# List of top-scoring protein chains for t2k-100-30-str2-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 2ausA 334 7.32e-01 1nwpA 128 1.70e+00 1nwpA b.6.1.1 23011 2b5iC 199 1.84e+00 b.1.2.1,b.1.2.1 127898,127899 1xovA 326 2.52e+00 b.34.11.4,c.56.5.6 122206,122207 2gysA 419 3.47e+00 b.1.2.1,b.1.2.1,b.1.2.1,b.1.2.1 135865,135866,135867,135868 3cihA 739 3.60e+00 3h6jA 438 3.98e+00 1aym3 238 5.05e+00 1aym3 2d5lA 706 5.63e+00 2r6vA 191 6.02e+00 1wcqA 601 6.12e+00 b.1.18.2,b.18.1.1,b.68.1.1 120894,120895,120896 1w8oA 601 6.98e+00 b.1.18.2,b.18.1.1,b.68.1.1 114374,114375,114376 1zk5A 176 7.27e+00 1cwvA 492 7.51e+00 1cwvA b.1.14.1,b.1.14.1,b.1.14.1,b.1.14.1,d.169.1.3 22373,22374,22375,22376,42442 1eut 605 7.67e+00 1eut 3ibmA 167 7.74e+00 1np1A 184 8.72e+00 1np1A b.60.1.1 27155 1qg3A 195 8.74e+00 1qg3A b.1.2.1,b.1.2.1 21993,21994 1dlfH 124 9.11e+00 1igtB b.1.1.1 20383 2hazA 105 1.05e+01 b.1.2.1 136303 2q9kA 151 1.10e+01 2dtcA 126 1.16e+01 3ii7A 306 1.19e+01 1h7zA 194 1.23e+01 1qhvA b.21.1.1 60733 3ckaA 320 1.35e+01 1epaA 164 1.35e+01 1epaA b.60.1.1 27128 2p49B 123 1.37e+01 b.1.1.1 149207 1rhi3 236 1.41e+01 1aym3 1gnyA 153 1.44e+01 b.18.1.11 65404 2iciA 227 1.44e+01 3c99A 432 1.53e+01 2p45B 123 1.53e+01 1o9wA 177 1.54e+01 b.2.3.5 86713 3ejjX 289 1.56e+01 2f2fC 186 1.59e+01 b.42.2.1 132812 2z3zA 706 1.62e+01 2bfgA 503 1.64e+01 b.71.1.2,c.1.8.3 128423,128424 2kieA 124 1.65e+01 2bs9A 503 1.66e+01 b.71.1.2,c.1.8.3 129062,129063 3exmA 237 1.69e+01 2apoA 357 1.71e+01 b.122.1.1,d.265.1.2 127133,127134 1s4iA 175 1.81e+01 1pm4A 119 1.82e+01 b.135.1.1 94891 2gtlM 217 1.82e+01 b.61.7.1,g.12.1.1,h.1.32.1 135667,135668,135669 1qveA 126 1.85e+01 d.24.1.1 104594 1z2nX 324 1.91e+01 2c9oA 456 1.96e+01 3f7rA 249 1.99e+01 2ov9A 216 2.02e+01 d.38.1.5 149034 1c3hA 137 2.03e+01 b.22.1.1 90405 2k7pA 188 2.05e+01 3cbtA 237 2.06e+01 1x2jA 316 2.12e+01 b.68.11.1 121643 2iwkA 642 2.15e+01 2w38A 438 2.17e+01 2dulA 378 2.19e+01 c.66.1.58 146588 1znpA 154 2.19e+01 b.82.1.16 125394 2hzqA 174 2.21e+01 3greA 437 2.23e+01 1txnA 328 2.23e+01 d.248.1.1 112779 2aexA 346 2.29e+01 1p4uA 153 2.32e+01 b.1.10.2 87780 3gd0A 367 2.33e+01 2dcyA 185 2.35e+01 b.29.1.11 131388 1r0uA 148 2.36e+01 b.60.1.5 96741 3k1uA 330 2.45e+01 1h6fA 193 2.45e+01 b.2.5.4 70901 1xnb 185 2.45e+01 1axkA 3hfqA 347 2.51e+01 3cpnA 330 2.55e+01 1g87A 614 2.65e+01 a.102.1.2,b.2.2.2 83275,83276 2pefA 373 2.88e+01 2wkrA 332 2.88e+01 2wkqA 332 2.93e+01 1rwhA 757 2.98e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1nziA 159 2.99e+01 b.23.1.1,g.3.11.1 86449,86450 1fjgQ 105 3.01e+01 1fjfQ b.40.4.5 25352 2wiqA 257 3.04e+01 1h2wA 710 3.05e+01 b.69.7.1,c.69.1.4 76596,76597 1b7aA 186 3.05e+01 1a44 b.17.1.1 23705 1f13A 731 3.09e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21877,22163,22164,37107 