# 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 2qe9A 178 1.12e-14 2qnlA 162 3.47e-11 2f22A 144 3.71e-11 a.213.1.2 132795 2p1aA 154 4.94e-10 2ou6A 190 1.89e-09 2hkvA 149 2.66e-09 1rxqA 178 1.24e-05 a.213.1.1 105118 2yqyA 169 2.58e-05 2nsfA 261 1.06e-02 1yvwA 115 4.32e-01 a.204.1.4 124122 2fswA 107 1.62e+00 a.4.5.69 134042 1ivhA 394 1.81e+00 3mdeA a.29.3.1,e.6.1.1 16608,42869 1rxwA 336 1.85e+00 a.60.7.1,c.120.1.2 98059,98060 1q0gA 117 1.90e+00 a.24.22.1 104428 2arhA 203 2.95e+00 d.108.1.9 127197 2yxhA 116 3.01e+00 1v64A 108 3.05e+00 a.21.1.1 108392 2a7wA 116 3.37e+00 a.204.1.4 126369 1ucpA 91 3.73e+00 a.77.1.5 99186 2qw6A 112 3.90e+00 1ywwA 85 4.03e+00 2f6lA 166 5.82e+00 a.130.1.4 133049 2hm2Q 89 6.02e+00 2qcxA 263 6.96e+00 2qytA 317 7.00e+00 2q1zA 184 7.28e+00 2fp1A 166 7.52e+00 a.130.1.4 133891 2f6mB 109 7.69e+00 a.2.17.2 133052 2c82A 413 7.76e+00 1f5qB 252 7.98e+00 1f5qB a.74.1.1,a.74.1.1 18362,18363 1ydmA 187 8.08e+00 2p1tA 240 8.31e+00 2j5uA 255 8.95e+00 1vrbA 342 9.44e+00 b.82.2.11 120450 1nyhA 166 9.63e+00 h.1.23.1 86403 3c4hA 357 9.63e+00 1g8pA 350 9.69e+00 1g8pA c.37.1.20 60376 1rykA 69 9.91e+00 a.60.11.1 98105 2p64A 52 1.00e+01 1jcfA 344 1.05e+01 c.55.1.1,c.55.1.1 62878,62879 1m1nA 491 1.08e+01 c.92.2.3 78417 1tyhA 248 1.10e+01 a.132.1.3 107458 2b2yA 187 1.10e+01 b.34.13.2,b.34.13.2 127754,127755 1t6uA 117 1.17e+01 a.24.22.1 106584 1gvdA 52 1.17e+01 a.4.1.3 83338 1txjA 171 1.18e+01 b.88.1.2 107424 1pl5A 142 1.19e+01 h.1.23.1 104186 1j32A 388 1.23e+01 c.67.1.1 77067 1k1fA 72 1.24e+01 a.147.1.1 68007 2fgoA 82 1.24e+01 1g5yA 238 1.29e+01 1lbd a.123.1.1 60294 2e50A 225 1.31e+01 2rdpA 150 1.37e+01 2jz5A 91 1.40e+01 1tz9A 367 1.42e+01 c.1.15.6 107466 1y6xA 93 1.43e+01 a.204.1.4 122676 1s4kA 120 1.47e+01 a.35.1.6 105254 1m4yA 171 1.52e+01 d.153.1.4 84802 2v7kA 361 1.54e+01 3b9eA 584 1.57e+01 1jr8A 117 1.64e+01 a.24.15.1 67115 2au5A 139 1.65e+01 a.244.1.1 127322 1vimA 200 1.68e+01 c.80.1.3 100758 2dy1A 665 1.71e+01 1yakA 263 1.79e+01 a.132.1.3 122833 1ct5A 256 1.79e+01 1ct5A c.1.6.2 28663 1dkfA 233 1.79e+01 3erdA a.123.1.1 19280 3byvA 377 1.93e+01 1h6qA 168 1.97e+01 1h6qA b.88.1.2 60692 1t9mA 214 2.00e+01 b.45.1.1 112364 2obhA 143 2.01e+01 1b47A 304 2.03e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 1fp4A 492 2.04e+01 c.92.2.3 76187 1p68A 102 2.12e+01 k.8.1.1 94158 2qniA 219 2.14e+01 2oixA 186 2.15e+01 1knvA 293 2.22e+01 c.52.1.7 68707 1zchA 255 2.24e+01 d.90.1.1 124908 2h9dA 101 2.28e+01 a.130.1.1 136250 1qb2A 109 2.29e+01 1qb2A a.36.1.1 17125 1pzlA 237 2.30e+01 a.123.1.1 104393 2rjiA 84 2.35e+01 1r9dA 787 2.43e+01 c.7.1.1 104865 2nnnA 140 2.45e+01 1pufB 73 2.49e+01 a.4.1.1 95132 1ykhB 132 2.53e+01 a.252.1.1 123519 2etsA 128 2.54e+01 