c3wA f.13.1.1 62952 1w32A 348 7.47e+01 5rubA 490 7.53e+01 1burA c.1.14.1,d.58.9.1 29382,39288 1cpcA 162 7.60e+01 1cpcA a.1.1.3 15643 1tz9A 367 7.60e+01 c.1.15.6 107466 1iscA 192 7.61e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 2b5nA 323 7.62e+01 1tdpA 111 7.73e+01 a.29.8.1 106781 1zkrA 153 7.78e+01 1p4fA 293 7.79e+01 d.144.1.7 104063 2pth 193 7.80e+01 2pth c.56.3.1 33793 1dkgA 197 7.86e+01 1dkgA b.73.1.1,h.1.9.1 27812,45626 2gsfA 373 7.89e+01 1xkpA 246 7.89e+01 6gsvA 217 7.92e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1ua4A 455 8.05e+01 c.72.1.3 99128 1jj2W 91 8.05e+01 1ffkU d.29.1.1 63108 1otgA 125 8.05e+01 1otgA d.80.1.2 39831 1xhdA 173 8.06e+01 1a7tA 232 8.07e+01 1a7tA d.157.1.1 42041 1csh 435 8.09e+01 1csh a.103.1.1 18880 1a0i 348 8.11e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1v84A 253 8.15e+01 c.68.1.7 108419 1xa0A 328 8.15e+01 1gjwA 637 8.16e+01 b.71.1.1,c.1.8.1 60582,60583 1l2lA 457 8.17e+01 c.72.1.3 77656 1s72X 92 8.25e+01 d.29.1.1 105343 1iqqA 200 8.37e+01 d.124.1.1 66274 1dqaA 467 8.41e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1yo3A 102 8.48e+01 1zosA 230 8.49e+01 1ucaA 190 8.53e+01 d.124.1.1 88462 1n7kA 234 8.59e+01 c.1.10.1 85374 1puoA 170 8.64e+01 a.101.1.1,a.101.1.1 95134,95135 1u6bA 98 8.64e+01 d.58.7.1 107703 1sgmA 191 8.75e+01 a.4.1.9,a.121.1.1 105537,105538 1ptmA 329 8.78e+01 c.77.1.3 95104 1fg7A 356 8.79e+01 1gewA c.67.1.1 59819 1cmiA 85 8.80e+01 1cmiA d.39.1.1 38551 2a8kA 108 8.89e+01 1tfr 305 8.90e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1mgpA 313 8.90e+01 c.119.1.1 79098 1efyA 350 8.91e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1v63A 101 8.96e+01 a.21.1.1 108391 1j09A 468 8.97e+01 a.97.1.1,c.26.1.1 77025,77026 1sauA 115 8.97e+01