# List of top-scoring protein chains for t2k-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.soe.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 1wywA 230 9.00e-20 c.18.1.2 144566 1mugA 168 6.22e-19 1mugA c.18.1.2 31030 2c2pA 199 4.68e-15 2c2qA 199 5.08e-15 1vk2A 204 8.12e-04 c.18.1.2 100845 1l9gA 192 8.56e-04 c.18.1.2 84568 2d3yA 219 3.29e-03 1ui0A 205 3.82e-03 c.18.1.2 99411 3ikbA 198 3.72e-01 1oe4A 247 4.57e-01 c.18.1.3 86895 2yv8A 164 4.91e-01 2r7jA 317 1.03e+00 d.13.2.1,d.216.1.1 151645,151646 1a8pA 258 1.36e+00 b.43.4.2,c.25.1.1 25654,31544 2vugA 389 2.12e+00 1fwyA 331 2.39e+00 1fwyA b.81.1.4,c.68.1.5 28064,34522 2qdxA 257 2.92e+00 1fxjA 331 3.32e+00 1fwyA b.81.1.4,c.68.1.5 28062,34520 1oe1A 336 3.49e+00 b.6.1.3,b.6.1.3 86891,86892 1hv9A 456 3.74e+00 1fwyA b.81.1.4,c.68.1.5 28060,34518 1ykuA 136 3.92e+00 3dmyA 480 3.96e+00 3en0A 291 4.06e+00 3cmgA 667 4.41e+00 1ci3M 249 4.45e+00 1hcz b.2.6.1,b.84.2.2 22480,28266 2pxxA 215 4.59e+00 2ga9A 297 4.71e+00 c.66.1.25 134885 2obnA 349 5.28e+00 1i45A 248 5.29e+00 1amk c.1.1.1 61665 1oivA 191 5.49e+00 c.37.1.8 93076 1vl1A 232 5.53e+00 c.124.1.1 108707 2dxcB 157 5.63e+00 1neyA 247 6.03e+00 c.1.1.1 80449 3f4wA 211 6.28e+00 1pbtA 244 6.99e+00 c.124.1.1 94416 2r5vA 357 7.22e+00 1jnrB 150 7.56e+00 d.58.1.5 66969 2p9jA 162 7.70e+00 3cu5A 141 7.80e+00 1oixA 191 8.26e+00 c.37.1.8 118710 2qghA 425 8.28e+00 1l9vA 317 8.89e+00 d.13.2.1,d.216.1.1 73760,73761 2nyuA 196 8.94e+00 2zzdB 157 9.25e+00 1oeyA 83 9.51e+00 d.15.2.2 92800 2bjkA 516 9.70e+00 1kq3A 376 9.92e+00 e.22.1.2 68790 2f51A 118 9.99e+00 3ea6A 219 1.03e+01 3mag 307 1.06e+01 3mag 2r8eA 188 1.06e+01 1uzbA 516 1.13e+01 c.82.1.1 100220 1t56A 216 1.16e+01 a.4.1.9,a.121.1.1 106428,106429 1x8mA 288 1.17e+01 b.82.1.13 109516 3g1oA 255 1.20e+01 3kizA 394 1.20e+01 1xruA 282 1.22e+01 b.82.1.13 122262 3bjnA 165 1.22e+01 7timA 247 1.22e+01 1amk c.1.1.1 28457 1zdsA 336 1.29e+01 b.6.1.3,b.6.1.3 124952,124953 1av6A 289 1.30e+01 3mag c.66.1.25 34218 2hy1A 280 1.41e+01 d.159.1.11 147437 1vpt 348 1.42e+01 3mag 1vptA 348 1.42e+01 c.66.1.25 34207 2hqlA 110 1.43e+01 1v5vA 401 1.45e+01 b.44.2.1,d.250.1.1 113539,113540 1e6pA 499 1.47e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 1q90A 292 1.47e+01 b.2.6.1,b.84.2.2,f.23.23.1 96238,96239,96240 1v39 322 1.49e+01 3mag 2v6gA 364 1.56e+01 3kjrA 511 1.57e+01 2a5hA 416 1.58e+01 1bx1A 314 1.60e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1ywqA 200 1.64e+01 d.90.1.1 124162 1tvnA 293 1.65e+01 c.1.8.3 119360 1oi1A 221 1.65e+01 b.34.9.3,b.34.9.3 87037,87038 1jl3A 139 1.66e+01 c.44.1.1 66826 1ny9A 143 1.67e+01 a.181.1.1 86401 1xvlA 321 1.67e+01 c.92.2.2 122380 3kljA 385 1.72e+01 2pfkA 320 1.72e+01 3pfk c.89.1.1 35577 2je0A 149 1.75e+01 1n2zA 245 