# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1gcb 454 7.78e-01 3gcb d.3.1.1 37034 3gcb 470 9.48e-01 3gcb d.3.1.1 37032 1a6r 471 9.48e-01 3gcb d.3.1.1 37033 1de4C 640 1.12e+00 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1cx8B 639 1.49e+00 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17783,30764,33852 1i5nA 146 1.64e+00 1i5nA a.24.10.3 61805 1cx8A 639 1.99e+00 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17782,30763,33851 1gw5B 591 2.38e+00 a.118.1.10 70630 1ewqA 765 2.50e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1f45B 197 2.51e+00 1f45B a.26.1.1 59642 1f4tA 368 3.11e+00 1f4tA a.104.1.1 18973 1huxA 270 4.41e+00 1huxA c.55.1.5 61278 1ecmA 109 4.54e+00 1ecmA a.130.1.1 19492 1zid 268 4.86e+00 1eny c.2.1.2 29911 1eia 207 6.00e+00 1eia a.28.3.1,a.73.1.1 16951,18331 1f24A 402 6.17e+00 1rom a.104.1.1 18953 1htjF 210 6.36e+00 1htjF a.91.1.1 61254 1rcwA 231 6.92e+00 a.132.1.4 97299 1wn0A 145 7.31e+00 1wy1A 172 7.37e+00 1qgrA 876 7.42e+00 1qgrA a.118.1.1 19119 2fx0A 201 7.58e+00 1v4eA 299 7.76e+00 a.128.1.1 100296 5eat 548 8.36e+00 5eat a.102.4.1,a.128.1.3 18853,19445 145l 164 8.38e+00 1l92 d.2.1.3 36860 144l 164 8.46e+00 1l92 d.2.1.3 36893 1cmnA 402 9.39e+00 1rom a.104.1.1 18958 1ciy 590 9.41e+00 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1g7oA 215 9.57e+00 1g7oA a.45.1.1,c.47.1.5 60332,60333 1w33A 181 1.03e+01 1jfbA 404 1.03e+01 a.104.1.1 66624 2cdqA 510 1.09e+01 123l 164 1.12e+01 1l92 d.2.1.3 36697 143l 164 1.21e+01 1l92 d.2.1.3 36857 177l 164 1.24e+01 1l92 d.2.1.3 36958 149l 164 1.27e+01 1l92 d.2.1.3 36959 1bu7A 455 1.27e+01 1bu7A a.104.1.1 18937 173l 164 1.30e+01 1l92 d.2.1.3 36728 1b3uA 588 1.32e+01 1b3uA a.118.1.2 19135 1y1xA 191 1.33e+01 1eny 268 1.38e+01 1eny c.2.1.2 29910 1aueA 100 1.40e+01 1nsgB a.24.7.1 16615 1b6iA 164 1.41e+01 1l92 d.2.1.3 36945 1rom 403 1.43e+01 1rom a.104.1.1 18963 2aq8A 269 1.45e+01 1jmeA 455 1.46e+01 a.104.1.1 66885 146l 164 1.53e+01 1l92 d.2.1.3 36763 1z5hA 780 1.53e+01 2grrB 170 1.55e+01 1lw9A 164 1.56e+01 d.2.1.3 84727 2thiA 379 1.56e+01 2thiA c.94.1.1 35794 2astA 159 1.61e+01 164l 164 1.64e+01 1l92 d.2.1.3 36714 172l 164 1.68e+01 1l92 d.2.1.3 36905 170l 164 1.72e+01 1l92 d.2.1.3 36968 108l 164 1.73e+01 1l92 d.2.1.3 36669 102l 165 1.73e+01 1l92 d.2.1.3 36724 107l 164 1.76e+01 1l92 d.2.1.3 36690 109l 164 1.78e+01 1l92 d.2.1.3 36781 2c12A 439 1.80e+01 147l 164 1.80e+01 1l92 d.2.1.3 36864 158l 164 1.80e+01 1l92 