2ihoA 293 3.13e+01 b.42.2.1,d.3.1.18 147681,147682 3dmqA 968 3.13e+01 2z79A 185 3.15e+01 1auyA 189 3.16e+01 1auyA b.121.4.6 23311 1obpA 159 3.19e+01 1obpA b.60.1.1 27092 2imjA 166 3.22e+01 d.17.4.23 147725 1dnlA 199 3.27e+01 1ci0A b.45.1.1 25753 2bolA 314 3.28e+01 1ag0A 129 3.32e+01 1nwpA b.6.1.1 23001 3f02A 359 3.44e+01 2e26A 725 3.44e+01 1eylA 186 3.50e+01 1wba b.42.4.1 25593 1hleA 345 3.55e+01 1ovaA e.1.1.1 42618 1erxA 184 3.56e+01 1np1A b.60.1.1 27164 1ln1A 214 3.60e+01 d.129.3.2 74038 2cg4A 152 3.62e+01 a.4.5.32,d.58.4.2 130417,130418 1jzgA 128 3.63e+01 b.6.1.1 67855 1azrA 128 3.65e+01 1nwpA b.6.1.1 22983 1hn0A 1021 3.68e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1e8nA 710 3.68e+01 1qfmA b.69.7.1,c.69.1.4 27675,34643 1cc3A 130 3.71e+01 1nwpA b.6.1.1 23008 1gu3A 149 3.72e+01 b.18.1.14 76350 3hd8A 389 3.73e+01 1gt1A 159 3.76e+01 b.60.1.1 90515 1o6gA 710 3.81e+01 b.69.7.1,c.69.1.4 81087,81088 1mkaA 171 3.81e+01 1mkaA d.38.1.2 38543 3demA 278 3.82e+01 2b7yA 182 3.89e+01 1xtlA 175 3.94e+01 3bwzA 181 3.94e+01 1upqA 123 3.96e+01 b.55.1.1 113392 3ft0A 129 3.97e+01 1rwiA 270 3.98e+01 b.68.9.1 97987 1eybA 471 4.05e+01 1ey2A b.82.1.4 28115 1sr4C 166 4.05e+01 b.42.2.1 105950 1j0mA 752 4.19e+01 a.102.3.2,b.24.1.1,b.30.5.2 83910,83911,83912 3bwuC 205 4.22e+01 b.1.11.1,b.7.2.1 155699,155700 3gb3A 235 4.32e+01 1qfmA 710 4.44e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 2retB 175 4.46e+01 d.24.1.5 151984 1uisA 231 4.49e+01 d.22.1.1 99431 1qpxA 218 4.54e+01 1qpxA b.1.11.1,b.7.2.1 22318,23200 3c19A 186 4.57e+01 3fswA 128 4.57e+01 1n0uA 842 4.59e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1tk1A 260 4.65e+01 d.248.1.1 107066 1fwxA 595 4.68e+01 b.6.1.4,b.69.3.1 60069,60070 2v8qA 157 4.68e+01 d.129.6.2 152781 2uubQ 105 4.69e+01 b.40.4.5 139948 1gmiA 136 4.69e+01 b.7.1.1 65309 2ii1A 301 4.73e+01 1g79A 218 4.73e+01 1ci0A b.45.1.1 25752 1qwrA 319 4.77e+01 b.82.1.3 96491 1sh8A 154 4.79e+01 d.38.1.5 105549 2vu6A 207 4.80e+01 1f97A 212 4.80e+01 1f97A b.1.1.1,b.1.1.4 19763,21764 1rqwA 207 4.81e+01 b.25.1.1 97781 3hrzD 741 4.83e+01 1kwnA 207 4.83e+01 b.25.1.1 77568 3bs6A 280 4.84e+01 2hlvA 160 4.85e+01 1behA 187 4.85e+01 1a44 b.17.1.1 23700 1thv 207 4.87e+01 1thv 3k41A 160 4.88e+01 2vzsA 1032 4.89e+01 b.1.4.1,b.1.4.1,b.1.4.1,b.18.1.5,c.1.8.3 153727,153728,153729,153730,153731 3kicA 736 4.94e+01 2j2jA 197 4.99e+01 b.21.1.1 147852 2vhkA 206 5.01e+01 2blrA 206 5.03e+01 b.25.1.1 128741 3dzmA 214 5.05e+01 1pmjX 185 5.11e+01 b.18.1.18 104194 1zv9A 172 5.14e+01 b.2.2.2 125700 3inbA 466 5.23e+01 2b5nA 323 5.28e+01 2w7vA 95 5.32e+01 1x1iA 752 5.35e+01 a.102.3.2,b.24.1.1,b.30.5.2 121584,121585,121586 1ojqA 212 5.46e+01 d.166.1.1 93146 2j1aA 150 5.47e+01 3ef2A 293 5.53e+01 2c46A 241 5.56e+01 1dleA 298 5.61e+01 