a.24.26.1 132371 1gmuA 143 2.56e+01 b.107.1.1,d.58.38.1 65335,65336 1qbjA 81 2.58e+01 1qbjA a.4.5.19 16155 1xo0A 324 2.68e+01 a.60.9.1,d.163.1.1 115674,115675 1qgpA 77 2.68e+01 1qbjA a.4.5.19 16158 2ddfA 257 2.74e+01 3ccyA 203 2.75e+01 1o08A 221 2.76e+01 c.108.1.6 86525 1wu3I 161 2.76e+01 a.26.1.3 114890 3cklA 298 2.89e+01 1bkcA 255 2.93e+01 1bkcA d.92.1.10 40331 2ethA 154 2.95e+01 a.4.5.28 132358 2pa9A 357 2.98e+01 1rkbA 173 3.01e+01 c.37.1.1 111854 2pa8L 92 3.05e+01 2bcgG 453 3.07e+01 c.3.1.3,c.3.1.3,d.16.1.6 128282,128283,128284 2gpcA 194 3.10e+01 4crxA 322 3.11e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 2ifuA 307 3.13e+01 1bob 320 3.16e+01 1bob 1bobA 320 3.16e+01 d.108.1.1 40816 1zxcA 263 3.20e+01 d.92.1.10 125769 2ad6B 69 3.24e+01 a.137.2.1 126569 2fiyA 309 3.27e+01 e.59.1.1 133540 1yz1A 174 3.27e+01 b.88.1.2 124264 1giqA 413 3.28e+01 d.166.1.1,d.166.1.1 76224,76225 1u3eM 174 3.33e+01 d.4.1.3,d.285.1.1 107640,107641 2qfaC 47 3.34e+01 2rklA 53 3.34e+01 1dt1A 129 3.35e+01 1c52 a.3.1.1 15811 2o02A 230 3.36e+01 1pv9A 348 3.48e+01 c.55.2.1,d.127.1.1 95157,95158 1m85A 484 3.49e+01 e.5.1.1 74578 1rovA 857 3.50e+01 a.119.1.1,b.12.1.1 97674,97675 1a03A 90 3.54e+01 4icb a.39.1.2 17157 2cstA 411 3.55e+01 1ajsA c.67.1.1 34273 1ei7A 158 3.73e+01 1rmvA a.24.5.1 16584 2cblA 305 3.74e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1jtvA 327 3.77e+01 c.2.1.2 84230 3cjdA 198 3.84e+01 1lzlA 323 3.85e+01 c.69.1.2 78306 2ox1A 196 3.87e+01 1kbuA 349 3.88e+01 a.60.9.1,d.163.1.1 72284,72285 3buxB 329 3.95e+01 2qgaB 465 3.99e+01 2g7sA 194 4.00e+01 a.4.1.9,a.121.1.1 134737,134738 256bA 106 4.02e+01 256bA a.24.3.1 16539 1b6rA 355 4.02e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1vjxA 157 4.04e+01 a.25.1.1 100837 2uuuA 584 4.07e+01 2hp7A 183 4.08e+01 2gb7A 305 4.11e+01 1ji7A 89 4.14e+01 a.60.1.1 71682 1auq 208 4.16e+01 1auq 1z8oA 404 4.17e+01 a.104.1.1 124722 1bkcE 256 4.20e+01 1bkcA d.92.1.10 40333 1wy2A 351 4.22e+01 3boqA 160 4.24e+01 1jipA 403 4.26e+01 a.104.1.1 66748 1fgs 428 4.28e+01 1fgs 1b6sA 355 4.30e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28242,31649,41494 1e2aA 105 4.35e+01 1e2aA a.7.2.1 16322 1qjaA 245 4.36e+01 1qjaA a.118.7.1 19204 2pth 193 4.51e+01 2pth 1a0aA 63 4.57e+01 1a0aA a.38.1.1 17138 1bkjA 240 4.60e+01 1bkjA d.90.1.1 40243 1uesA 191 4.66e+01 a.2.11.1,d.44.1.1 107798,107799 2pthA 193 4.67e+01 c.56.3.1 33793 1kczA 413 4.67e+01 c.1.11.2,d.54.1.1 68451,68452 1wr6A 111 4.75e+01 1gdhA 320 4.81e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 1ufoA 238 4.81e+01 c.69.1.27 99344 2peqA 134 4.84e+01 1psrA 100 4.85e+01 1psrA a.39.1.2 17180 2fafA 608 4.94e+01 1c3hA 137 4.96e+01 b.22.1.1 90405 2qvwA 756 4.96e+01 2hvgA 482 4.97e+01 