d.2.1.3 36747 118l 164 1.81e+01 1l92 d.2.1.3 36642 2aelA 374 1.81e+01 1zb1A 392 1.82e+01 160l 164 1.84e+01 1l92 d.2.1.3 36748 1l92 164 1.87e+01 1l92 d.2.1.3 36629 195l 164 1.88e+01 1l92 d.2.1.3 36841 1dq3A 454 1.89e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 166l 164 1.98e+01 1l92 d.2.1.3 36681 1h3nA 878 1.98e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1fiy 883 1.99e+01 1fiy c.1.12.3 29307 197l 164 2.05e+01 1l92 d.2.1.3 36911 155l 164 2.09e+01 1l92 d.2.1.3 36762 120l 164 2.09e+01 1l92 d.2.1.3 36720 156l 164 2.10e+01 1l92 d.2.1.3 36709 196l 164 2.10e+01 1l92 d.2.1.3 36927 138l 164 2.12e+01 1l92 d.2.1.3 36679 174lA 164 2.15e+01 1l92 d.2.1.3 36956 1hqvA 191 2.19e+01 1hqvA a.39.1.8 61160 1dmtA 696 2.19e+01 1dmtA d.92.1.4 40296 129l 164 2.20e+01 1l92 d.2.1.3 36660 1p36A 164 2.20e+01 d.2.1.3 93978 125l 164 2.21e+01 1l92 d.2.1.3 36672 113l 164 2.22e+01 1l92 d.2.1.3 36678 1q8fA 313 2.22e+01 c.70.1.1 96203 112l 164 2.22e+01 1l92 d.2.1.3 36677 119l 164 2.23e+01 1l92 d.2.1.3 36622 1l58 164 2.24e+01 1l92 d.2.1.3 36635 1ash 150 2.26e+01 1ash a.1.1.2 15622 3fapB 94 2.28e+01 1nsgB a.24.7.1 16612 165l 164 2.31e+01 1l92 d.2.1.3 36680 1keyA 235 2.31e+01 a.118.16.1 72389 1r1hA 696 2.32e+01 d.92.1.4 104756 111l 164 2.32e+01 1l92 d.2.1.3 36661 130l 164 2.32e+01 1l92 d.2.1.3 36638 190l 164 2.33e+01 1l92 d.2.1.3 36892 103l 167 2.37e+01 1l92 d.2.1.3 36870 115l 164 2.38e+01 1l92 d.2.1.3 36700 142l 164 2.40e+01 1l92 d.2.1.3 36874 126l 164 2.40e+01 1l92 d.2.1.3 36699 180lA 164 2.41e+01 1l92 d.2.1.3 36867 131l 164 2.41e+01 1l92 d.2.1.3 36685 189l 164 2.41e+01 1l92 d.2.1.3 36960 1lmzA 187 2.41e+01 a.96.1.4 74037 122l 164 2.46e+01 1l92 d.2.1.3 36667 114l 164 2.54e+01 1l92 d.2.1.3 36663 167lA 164 2.55e+01 1l92 d.2.1.3 36937 1zejA 293 2.59e+01 1qb4A 883 2.60e+01 c.1.12.3 74640 104lA 166 2.62e+01 1l92 d.2.1.3 36969 175lA 164 2.66e+01 1l92 d.2.1.3 36924 1apxA 249 2.68e+01 1ryc a.93.1.1 18669 176lA 164 2.69e+01 1l92 d.2.1.3 36942 152l 164 2.69e+01 1l92 d.2.1.3 36904 192l 164 2.75e+01 1l92 d.2.1.3 36815 110l 164 2.81e+01 1l92 d.2.1.3 36684 137lA 164 2.84e+01 1l92 d.2.1.3 36791 2ahqA 76 2.85e+01 1rxqA 178 2.85e+01 a.213.1.1 105118 1rw6A 210 2.87e+01 a.47.4.1 105113 198l 164 2.88e+01 1l92 d.2.1.3 36785 1jpzA 473 2.89e+01 a.104.1.1 67069 140l 164 2.89e+01 1l92 d.2.1.3 36891 2db0A 253 2.89e+01 199l 164 2.95e+01 1l92 d.2.1.3 36855 2akaB 299 2.96e+01 141l 164 3.04e+01 1l92 d.2.1.3 36863 5eau 548 