# 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 1uqrA 154 7.66e-01 c.23.13.1 99779 1ufoA 238 1.54e+00 c.69.1.27 99344 1mjhA 162 1.73e+00 1mjhA c.26.2.4 31639 1o20A 427 1.87e+00 c.82.1.1 86556 2anuA 255 2.17e+00 1i60A 278 2.27e+00 c.1.15.4 71118 1k1xA 659 2.79e+00 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1o9iA 266 2.86e+00 a.25.1.3 92671 1lh0A 213 2.91e+00 c.61.1.1 73896 2cbiA 594 2.92e+00 1w0mA 226 2.93e+00 c.1.1.1 109027 1php 394 3.26e+00 16pk c.86.1.1 35452 1vjgA 218 3.32e+00 c.23.10.6 100810 1z41A 338 3.54e+00 1p0kA 349 3.57e+00 c.1.4.1 87648 1jkvA 266 3.77e+00 a.25.1.3 71719 1edt 271 4.07e+00 2ebn c.1.8.5 28993 1to3A 304 4.08e+00 c.1.10.1 107161 1lehA 364 4.60e+00 1bw9A c.2.1.7,c.58.1.1 30268,33916 1vpgA 192 4.61e+00 1erzA 303 4.79e+00 1erzA d.160.1.2 59498 1c0pA 363 4.90e+00 1an9A c.4.1.2,d.16.1.3 30647,37934 1lfpA 249 5.29e+00 e.39.1.1 73885 1uf5A 303 5.31e+00 d.160.1.2 107808 1wc9A 169 6.13e+00 1uk8A 282 6.55e+00 c.69.1.10 107907 1opr 213 6.94e+00 1opr c.61.1.1 34091 1c93A 265 7.28e+00 2ebn c.1.8.5 28998 1iupA 282 7.67e+00 c.69.1.10 76815 1yb0A 159 7.70e+00 2fnaA 357 8.02e+00 7odcA 424 8.14e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1i6pA 220 8.46e+00 1ddzA c.53.2.1 61848 2f5xA 312 9.45e+00 1xszA 356 9.67e+00 1jmvA 141 9.86e+00 c.26.2.4 66897 1vypX 364 9.95e+00 c.1.4.1 108905 1thfD 253 1.00e+01 1thfD c.1.2.1 28535 1r85A 379 1.02e+01 c.1.8.3 104839 1xzoA 174 1.03e+01 1o60A 292 1.04e+01 c.1.10.4 92532 2bwfA 77 1.12e+01 1tv8A 340 1.12e+01 c.1.28.3 107352 1fzqA 181 1.14e+01 1hurA c.37.1.8 32060 1vyrA 364 1.14e+01 c.1.4.1 108906 2fyxA 143 1.14e+01 2abbA 364 1.16e+01 12asA 330 1.17e+01 12asA d.104.1.1 40783 1f89A 291 1.28e+01 d.160.1.1 64988 1rljA 139 1.29e+01 c.23.5.7 104983 1rdfA 267 1.31e+01 c.108.1.3 104884 1khyA 148 1.33e+01 a.174.1.1 77410 1h5qA 265 1.36e+01 1cydA c.2.1.2 60643 1uuqA 440 1.36e+01 c.1.8.3 100015 1d0iA 156 1.36e+01 2dhqA c.23.13.1 31383 1meoA 209 1.42e+01 c.65.1.1 79035 1vh7A 265 1.44e+01 c.1.2.1 100646 1bt0A 76 1.44e+01 1ubi d.15.1.1 37607 1sz7A 200 1.45e+01 1g5hA 454 1.47e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1yzfA 195 1.50e+01 1u9yA 284 1.53e+01 1fezA 256 1.54e+01 1fezA c.108.1.3 43343 4pgaA 337 1.57e+01 4pgaA c.88.1.1 35565 1nt2B 258 1.58e+01 a.183.1.1 86150 1swvA 267 1.59e+01 1b68A 191 1.63e+01 1nfn a.24.1.1 59076 1es9A 232 1.64e+01 1wab c.23.10.3 31340 1xqiA 195 1.65e+01 1k6dA 220 1.67e+01 c.124.1.2 72082 1ezwA 349 1.67e+01 1ezwA c.1.16.3 29558 1zbqA 327 1.72e+01 1wab 232 1.75e+01 1wab c.23.10.3 31341 1lucA 355 1.77e+01 1lucA c.1.16.1 29547 1u02A 239 1.78e+01 c.108.1.15 107538 1eswA 500 1.78e+01 1cwyA c.1.8.1 59500 1jqnA 883 1.81e+01 c.1.12.3 77159 2dhqA 146 1.85e+01 2dhqA c.23.13.1 31382 1e8gA 560 1.85e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1knwA 425 1.87e+01 b.49.2.3,c.1.6.1 90969,90970 1fs5A 266 1.91e+01 c.124.1.1 65044 2d13A 227 1.94e+01 