1.78e+01 c.92.2.2 79865 3dt5A 135 1.79e+01 2pk8A 103 1.84e+01 d.274.1.1 139707 2v77A 309 1.85e+01 1v3hA 495 1.88e+01 c.1.8.1 108303 1goiA 499 1.93e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1tz0A 114 1.94e+01 d.58.4.5 107463 1wy1A 172 1.95e+01 3i6bA 180 1.98e+01 1nr3A 122 2.03e+01 d.236.1.1 86092 1wdpA 495 2.04e+01 c.1.8.1 120907 6pfkA 319 2.05e+01 3pfk c.89.1.1 35583 2dt9A 167 2.07e+01 1g57A 217 2.13e+01 1g57A d.115.1.2 60253 3g1mA 236 2.14e+01 2j4jA 226 2.16e+01 2bivA 243 2.24e+01 b.34.9.3,b.34.9.3 128592,128593 3i3rA 511 2.25e+01 1itxA 419 2.29e+01 c.1.8.5,d.26.3.1 71425,71426 1uk8A 282 2.33e+01 c.69.1.10 107907 1fpzA 212 2.34e+01 1fpzA c.45.1.1 59976 1ptmA 329 2.37e+01 c.77.1.3 95104 1tq6A 413 2.41e+01 c.37.1.8 107202 3kdaA 301 2.42e+01 1w24A 182 2.44e+01 d.159.1.7 120579 1t6nA 220 2.47e+01 c.37.1.19 106576 1t90A 486 2.48e+01 3fw2A 150 2.50e+01 3g1lA 256 2.58e+01 1o5kA 306 2.59e+01 c.1.10.1 92504 1l3iA 192 2.60e+01 c.66.1.22 77676 3aekA 437 2.60e+01 2d0bA 310 2.74e+01 3gjwA 350 2.81e+01 1pfkA 320 2.84e+01 3pfk c.89.1.1 35575 1a99A 344 2.88e+01 1pot c.94.1.1 35812 1k2eA 156 2.88e+01 d.113.1.1 72010 2p0nA 172 2.89e+01 1vpqA 273 2.91e+01 c.1.32.1 113974 1p9rA 418 2.91e+01 c.37.1.11 94399 2re7A 134 2.94e+01 2nttA 217 2.97e+01 2f9lA 199 2.98e+01 c.37.1.8 133166 1o0pA 104 3.03e+01 d.58.7.1 86535 1xyfA 436 3.05e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1e15A 499 3.13e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 27810,29006,38440 3l51B 166 3.23e+01 3ij5A 211 3.24e+01 3pfk 319 3.27e+01 3pfk 3h3eA 267 3.28e+01 3f2iA 172 3.32e+01 3d40A 286 3.33e+01 1txgA 335 3.33e+01 a.100.1.6,c.2.1.6 112775,112776 2rdxA 379 3.38e+01 1zgdA 312 3.43e+01 1xhcA 367 3.43e+01 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1e2wA 251 3.50e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 3me7A 170 3.51e+01 1ad4A 266 3.51e+01 1aj2 c.1.21.1 29670 2p0kA 212 3.55e+01 2cyjA 118 3.55e+01 c.103.1.1 131026 1fnc 314 3.57e+01 1fnc 3fjuA 307 3.57e+01 2iorA 235 3.57e+01 1j3kA 280 3.59e+01 c.71.1.1 84070 1i5sA 367 3.70e+01 1bg2 c.37.1.9 61822 1do0A 442 3.73e+01 1do0A c.37.1.20 32432 1v2xA 194 3.74e+01 c.116.1.1 100274 1hcz 252 3.75e+01 1hcz 1fndA 314 3.80e+01 b.43.4.2,c.25.1.1 25626,31516 3f57A 225 3.84e+01 3i3qA 211 3.87e+01 1qwkA 317 3.89e+01 c.1.7.1 96482 2ctc 307 3.90e+01 1aye 2bx6A 350 3.96e+01 2cxxA 190 3.99e+01 c.37.1.8 131013 1otkA 249 4.01e+01 a.25.1.2 93521 1ihcA 188 4.01e+01 1di6A c.57.1.1 62379 1tk9A 188 4.06e+01 c.80.1.3 107082 1vjzA 341 4.06e+01 c.1.8.3 100838 1m4lA 307 4.11e+01 c.56.5.1 78604 1byb 495 4.12e+01 1byb 1n4aA 252 4.12e+01 c.92.2.2 85317 2gzmA 267 4.23e+01 3ib7A 330 4.23e+01 1ez0A 510 4.29e+01 1eyyA c.82.1.1 35385 1l7bA 92 4.30e+01 c.15.1.2 91053 1e0gA 48 4.31e+01 