# 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 1wqaA 455 3.87e-01 1wdtA 665 1.35e+00 1pvvA 315 2.45e+00 c.78.1.1,c.78.1.1 95190,95191 1a6q 382 2.49e+00 1a6q a.159.1.1,d.219.1.1 75801,75802 1ju2A 536 4.39e+00 c.3.1.2,d.16.1.1 77169,77170 1nvmB 312 4.66e+00 c.2.1.3,d.81.1.1 86251,86252 1hbq 183 4.95e+00 1aqb b.60.1.1 27078 1aqb 183 5.11e+00 1aqb b.60.1.1 27084 1k2fA 190 5.52e+00 b.8.1.2 68054 1kt6A 183 5.80e+00 b.60.1.1 84466 1ukuA 102 7.07e+00 d.58.5.2 99533 1ng4A 390 8.48e+00 c.3.1.2,d.16.1.3 85666,85667 2eueA 279 8.74e+00 1hu4A 288 9.78e+00 1hu4A 1n5dA 288 9.89e+00 c.2.1.2 80030 1ryiA 382 1.02e+01 1y2mA 716 1.04e+01 1bazA 53 1.11e+01 1bazA a.43.1.1 17421 1w44A 331 1.17e+01 1ws6A 171 1.21e+01 1odkA 235 1.24e+01 c.56.2.1 86863 1ea9C 583 1.26e+01 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1i05A 180 1.28e+01 1mup b.60.1.1 27130 2a7oA 112 1.31e+01 2fu2A 102 1.44e+01 1qy1A 174 1.45e+01 b.60.1.1 96568 1zndA 174 1.45e+01 2ah6A 208 1.45e+01 1q77A 138 1.51e+01 c.26.2.4 96023 1i06A 180 1.52e+01 1mup b.60.1.1 27131 2di4A 238 1.54e+01 1vd5A 377 1.59e+01 a.102.1.7 108518 1t6jA 714 1.64e+01 2a67A 167 1.68e+01 1jv4A 162 1.86e+01 b.60.1.1 67343 1fcyA 236 1.95e+01 2lbd a.123.1.1 19282 2a7mA 250 1.99e+01 1avqA 228 2.05e+01 1avqA c.52.1.13 33326 1w1wA 430 2.05e+01 1yemA 179 2.08e+01 2cpgA 45 2.11e+01 2cpgA a.43.1.3 17455 1ynfA 458 2.13e+01 2al1A 436 2.21e+01 1vjeA 166 2.22e+01 d.185.1.2 100807 1othA 321 2.28e+01 1othA c.78.1.1,c.78.1.1 35260,35261 2bx2L 517 2.29e+01 1lngA 87 2.31e+01 d.201.1.1 74045 1uby 367 2.31e+01 1uby a.128.1.1 19435 1bqk 124 2.33e+01 1bqk b.6.1.1 22889 1innA 166 2.33e+01 1j98A d.185.1.2 62608 2fv1A 377 2.35e+01 1ykhB 132 2.36e+01 1wnlA 235 2.38e+01 1kqqA 139 2.45e+01 a.4.3.1 72885 1d3yA 301 2.45e+01 1d3yA e.12.1.1 43252 1phk 298 2.45e+01 1cdkA d.144.1.7 41635 1sj1A 66 2.50e+01 d.58.1.4 105595 1ztdA 133 2.52e+01 1l1lA 739 2.52e+01 c.7.1.4 73470 1wuiS 267 2.63e+01 2al2A 436 2.63e+01 1jx2B 315 2.64e+01 c.37.1.8 67404 4enl 436 2.65e+01 4enl c.1.11.1,d.54.1.1 29202,38846 2a6sA 84 2.68e+01 1bco 327 2.79e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1mup 166 2.85e+01 1mup b.60.1.1 27133 2bjcA 62 2.90e+01 2cunA 410 2.95e+01 1hgxA 183 2.98e+01 1tc1A c.61.1.1 34027 1ubkS 267 3.01e+01 e.19.1.1 88423 1vq3A 94 3.04e+01 1yv5A 374 3.11e+01 1h2rS 267 3.13e+01 2frvA e.19.1.1 43310 1vp8A 201 3.18e+01 1auiB 169 3.18e+01 1auiB a.39.1.5 17325 2bj7A 138 3.20e+01 1s0uA 408 3.26e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 2cwxA 430 3.28e+01 2cbiA 594 3.32e+01 1f35A 162 3.34e+01 1f35A b.94.1.1 59628 1oneA 436 3.36e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1g1eB 