1gtzA 156 1.96e+01 c.23.13.1 70539 1vjtA 483 2.04e+01 c.2.1.5,d.162.1.2 100833,100834 1p0iA 529 2.05e+01 c.69.1.1 93867 2b18A 164 2.16e+01 1e3oC 160 2.24e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1mv8A 436 2.25e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1f2dA 341 2.25e+01 1f2dA c.79.1.1 35298 1h61A 364 2.27e+01 1oyc c.1.4.1 60657 1gvoA 364 2.34e+01 c.1.4.1 76357 1bxkA 355 2.37e+01 1bxkA c.2.1.2 29803 1xyzA 347 2.43e+01 1taxA c.1.8.3 28804 1rypJ 204 2.45e+01 d.153.1.4 41878 1wd5A 208 2.49e+01 1zhvA 134 2.51e+01 1othA 321 2.52e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1hl2A 297 2.56e+01 c.1.10.1 83581 1lucB 324 2.62e+01 1lucA c.1.16.1 29548 1vl8A 267 2.73e+01 c.2.1.2 108733 1bw0A 416 2.75e+01 1bw0A c.67.1.1 34385 1v6tA 255 2.91e+01 1gdhA 320 2.93e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 1ct5A 256 2.93e+01 1ct5A c.1.6.2 28663 1h05A 146 2.96e+01 c.23.13.1 76433 1kgnA 329 3.00e+01 a.25.1.2 68584 1gz6A 319 3.01e+01 c.2.1.2 76410 1tdpA 111 3.03e+01 a.29.8.1 106781 1w1kA 560 3.06e+01 d.58.32.1,d.145.1.1 109059,109060 1rqlA 267 3.06e+01 c.108.1.3 97750 1vykA 149 3.08e+01 1j0dA 341 3.08e+01 c.79.1.1 83902 2chnA 716 3.09e+01 1izcA 339 3.09e+01 c.1.12.5 83838 1x1nA 524 3.18e+01 1dtdA 303 3.20e+01 1aye c.56.5.1 33823 1e6yB 433 3.21e+01 1mroB a.89.1.1,d.58.31.2 18535,39453 1pgtA 210 3.21e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1b3uA 588 3.26e+01 1b3uA a.118.1.2 19135 1mzhA 225 3.31e+01 c.1.10.1 79698 1lzlA 323 3.33e+01 c.69.1.2 78306 1lbkA 208 3.35e+01 a.45.1.1,c.47.1.5 73809,73810 2b6hA 192 3.36e+01 1pdo 135 3.40e+01 1pdo c.54.1.1 33376 1xvxA 312 3.41e+01 2tpsA 227 3.48e+01 2tpsA c.1.3.1 28591 1yzgA 179 3.53e+01 1kkoA 413 3.53e+01 c.1.11.2,d.54.1.1 68675,68676 1mdwA 328 3.62e+01 d.3.1.3 84934 1zj6A 187 3.63e+01 2b8eA 273 3.63e+01 1c02A 166 3.64e+01 1qspA a.24.10.2 16633 1lxnA 99 3.69e+01 d.58.48.1 84737 1o58A 303 3.71e+01 c.79.1.1 92491 1qtwA 285 3.71e+01 1qumA c.1.15.1 29392 1eudA 311 3.75e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1sczA 233 3.78e+01 c.43.1.1 98802 2fh7A 595 3.88e+01 1mr3F 181 3.90e+01 c.37.1.8 79422 1j0aA 325 4.02e+01 c.79.1.1 83871 1tqgA 105 4.03e+01 a.24.10.3 107224 1fcjA 322 4.04e+01 1oasA c.79.1.1 35289 1lw7A 365 4.23e+01 c.26.1.3,c.37.1.1 74295,74296 1tzjA 338 4.32e+01 2f5gA 133 4.32e+01 1gudA 288 4.34e+01 c.93.1.1 83326 1mjfA 281 4.40e+01 c.66.1.17 79198 3pcgM 238 4.42e+01 3pchM b.3.6.1 22742 1zhaA 267 4.56e+01 1k4nA 192 4.58e+01 d.32.1.5 72059 1w8kA 447 4.69e+01 1nzeA 149 4.77e+01 a.24.18.1 92374 2b7kA 200 4.78e+01 1q1gA 276 4.83e+01 c.56.2.1 95574 1uptC 170 4.84e+01 c.37.1.8 99769 1xnaA 183 4.84e+01 1xnaA b.18.1.8 23773 1c8bA 371 4.87e+01 1c8bA c.56.1.2 59082 1y2qA 143 4.88e+01 1afrA 345 4.89e+01 1afrA a.25.1.2 16805 1ru8A 232 4.95e+01 c.26.2.1 97849 1xgsA 295 4.99e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 2a33A 215 5.19e+01 1xkyA 301 