1dleA b.47.1.2 26312 1pmhX 185 5.62e+01 b.18.1.18 104193 3fnbA 405 5.62e+01 3fceA 512 5.63e+01 1yiqA 689 5.67e+01 1vavA 222 5.69e+01 b.29.1.18 108472 2dyiA 162 5.71e+01 3f1tA 148 5.80e+01 3g6jA 644 5.82e+01 3lqwA 163 5.85e+01 2vqeQ 105 5.87e+01 b.40.4.5 153441 1tf4A 605 5.91e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 2hb0A 369 5.95e+01 3fgqA 397 5.95e+01 2gpjA 252 5.96e+01 1div 149 5.98e+01 1div 1divA 149 5.98e+01 d.99.1.1,d.100.1.1 40692,40693 2v0uA 146 6.03e+01 3dhvA 512 6.04e+01 1qniA 581 6.05e+01 1qniA b.6.1.4,b.69.3.1 23042,27642 1orvA 728 6.06e+01 b.70.3.1,c.69.1.24 87354,87355 1gm6A 175 6.09e+01 b.60.1.1 70272 2iqyA 190 6.10e+01 3d0jA 140 6.15e+01 2rl8A 154 6.17e+01 b.64.1.1 152144 2vqeE 162 6.23e+01 i.1.1.3 153429 3elqA 571 6.31e+01 2p9oA 169 6.32e+01 1k1xA 659 6.36e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 2x41A 721 6.36e+01 1aznA 128 6.40e+01 1nwpA b.6.1.1 23003 1xtmA 175 6.43e+01 1yr2A 741 6.43e+01 2sli 679 6.44e+01 2sli 2sliA 679 6.44e+01 b.29.1.9,b.68.1.1 24274,27611 1mpyA 307 6.49e+01 1mpyA d.32.1.3,d.32.1.3 38508,38509 3ginA 160 6.52e+01 3f7pC 248 6.59e+01 1erjA 393 6.64e+01 1erjA b.69.4.1 27660 2wzpD 123 6.66e+01 2asbA 251 6.71e+01 b.40.4.5,d.52.3.1,d.52.3.1 127244,127245,127246 3f7qA 234 6.73e+01 1r9hA 135 6.74e+01 d.26.1.1 97260 3fwmA 751 6.77e+01 1h2xA 710 6.77e+01 b.69.7.1,c.69.1.4 76598,76599 2wkpA 332 6.77e+01 3hn3A 613 6.78e+01 2uubE 162 6.80e+01 d.14.1.1,d.50.1.2 139936,139937 1k3iA 656 6.84e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1qppA 218 6.89e+01 1qpxA b.1.11.1,b.7.2.1 22320,23202 3hrzA 627 6.95e+01 2a74A 643 6.97e+01 2x42A 721 7.04e+01 1ex0A 731 7.10e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 2wnxA 170 7.17e+01 2vpjA 301 7.19e+01 1ze3C 205 7.27e+01 b.1.11.1,b.7.2.1 124974,124975 1g3p 217 7.27e+01 1g3p 1g3pA 217 7.27e+01 b.37.1.1,b.37.1.1 24788,24789 1m6pA 152 7.28e+01 1m6pA b.64.1.1 27519 2vnuD 760 7.28e+01 b.40.4.5,b.40.4.5,b.40.4.5,b.40.4.16 153344,153345,153346,153347 1bdfA 235 7.29e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 3eifA 936 7.29e+01 3eojA 366 7.30e+01 2b5lC 222 7.31e+01 1xb3A 128 7.32e+01 b.6.1.1 115060 2o31A 67 7.33e+01 2fd6U 276 7.34e+01 g.7.1.3,g.7.1.3,g.7.1.3 145159,145160,145161 2vzwA 149 7.34e+01 2dreA 180 7.35e+01 2w20A 471 7.38e+01 1gpiA 431 7.41e+01 b.29.1.10 65450 2ft6A 124 7.48e+01 3b82A 842 7.53e+01 3m3iA 225 7.54e+01 1bndA 119 7.56e+01 1bndA g.17.1.3 44793 2qn6A 414 7.60e+01 b.43.3.1,b.44.1.1,c.37.1.8 150911,150912,150913 2o9sA 67 7.62e+01 1r2jA 366 7.79e+01 a.29.3.1,e.6.1.1 96869,96870 3bpoC 314 7.81e+01 2htuA 390 7.89e+01 1pl3A 186 7.90e+01 b.1.9.1 88158 1zgkA 308 7.91e+01 b.68.11.1 145998 2ccwA 129 7.92e+01 b.6.1.1 130259 2vqaA 361 7.93e+01 1i9sA 210 7.96e+01 1i9sA c.45.1.1 62099 3f85A 463 7.97e+01