89 3.48e+01 1g1eB a.59.1.1 17931 1zbsA 291 3.58e+01 1v7pC 200 3.63e+01 c.62.1.1 108408 1fsz 372 3.64e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1xc3A 302 3.67e+01 1yq7A 374 3.69e+01 2b4yA 271 3.75e+01 1ru3A 732 3.81e+01 e.26.1.3 97835 1c0pA 363 3.84e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 2f94F 350 3.85e+01 2b99A 156 3.90e+01 1wvfA 520 3.92e+01 1jnrA 643 3.93e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2aeeA 211 3.95e+01 1vkcA 158 3.95e+01 5ukdA 194 3.96e+01 1zin c.37.1.1 31851 1p0hA 318 3.98e+01 d.108.1.1 93866 1rfmA 344 4.09e+01 c.122.1.1 97385 1i9sA 210 4.13e+01 1i9sA c.45.1.1 62099 1voqa 90 4.17e+01 1q0vA 81 4.24e+01 j.105.1.1 95514 2a72A 146 4.28e+01 1wozA 177 4.28e+01 2h6dA 276 4.34e+01 2c46A 241 4.40e+01 1yh6A 179 4.45e+01 2arhA 203 4.54e+01 1eceA 358 4.56e+01 1eceA c.1.8.3 28813 1yseA 141 4.65e+01 2f05A 105 4.80e+01 1a0i 348 4.81e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1cg5A 141 4.81e+01 1abwA a.1.1.2 15406 2fjbA 643 4.89e+01 1ryp1 222 4.94e+01 1ryp1 1lf7A 182 4.96e+01 b.60.1.1 73878 1ghhA 81 4.97e+01 1ghhA d.57.1.1 38940 1yj7A 171 5.02e+01 1yovA 537 5.05e+01 1c25 161 5.07e+01 1c25 c.46.1.1 32698 1zq1C 633 5.13e+01 1m1nA 491 5.18e+01 c.92.2.3 78417 1wmaA 276 5.19e+01 2c27A 315 5.19e+01 1qf9A 194 5.21e+01 1zin c.37.1.1 31848 2bk9A 153 5.23e+01 1iq8A 582 5.25e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 2gsaA 432 5.28e+01 2gsaA c.67.1.4 34446 1vbiA 344 5.34e+01 2mgg 154 5.42e+01 1a6m a.1.1.2 15069 1g0uL 241 5.46e+01 d.153.1.4 41894 1j0hA 588 5.46e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1pfbA 55 5.48e+01 b.34.13.2 94655 1obwA 175 5.54e+01 2prd b.40.5.1 25416 1wqwA 235 5.55e+01 1fa0A 537 5.58e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1h54A 754 5.59e+01 a.102.1.4,b.30.5.3 60634,60635 2bitX 165 5.59e+01 1mlo 154 5.69e+01 1a6m a.1.1.2 15085 1tadA 324 5.70e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 2fu0A 160 5.74e+01 1zpvA 91 5.74e+01 1wj9A 211 5.78e+01 1zljA 78 5.80e+01 1mlg 154 5.82e+01 1a6m a.1.1.2 15104 2boqA 331 5.88e+01 1babB 146 5.90e+01 1abwA a.1.1.2 15414 2gsq 202 5.91e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1vkhA 273 5.98e+01 c.69.1.32 108662 2bw3A 534 6.00e+01 1ri7A 171 6.01e+01 a.4.5.32,d.58.4.2 97504,97505 1yzvA 204 6.08e+01 103m 154 6.13e+01 1a6m a.1.1.2 15124 1i40A 175 6.13e+01 b.40.5.1 66024 1mod 154 6.13e+01 1a6m a.1.1.2 15107 1iwhB 146 6.13e+01 a.1.1.2 76883 1gvdA 52 6.17e+01 a.4.1.3 83338 1dekA 241 6.19e+01 1dekA c.37.1.1 31842 2spl 154 6.20e+01 1a6m a.1.1.2 15047 1tag 324 6.25e+01 1cipA a.66.1.1,c.37.1.8 18197,32080 