1e01A d.7.1.1 37325 1j08A 226 4.37e+01 c.47.1.2,c.47.1.2 83855,83856 2aznA 219 4.41e+01 c.71.1.2 127608 1w36D 608 4.43e+01 c.37.1.19,c.37.1.19 114128,114129 1wotA 98 4.44e+01 d.218.1.5 109470 3cumA 302 4.45e+01 a.100.1.1,c.2.1.6 156995,156996 1wl8A 189 4.46e+01 c.23.16.1 120997 1jljA 189 4.68e+01 c.57.1.1 63169 3cq5A 369 4.76e+01 1r85A 379 4.76e+01 c.1.8.3 104839 3bc1A 195 4.83e+01 1fzqA 181 4.85e+01 1hurA c.37.1.8 32060 1mdbA 539 4.88e+01 e.23.1.1 79008 1mo0A 275 4.92e+01 c.1.1.1 79329 3fx6A 307 4.99e+01 2wmeA 490 5.20e+01 1tq4A 413 5.23e+01 c.37.1.8 107201 1jeoA 180 5.28e+01 c.80.1.3 66611 2g0wA 296 5.28e+01 c.1.15.4 134503 1oflA 481 5.28e+01 b.80.1.4 103934 1eyyA 510 5.33e+01 1eyyA c.82.1.1 35389 1v8fA 276 5.36e+01 c.26.1.4 100503 1wgsA 133 5.37e+01 b.34.13.3 114622 1y56A 493 5.39e+01 1vjuA 309 5.43e+01 d.248.1.1 100835 2nzhA 113 5.45e+01 1xdnA 277 5.45e+01 d.142.2.4 115168 3bkzA 201 5.52e+01 2bi7A 384 5.53e+01 c.4.1.3,d.16.1.7 146148,146149 3gdlA 267 5.56e+01 3bqwA 351 5.56e+01 1tffA 234 5.57e+01 d.3.1.11 106854 2ywjA 186 5.57e+01 3lk7A 451 5.58e+01 2dkhA 639 5.64e+01 1k1eA 180 5.79e+01 c.108.1.5 67995 1v0lA 313 5.86e+01 c.1.8.3 108207 3h4fA 336 5.90e+01 1xd8A 289 5.90e+01 2wbiA 428 5.92e+01 1ad1A 266 6.01e+01 1aj2 c.1.21.1 29668 1qg0A 308 6.03e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1fuiA 591 6.03e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1s3eA 520 6.03e+01 c.3.1.2,d.16.1.5 98426,98427 1dbgA 506 6.05e+01 1dbgA b.80.1.4 28033 2v1mA 169 6.12e+01 2hf9A 226 6.17e+01 2gjlA 328 6.17e+01 3genA 283 6.19e+01 1w2wB 191 6.20e+01 2bl9A 238 6.21e+01 3irvA 233 6.23e+01 1f56A 91 6.27e+01 2cbp b.6.1.1 22896 3c85A 183 6.33e+01 2d1zA 436 6.36e+01 1trb 320 6.47e+01 1trb 1trbA 320 6.47e+01 c.3.1.5,c.3.1.5 30529,30530 2bw4A 340 6.49e+01 b.6.1.3,b.6.1.3 129320,129321 1tkiA 321 6.59e+01 1tkiA d.144.1.7 41638 1dboA 506 6.66e+01 1dbgA b.80.1.4 28034 1nytA 271 6.70e+01 c.2.1.7,c.58.1.5 86417,86418 2qtrA 189 6.77e+01 1fyeA 229 6.82e+01 1fyeA c.23.16.4 31477 2r58A 265 6.86e+01 3dfr 162 6.88e+01 3dfr 3dfrA 162 6.93e+01 c.71.1.1 34880 2wawA 199 6.93e+01 3bfkA 181 6.98e+01 1vq3A 94 7.03e+01 d.284.1.1 114005 2o0aA 298 7.04e+01 3bs4A 260 7.09e+01 2zbwA 335 7.11e+01 1g5hA 454 7.31e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 2rjnA 154 7.32e+01 1fexA 59 7.34e+01 a.4.1.3 59803 3bh7B 352 7.38e+01 1wwpA 119 7.38e+01 3dnjA 85 7.39e+01 1ufvA 276 7.43e+01 c.26.1.4 88487 1frb 315 7.45e+01 1frb 1nar 290 7.46e+01 1nar 1narA 290 7.46e+01 c.1.8.5 28988 2f07A 197 7.49e+01 1x4pA 66 7.56e+01 a.217.1.1 145853 1y7pA 223 7.58e+01 c.23.1.7,d.58.18.12 122708,122709 2b1eA 564 7.58e+01 1aoeA 192 7.64e+01 1aoeA c.71.1.1 34923 2fdiA 211 7.81e+01 b.82.2.10 133311 2ewsA 287 7.85e+01 c.55.1.14 146991