# List of top-scoring protein chains for t2k-100-30-alpha 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 1n7sC 79 3.08e-16 h.1.15.1 80273 1sfcC 83 3.30e-16 1sfcC h.1.15.1 45645 1l4aD 87 1.32e-15 h.1.15.1 73562 1sfcD 87 2.31e-15 1sfcD h.1.15.1 45646 1jthA 82 5.85e-15 h.1.15.1 67270 1n7sD 66 6.44e-14 h.1.15.1 80274 1kilD 66 1.05e-13 h.1.15.1 72521 1gl2C 65 1.96e-09 h.1.15.1 65280 1gl2D 65 2.06e-08 h.1.15.1 65281 1n7sB 68 6.09e-03 h.1.15.1 80272 1jthD 77 8.25e-03 h.1.15.1 67273 1hvvA 75 8.31e-03 1hvvA h.1.15.1 45639 1jthB 77 8.37e-03 h.1.15.1 67271 1sfcB 83 8.93e-03 1sfcB h.1.15.1 45644 1gl2B 65 1.18e-02 h.1.15.1 65279 1dn1B 267 1.93e-01 1dn1B a.47.2.1 17771 1tqhA 247 4.49e-01 1n7zA 334 4.89e-01 b.127.1.1 85380 1s9aA 257 4.90e-01 1r1dA 247 7.85e-01 1ab4 477 1.01e+00 1ab4 e.11.1.1 43251 1h0oA 390 1.02e+00 a.25.1.2 70845 1auiA 521 1.03e+00 1auiA d.159.1.3 42085 1w68A 390 1.21e+00 1auwA 468 1.27e+00 1auwA a.127.1.1 19416 1qpxA 218 1.52e+00 1qpxA b.1.11.1 22318 b.7.2.1 23200 1xsm 390 1.58e+00 1xsm a.25.1.2 16804 1k7wA 468 1.81e+00 a.127.1.1 72130 1psdA 409 1.98e+00 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1vcaA 202 2.16e+00 1vcaA b.1.1.3 21649 b.1.1.4 21685 1k47A 337 2.21e+00 d.14.1.5 72040 d.58.26.4 72041 1sziA 247 2.25e+00 1qppA 218 2.59e+00 1qpxA b.1.11.1 22320 b.7.2.1 23202 1hy0A 466 2.78e+00 1auwA a.127.1.1 61392 1ic2A 81 3.01e+00 h.1.5.1 62247 1rurL 217 3.41e+00 1n0lA 224 3.69e+00 b.1.11.1 79744 b.7.2.1 79745 1keyA 235 3.73e+00 a.118.16.1 72389 1pfzA 380 3.78e+00 1smrA b.50.1.2 26881 1ni3A 392 3.78e+00 c.37.1.8 80531 d.15.10.2 80532 1iyjB 817 4.09e+00 a.170.1.1 76948 a.171.1.1 76949 b.40.4.3 76950 b.40.4.3 76951 b.40.4.3 76952 1jadA 251 4.23e+00 h.4.10.1 66461 1vl6A 388 4.34e+00 1d7uA 433 4.43e+00 2dkb c.67.1.4 34439 1s35A 214 4.69e+00 1smeA 329 4.81e+00 1smrA b.50.1.2 26885 1ih7A 903 4.99e+00 1clqA c.55.3.5 62375 e.8.1.1 62376 1m0qA 433 5.05e+00 c.67.1.4 78350 1kv7A 488 5.40e+00 b.6.1.3 68873 b.6.1.3 68874 b.6.1.3 68875 1aozA 552 5.53e+00 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1xfjA 261 5.73e+00 1tz9A 367 6.14e+00 1oxjA 173 6.41e+00 a.60.1.2 87517 a.118.1.13 87518 1bg7 176 6.60e+00 2fha a.25.1.1 16686 1dcnD 436 6.67e+00 1auwA a.127.1.1 19423 1wduA 245 7.35e+00 1a3lL 217 7.73e+00 8fabA b.1.1.1 20240 b.1.1.2 21252 1nrlA 316 8.04e+00 2dkb 433 8.29e+00 2dkb c.67.1.4 34438 1fcqA 350 8.42e+00 c.1.8.9 65006 1prgA 270 8.55e+00 2prgA a.123.1.1 19314 1ca4A 168 