1mym 154 6.25e+01 1a6m a.1.1.2 15054 1aisB 200 6.25e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1dar 691 6.26e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1v74B 87 6.26e+01 a.24.20.1 100443 1o60A 292 6.27e+01 c.1.10.4 92532 1nar 290 6.32e+01 1nar c.1.8.5 28988 1rzuA 485 6.33e+01 c.87.1.8 105140 2cyeA 133 6.38e+01 1q3iA 214 6.44e+01 d.220.1.1 104524 1n9lA 109 6.52e+01 d.110.3.6 85468 1mjhA 162 6.53e+01 1mjhA c.26.2.4 31639 1mll 154 6.57e+01 1a6m a.1.1.2 15057 1dywA 173 6.60e+01 2cpl b.62.1.1 27505 1q1vA 70 6.61e+01 a.159.4.1 104479 1t3cA 421 6.61e+01 d.92.1.7 106343 2mgb 154 6.62e+01 1a6m a.1.1.2 15102 1xyzA 347 6.69e+01 1taxA c.1.8.3 28804 1y6hA 177 6.73e+01 1w18A 493 6.76e+01 1l2tA 235 6.83e+01 c.37.1.12 73514 2aa1A 144 6.90e+01 1e9rA 437 6.98e+01 c.37.1.11 64827 2faoA 309 6.98e+01 1wycA 392 7.00e+01 1mzbA 136 7.03e+01 a.4.5.42 91497 1z3eB 73 7.06e+01 1y6nL 145 7.10e+01 1s4kA 120 7.12e+01 a.35.1.6 105254 1w8iA 156 7.13e+01 1fi4A 416 7.15e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 2ilk 160 7.15e+01 2ilk a.26.1.3 16885 1vehA 92 7.27e+01 1wvqA 167 7.30e+01 1o54A 277 7.32e+01 c.66.1.13 92482 2d5xB 146 7.33e+01 1pt6A 213 7.36e+01 c.62.1.1 95091 1em8A 147 7.46e+01 c.128.1.1 90457 1p4xA 250 7.48e+01 a.4.5.28,a.4.5.28 87784,87785 1irdB 146 7.49e+01 a.1.1.2 66287 1yh1A 359 7.58e+01 1oaa 259 7.59e+01 1oaa c.2.1.2 29829 1bebA 162 7.66e+01 1bebA b.60.1.1 27115 1g291 372 7.77e+01 1g291 2ajrA 331 7.85e+01 1i3dA 146 7.94e+01 a.1.1.2 61587 1htjF 210 7.94e+01 1htjF a.91.1.1 61254 1wybA 392 7.99e+01 2d8dA 90 7.99e+01 1zq6A 359 8.02e+01 2f5xA 312 8.03e+01 7odcA 424 8.05e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1a6m 151 8.09e+01 1a6m a.1.1.2 15018 1gen 218 8.12e+01 1gen b.66.1.1 27536 1gw0A 559 8.14e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 1f83A 425 8.16e+01 1f82A d.92.1.7 40306 2gnoA 305 8.17e+01 1dleA 298 8.20e+01 1dleA b.47.1.2 26312 1bjt 793 8.22e+01 1bjt e.11.1.1 43249 1xi3A 215 8.24e+01 c.1.3.1 109601 1i5gA 144 8.25e+01 1ewxA c.47.1.10 61784 1t07A 94 8.26e+01 d.279.1.1 106196 1y1pA 342 8.33e+01 1zoyB 252 8.36e+01 1q67A 231 8.49e+01 b.55.1.7 95960 1kkhA 317 8.54e+01 d.14.1.5,d.58.26.3 72645,72646 2bjiA 277 8.54e+01 1ka2A 499 8.56e+01 d.92.1.5 77305 1wh5A 80 8.61e+01 1dzkA 157 8.61e+01 1obpA b.60.1.1 27096 2b4aA 138 8.71e+01 1xt8A 292 8.73e+01 1o26A 232 8.75e+01 d.207.1.1 86566 2d69A 430 8.79e+01 1spgA 144 8.81e+01 1abwA a.1.1.2 15409 1t8tA 271 8.84e+01 c.37.1.5 106685 1tph1 247 8.86e+01 1amk 1q87A 221 8.90e+01 e.47.1.1 96192 3csuA 310 8.93e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1szqA 483 8.99e+01 e.44.1.1 99045