2ebeA 106 5.00e+01 1e4iA 447 5.02e+01 1e70M c.1.8.4 59225 2a8yA 270 5.02e+01 2c3nA 247 5.03e+01 3crxA 343 5.05e+01 4crxA a.60.9.1,d.163.1.1 18101,42161 2ph0A 174 5.06e+01 1ihgA 370 5.08e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1qk9A 92 5.09e+01 1qk9A d.10.1.3 37485 1uerA 191 5.14e+01 a.2.11.1,d.44.1.1 107790,107791 1yirA 408 5.26e+01 c.1.17.2,d.41.2.2 123330,123331 1ionA 243 5.30e+01 c.37.1.10 62633 1flp 142 5.31e+01 1flp 2nogA 173 5.34e+01 1wrdA 103 5.40e+01 1wh5A 80 5.41e+01 a.4.1.1 114633 2nybA 192 5.48e+01 a.2.11.1,d.44.1.1 138804,138805 2z2iA 191 5.50e+01 2dr1A 386 5.58e+01 1w70A 60 5.60e+01 2hpsA 186 5.60e+01 2i7qA 402 5.66e+01 1xkpC 143 5.75e+01 d.198.1.1 122088 2p06A 114 5.76e+01 a.204.1.3 139452 1bkcI 256 5.79e+01 1bkcA d.92.1.10 40334 1tr1A 447 5.79e+01 1e70M c.1.8.4 28957 1djxA 624 5.82e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1yvhA 329 5.87e+01 a.39.1.7,a.48.1.1,d.93.1.1 124096,124097,124098 1k7kA 221 5.89e+01 c.51.4.1 72104 2hujA 140 5.90e+01 a.24.26.1 136777 2p22D 79 5.92e+01 1lv2A 229 6.01e+01 a.123.1.1 78230 1q74A 303 6.01e+01 c.134.1.1 96019 2o3fA 111 6.07e+01 1c02A 166 6.09e+01 1qspA a.24.10.2 16633 2dbqA 334 6.19e+01 1es9A 232 6.21e+01 1wab c.23.10.3 31340 1wozA 177 6.26e+01 1gwcA 230 6.36e+01 a.45.1.1,c.47.1.5 70660,70661 1odoA 408 6.37e+01 a.104.1.1 92783 1e85A 127 6.38e+01 1bbhA a.24.3.2 16549 2pv4A 145 6.48e+01 2br9A 234 6.53e+01 2ogiA 196 6.54e+01 2azjA 289 6.56e+01 1du6A 64 6.61e+01 1akhA a.4.1.1 16002 1c52 131 6.65e+01 1c52 1c52A 131 6.65e+01 a.3.1.1 15810 1ge9A 184 6.66e+01 1dd5A d.67.3.1 60463 1ajsA 412 6.75e+01 1ajsA c.67.1.1 34276 1zkkA 167 6.76e+01 1j99A 293 6.85e+01 c.37.1.5 71618 1kxpD 458 6.86e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1b79A 119 6.90e+01 1b79A a.81.1.1 18451 1w53A 84 6.90e+01 a.186.1.2 109175 2g30A 258 6.92e+01 b.1.10.1,d.105.1.1 134546,134547 2fhqA 141 6.95e+01 b.45.1.1 133497 1bccF 109 7.04e+01 1be3F f.27.1.1 43700 1t3jA 96 7.09e+01 h.4.16.1 106356 1fcqA 350 7.12e+01 c.1.8.9 65006 1vmgA 95 7.21e+01 a.204.1.2 113676 2awaA 390 7.24e+01 1lbd 282 7.32e+01 1lbd 2qklB 95 7.33e+01 2e2aA 105 7.38e+01 a.7.2.1 88499 1e42A 258 7.38e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1crxA 322 7.49e+01 4crxA a.60.9.1,d.163.1.1 18097,42157 1lxnA 99 7.55e+01 d.58.48.1 84737 1qjbA 245 7.62e+01 1qjaA a.118.7.1 19202 2zbxA 412 7.64e+01 3c7jA 237 7.67e+01 2epiA 100 7.70e+01 2f2hA 773 7.73e+01 b.150.1.1,b.30.5.11,b.71.1.4,c.1.8.13 132818,132819,132820,132821 5reqA 727 7.73e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1ypyA 184 7.74e+01 3bkhA 268 7.77e+01 2bh4X 134 7.79e+01 2cr9A 139 7.79e+01 d.297.1.1 130735 1vlcA 366 7.85e+01 c.77.1.1 108743 1zt2B 212 7.98e+01 a.262.1.1 125625