8.75e+00 1d0aB b.8.1.1 23238 h.1.2.1 45445 1dtwB 342 9.12e+00 1qs0B c.36.1.7 31828 c.48.1.2 33102 1umwA 237 9.16e+00 1iw7C 1119 9.43e+00 e.29.1.1 71474 1gy8A 397 9.61e+00 c.2.1.2 83376 1fm9D 272 9.70e+00 2prgA a.123.1.1 19313 1pvc2 271 9.82e+00 1aym2 1rdr 461 1.03e+01 1rdr e.8.1.4 43116 1czyA 168 1.05e+01 1d0aB b.8.1.1 23220 h.1.2.1 45427 1czyC 168 1.06e+01 1d0aB b.8.1.1 23222 h.1.2.1 45429 1d0aB 168 1.10e+01 1d0aB b.8.1.1 23224 h.1.2.1 45431 1v1rB 342 1.10e+01 1m13A 316 1.19e+01 a.123.1.1 84746 1m3kA 392 1.23e+01 c.95.1.1 78565 c.95.1.1 78566 1lf2A 331 1.31e+01 b.50.1.2 77914 1art 396 1.35e+01 1ajsA c.67.1.1 34285 1ahxA 396 1.37e+01 1ajsA c.67.1.1 34293 1qflA 389 1.39e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1kamA 194 1.39e+01 c.26.1.3 72254 1dcnA 424 1.43e+01 1auwA a.127.1.1 19420 1txuA 273 1.46e+01 1g8jA 825 1.48e+01 1g8jA b.52.2.2 26924 c.81.1.1 35332 1j1jA 240 1.51e+01 1m4tA 392 1.51e+01 c.95.1.1 78617 c.95.1.1 78618 1olsB 342 1.52e+01 1ewqA 765 1.54e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 2prgA 271 1.60e+01 2prgA a.123.1.1 19311 1lrzA 426 1.60e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1rz1A 161 1.62e+01 1clqA 903 1.64e+01 1clqA c.55.3.5 33717 e.8.1.1 43006 1fxkA 107 1.65e+01 1fxkA a.2.5.1 15703 1spa 396 1.68e+01 1ajsA c.67.1.1 34291 1pp7U 131 1.68e+01 1lvfA 110 1.68e+01 a.47.2.1 74280 1umnA 165 1.69e+01 1fxkB 109 1.70e+01 1fxkA a.2.5.1 15704 1qisA 396 1.71e+01 1ajsA c.67.1.1 34284 5reqA 727 1.72e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 1h0cA 392 1.72e+01 c.67.1.3 83424 1aho 64 1.73e+01 1aho g.3.7.1 44127 1ars 396 1.73e+01 1ajsA c.67.1.1 34287 1p8kZ 254 1.74e+01 1ex7A 186 1.75e+01 1gky c.37.1.1 59537 1sqjA 789 1.77e+01 1reqA 727 1.89e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1j5rA 371 1.92e+01 1eljA 381 1.93e+01 4mbp c.94.1.1 35791 7reqA 727 1.98e+01 1reqA c.1.19.1 29616 c.23.6.1 31243 1us0A 316 2.01e+01 1glcG 501 2.03e+01 1glcG c.55.1.4 33519 c.55.1.4 33520 2sns 149 2.06e+01 1snc b.40.1.1 24860 1gky 187 2.07e+01 1gky c.37.1.1 31839 2eifA 136 2.08e+01 1bkb b.34.5.2 24607 b.40.4.5 25339 1pwmA 316 2.10e+01 1o2dA 371 2.17e+01 e.22.1.2 86591 1jokA 149 2.17e+01 1snc b.40.1.1 63214 1hziA 129 2.22e+01 1rcb a.26.1.2 61449 1m7vA 363 2.22e+01 d.174.1.1 78748 1rcb 129 2.23e+01 1rcb a.26.1.2 16854 1ovnA 248 2.23e+01 1eg5A 384 2.28e+01 1ecxA c.67.1.3 34429 1k92A 455 2.28e+01 c.26.2.1 68325 d.210.1.1 68326 1i9bA 217 2.29e+01 1i9bA