5.33e+01 1uptA 171 5.34e+01 c.37.1.8 99767 1deoA 233 5.35e+01 1deoA c.23.10.4 31345 1ql0A 241 5.38e+01 1qaeA d.4.1.2 37139 1qd1A 325 5.40e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1k7cA 233 5.44e+01 c.23.10.4 68267 2bleA 367 5.53e+01 1zj8A 566 5.54e+01 1gpmA 525 5.59e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2bydA 323 5.70e+01 1jcxA 267 5.75e+01 c.1.10.4 66510 1ub3A 220 5.76e+01 c.1.10.1 88395 1oyjA 231 5.79e+01 a.45.1.1,c.47.1.5 87597,87598 1oroA 213 5.81e+01 1opr c.61.1.1 34093 1octC 156 5.84e+01 1au7A a.4.1.1,a.35.1.1 15991,17017 1oq9A 363 5.84e+01 a.25.1.2 87257 1dugA 234 5.85e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1f60A 458 5.85e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1vbuA 328 5.89e+01 2gq1A 332 5.90e+01 1e4yA 214 6.01e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1zzmA 259 6.05e+01 1xfhA 422 6.07e+01 2ae0X 345 6.14e+01 1pe1A 267 6.18e+01 c.1.10.4 94591 1kshA 186 6.19e+01 c.37.1.8 72914 1fwsA 267 6.21e+01 1d9eA c.1.10.4 60063 1tf9A 284 6.23e+01 1r1mA 164 6.24e+01 d.79.7.1 96820 1ww8A 439 6.25e+01 1fxqA 267 6.28e+01 1d9eA c.1.10.4 60108 1gs9A 165 6.28e+01 a.24.1.1 83313 1tr9A 341 6.41e+01 2pgd 482 6.45e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1l2lA 457 6.47e+01 c.72.1.3 77656 1nddA 76 6.61e+01 1ubi d.15.1.1 37599 1s95A 333 6.62e+01 d.159.1.3 105375 1t8xA 267 6.64e+01 2c43A 323 6.64e+01 2dg5A 366 6.67e+01 1zcoA 262 6.74e+01 2a9fA 398 6.81e+01 1nbaA 264 6.82e+01 1nbaA c.33.1.3 31753 2bsxA 253 6.82e+01 2bijA 305 6.84e+01 1nal1 297 6.89e+01 1nal3 2bznA 351 7.00e+01 1fiy 883 7.04e+01 1fiy c.1.12.3 29307 1syyA 346 7.04e+01 a.25.1.2 106126 1nfp 228 7.05e+01 1nfp c.1.16.2 29555 2c6qA 351 7.10e+01 2bnfB 241 7.18e+01 1ib2A 349 7.27e+01 1ib2A a.118.1.8 62141 1vl2A 421 7.28e+01 c.26.2.1,d.210.1.1 108708,108709 1vdkA 466 7.35e+01 a.127.1.1 100561 1byi 224 7.41e+01 1byi c.37.1.10 32199 1klxA 138 7.50e+01 a.118.18.1 77440 1tkjA 284 7.66e+01 2bg5A 324 7.75e+01 1r4aA 165 7.81e+01 c.37.1.8 96986 1y5eA 169 7.84e+01 1lt8A 406 7.90e+01 c.1.26.1 78186 1or3A 165 7.93e+01 1nfn a.24.1.1 16522 2gaeA 346 8.12e+01 1qq9A 284 8.16e+01 1xjo c.56.5.4 33841 2bkrB 77 8.16e+01 1odmA 331 8.18e+01 b.82.2.1 86875 1ohvA 472 8.21e+01 c.67.1.4 93031 1cr1A 296 8.28e+01 1cr1A c.37.1.11 32286 1r8sA 164 8.37e+01 c.37.1.8 97247 1hjsA 332 8.38e+01 c.1.8.3 83492 1zuwA 272 8.39e+01 2bghA 421 8.41e+01 1ysqA 193 8.42e+01 1rzmA 338 8.47e+01 c.1.10.4 105137 2g8lA 299 8.53e+01 2bneA 241 8.54e+01 1kpeA 126 8.56e+01 1kpf d.13.1.1 37508 1y0eA 223 8.72e+01 1kpf 126 8.73e+01 1kpf d.13.1.1 37507 1vmaA 306 8.80e+01 a.24.13.1,c.37.1.10 108887,108888 1ijgA 309 8.80e+01 1fouA e.27.1.1 62493 1f74A 293 8.85e+01 1nal3 c.1.10.1 29079 1o54A 277 8.86e+01 c.66.1.13 92482 1qsdA 106 8.89e+01 1qsdA a.7.5.1 16335 2c5uA 375 8.92e+01 1zud1 251 8.92e+01 1pnsC 206 8.98e+01 i.1.1.1 88170 1jae 471 8.99e+01 1smd b.71.1.1,c.1.8.1 27773,28760