3.05e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1e2uA 553 3.06e+01 1e1dA e.26.1.1 43362 1gntA 553 3.06e+01 e.26.1.1 70290 1ow4A 129 3.09e+01 a.39.2.1 93628 1cktA 71 3.14e+01 1cktA a.21.1.1 16417 163l 164 3.16e+01 1l92 d.2.1.3 36658 1f60A 458 3.20e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 159l 164 3.26e+01 1l92 d.2.1.3 36682 1en7A 157 3.28e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 1au1A 166 3.30e+01 1ifa a.26.1.3 16889 2c6cA 707 3.33e+01 1e1dA 553 3.36e+01 1e1dA e.26.1.1 43363 1e7lA 157 3.38e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1rtwA 220 3.38e+01 a.132.1.3 97823 2ex0A 399 3.42e+01 128l 164 3.42e+01 1l92 d.2.1.3 36634 1jlwA 219 3.46e+01 a.45.1.1,c.47.1.5 71741,71742 1dovA 181 3.47e+01 1dovA a.24.9.1 16627 171l 164 3.51e+01 1l92 d.2.1.3 36962 2bmhA 455 3.55e+01 1bu7A a.104.1.1 18941 162l 164 3.60e+01 1l92 d.2.1.3 36749 1b5pA 385 3.66e+01 c.67.1.1 90403 2eiaB 206 3.79e+01 1eia a.28.3.1,a.73.1.1 16950,18330 2gdqA 382 3.80e+01 1ll2A 333 3.81e+01 c.68.1.14 74005 139l 164 3.81e+01 1l92 d.2.1.3 36643 1ireB 228 3.84e+01 b.34.4.4 76770 1ugpB 226 3.84e+01 b.34.4.4 107832 1bjwA 382 3.85e+01 1bjwA c.67.1.1 34349 1yxcA 292 3.90e+01 2gnoA 305 4.04e+01 2a6lA 292 4.05e+01 2fbnA 198 4.06e+01 2a6nA 292 4.07e+01 1jqnA 883 4.08e+01 c.1.12.3 77159 1etpA 190 4.08e+01 1etpA a.3.1.4,a.3.1.4 15962,15963 1hx1B 114 4.08e+01 1hx1B a.7.7.1 61350 191l 164 4.13e+01 1l92 d.2.1.3 36826 1kqfC 217 4.16e+01 f.21.1.1 72874 1zcdA 388 4.16e+01 1yv5A 374 4.24e+01 1jfgA 374 4.25e+01 a.128.1.5 66636 1sctB 151 4.30e+01 3sdhA a.1.1.2 15003 1b9uA 34 4.41e+01 1b9uA j.35.1.1 46260 1omwA 689 4.41e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1dg3A 592 4.43e+01 1dg3A a.114.1.1,c.37.1.8 19078,32153 1jfaA 374 4.55e+01 a.128.1.5 66622 1x6iA 91 4.59e+01 1e2xA 243 4.63e+01 1e2xA a.4.5.6,a.78.1.1 16113,18443 1m70A 190 4.74e+01 a.3.1.4,a.3.1.4 91200,91201 1yoyA 175 4.76e+01 2f94F 350 4.79e+01 1v7bA 185 4.80e+01 169lA 164 4.81e+01 1l92 d.2.1.3 36963 1ll0A 339 4.82e+01 c.68.1.14 73995 1ec7A 446 4.84e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1m93B 245 4.92e+01 1ej5A 107 5.05e+01 1ej5A a.68.1.1 18268 1h6zA 913 5.10e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 161l 164 5.14e+01 1l92 d.2.1.3 36636 1h3qA 140 5.14e+01 d.110.4.3 76652 1f1oA 431 5.16e+01 1f1oA a.127.1.1 19433 1ry6A 360 5.19e+01 c.37.1.9 98090 1pu6A 218 5.21e+01 a.96.1.5 95123 1ohgA 282 5.22e+01 d.183.1.1 93018 2gyqA 175 5.26e+01 