b.96.1.1 62084 1qs8A 329 2.29e+01 1smrA b.50.1.2 26887 1orjA 130 2.30e+01 1klo 162 2.30e+01 1klo g.3.11.2 44326 g.3.11.2 44327 g.3.11.2 44328 1hxs2 272 2.31e+01 1r8iA 213 2.31e+01 1kjvA 284 2.32e+01 b.1.1.2 77421 d.19.1.1 77422 1ads 315 2.36e+01 1frb c.1.7.1 28671 2acr 315 2.43e+01 1frb c.1.7.1 28674 1qh7A 207 2.47e+01 1axkA b.29.1.11 24317 1segA 64 2.47e+01 1po5A 476 2.53e+01 1ogsA 497 2.64e+01 b.71.1.2 86997 c.1.8.3 86998 1bbpA 173 2.67e+01 1bbpA b.60.1.1 27147 2int 129 2.73e+01 1rcb a.26.1.2 16855 1gyhA 318 2.76e+01 b.67.2.1 70757 1mrzA 293 2.78e+01 1floA 422 2.78e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1jalA 363 2.82e+01 c.37.1.8 84138 d.15.10.2 84139 1sty 150 2.82e+01 1snc b.40.1.1 24812 1odmA 331 2.84e+01 b.82.2.1 86875 1afwA 393 2.85e+01 1afwA c.95.1.1 35900 c.95.1.1 35901 1wp1A 474 2.85e+01 1l5zA 155 2.96e+01 c.23.1.1 77722 1miuA 738 2.99e+01 a.170.1.1 79153 a.171.1.1 79154 b.40.4.3 79155 b.40.4.3 79156 b.40.4.3 79157 1j9bA 141 3.01e+01 c.47.1.12 66459 1bk0 331 3.01e+01 1bk0 b.82.2.1 28118 1o5kA 306 3.03e+01 1oj6A 151 3.03e+01 1w0pA 781 3.07e+01 1gp1A 198 3.12e+01 1gp1A c.47.1.10 33059 1m6kA 251 3.13e+01 e.3.1.1 78695 1qg3A 195 3.18e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 5eat 548 3.22e+01 5eat a.102.4.1 18853 a.128.1.3 19445 1s4nA 348 3.23e+01 1gdeA 389 3.27e+01 c.67.1.1 60456 1h4gA 207 3.27e+01 b.29.1.11 70863 1dixA 208 3.29e+01 1bk7A d.124.1.1 41122 1dkxA 219 3.29e+01 1dkzA e.20.1.1 43315 1j3vA 289 3.32e+01 1snc 149 3.32e+01 1snc b.40.1.1 24813 1acc 735 3.34e+01 1acc f.11.1.1 43828 1a73A 163 3.34e+01 1a73A d.4.1.3 37145 1uypA 432 3.36e+01 1rrmA 386 3.37e+01 1utwA 432 3.41e+01 1az3A 244 3.53e+01 1rvaA c.52.1.2 33276 1v8gA 329 3.54e+01 1kwsA 261 3.55e+01 c.68.1.7 73083 1gd9A 389 3.58e+01 c.67.1.1 60454 1oglA 283 3.63e+01 1smoA 119 3.63e+01 1vi6A 208 3.65e+01 1e8cA 498 3.65e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1et0A 269 3.70e+01 1et0A e.17.1.1 43289 1ecxA 384 3.71e+01 1ecxA c.67.1.3 34431 1sup 275 3.76e+01 1gci c.41.1.1 32510 1kit 757 3.76e+01 1kit b.29.1.8 24272 b.29.1.8 24273 b.68.1.1 27616 1kl9A 182 3.81e+01 b.40.4.5 72681 1feuA 206 3.81e+01 1feuA b.53.1.1 59801 1bywA 110 3.83e+01 1bywA d.110.3.6 40912 1ehkA 562 3.84e+01 1ehkA f.24.1.1 43624 1itkA 731 3.88e+01 a.93.1.3 71417 a.93.1.3 71418 1kxoA 184 3.89e+01 b.60.1.1 84475 1ei5A 520 3.92e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1el3A 316 3.99e+01 1frb c.1.7.1 28672