1jdfA 447 5.29e+01 c.1.11.2,d.54.1.1 62897,62898 1swyA 164 5.32e+01 1sx7A 164 5.32e+01 1t9kA 347 5.40e+01 c.124.1.5 106721 2azqA 311 5.43e+01 2beqA 38 5.44e+01 1e5rA 290 5.44e+01 1e5rA b.82.2.4 59276 1pv9A 348 5.47e+01 c.55.2.1,d.127.1.1 95157,95158 1c8oA 300 5.47e+01 1c8oA e.1.1.1 42677 1pbgA 468 5.55e+01 1e70M c.1.8.4 28946 1aab 83 5.59e+01 1cktA a.21.1.1 16420 1wdgA 94 5.61e+01 h.3.3.1 109248 1zs3A 182 5.62e+01 1kn1B 161 5.73e+01 a.1.1.3 77456 1vg5A 73 5.76e+01 2d2mD 145 5.76e+01 1hyp 80 5.82e+01 1hyp a.52.1.1 17806 1fs1B 141 5.90e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1paqA 189 5.91e+01 a.118.1.14 94413 1gk4A 84 5.91e+01 h.1.20.1 70203 1gowA 489 5.92e+01 1qvbA c.1.8.4 28981 1w7jA 795 5.94e+01 1a32 88 5.98e+01 1a32 a.16.1.2 16384 1yrbA 262 6.04e+01 2b2hA 399 6.05e+01 2fs3A 282 6.07e+01 168lA 164 6.14e+01 1l92 d.2.1.3 36975 1ltm 320 6.22e+01 1ltm d.2.1.6 36992 1aazA 87 6.39e+01 1aba c.47.1.1 32761 1eg3A 261 6.39e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1m32A 366 6.54e+01 c.67.1.3 78508 2a11A 242 6.55e+01 1uok 558 6.56e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1vf6C 72 6.61e+01 a.194.1.1 100602 1nsgB 94 6.73e+01 1nsgB a.24.7.1 16613 2rslA 140 6.82e+01 2rslA c.53.1.1 33345 1kcfA 258 6.83e+01 a.140.2.1,c.55.3.7 68434,68435 1x79B 112 7.00e+01 1sz9A 144 7.03e+01 a.118.9.4 106139 1emy 153 7.06e+01 1a6m a.1.1.2 15204 3pbgA 468 7.08e+01 1e70M c.1.8.4 28951 1f5nA 592 7.19e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 157l 164 7.24e+01 1l92 d.2.1.3 36717 1g60A 260 7.31e+01 c.66.1.11 70151 1dowA 205 7.31e+01 1dovA a.24.9.1 16626 2a35A 215 7.34e+01 127l 164 7.41e+01 d.2.1.3 36745 1pz1A 333 7.42e+01 c.1.7.1 95390 1fh6A 282 7.48e+01 1fh6A 1aba 87 7.48e+01 1aba c.47.1.1 32760 1tiyA 164 7.54e+01 c.97.1.2 107012 1qusA 322 7.62e+01 1ltm d.2.1.6 36991 1dhpA 292 7.71e+01 1dhpA c.1.10.1 29097 1xv5A 401 7.84e+01 1f0cA 305 7.86e+01 1c8oA e.1.1.1 42676 1yyqA 374 7.93e+01 2fnaA 357 8.00e+01 1gdoB 240 8.10e+01 1gdoA 1oyzA 280 8.18e+01 a.118.1.16 93775 2bzpA 226 8.19e+01 2b1eA 564 8.21e+01 1nx8A 273 8.21e+01 b.82.2.8 86374 1sdiA 213 8.26e+01 a.198.1.1 105437 1jbgA 109 8.32e+01 a.6.1.3 66480 1qdbA 473 8.56e+01 1qdbA a.138.1.3 19688 1mh3A 421 8.62e+01 a.4.1.1,c.94.1.1 79112,79113 1ox3A 109 8.71e+01 h.1.17.1 93668 1ux5A 411 8.72e+01 a.207.1.1 100144 1r4gA 53 8.73e+01 a.8.5.1 96996 1myt 146 8.84e+01 1a6m a.1.1.2 15207 1w5fA 353 8.92e+01 1tplA 426 8.97e+01 1ax4A c.67.1.2 34387