# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7 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 1sfcD 87 5.55e-13 1sfcD h.1.15.1 45646 1l4aD 87 8.05e-13 h.1.15.1 73562 1kilD 66 3.53e-11 h.1.15.1 72521 1n7sD 66 3.89e-11 h.1.15.1 80274 1n7sC 79 2.33e-08 h.1.15.1 80273 1sfcC 83 2.54e-08 1sfcC h.1.15.1 45645 1jthA 82 2.72e-07 h.1.15.1 67270 1gl2D 65 1.87e-05 h.1.15.1 65281 1gl2C 65 6.47e-03 h.1.15.1 65280 1n7sB 68 2.49e-02 h.1.15.1 80272 1hvvA 75 2.74e-02 1hvvA h.1.15.1 45639 1sfcB 83 3.92e-02 1sfcB h.1.15.1 45644 1jadA 251 4.28e-02 h.4.10.1 66461 1jthB 77 5.64e-02 h.1.15.1 67271 1jeqA 609 8.71e-02 1jeqA a.140.2.1 64748 e.31.1.1 64749 1jthD 77 1.24e-01 h.1.15.1 67273 1gl2B 65 1.30e-01 h.1.15.1 65279 1jeyA 609 2.36e-01 1jeqA e.31.1.1 62924 1s35A 214 8.12e-01 1jb0F 164 8.91e-01 1jb0F f.23.16.1 62825 1dn1B 267 9.83e-01 1dn1B a.47.2.1 17771 1rfmA 344 1.28e+00 1ovnA 248 1.62e+00 1j7nA 776 1.80e+00 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1wduA 245 1.82e+00 1fxkA 107 2.41e+00 1fxkA a.2.5.1 15703 1nxuA 333 2.67e+00 c.122.1.1 86389 1ab4 477 2.80e+00 1ab4 e.11.1.1 43251 1oxjA 173 2.94e+00 a.60.1.2 87517 a.118.1.13 87518 1ihgA 370 2.98e+00 2cpl a.118.8.1 62380 b.62.1.1 62381 1ucyH 150 3.14e+00 1ucyH 1po5A 476 4.09e+00 2mbr 340 4.10e+00 2mbr d.145.1.2 41749 d.146.1.1 41762 1g3mA 294 4.12e+00 c.37.1.5 83268 1b0pA 1231 4.22e+00 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1uxy 340 4.67e+00 2mbr d.145.1.2 41748 d.146.1.1 41761 1k8tA 510 4.69e+00 e.41.1.1 68316 1fxkB 109 4.77e+00 1fxkA a.2.5.1 15704 1bh5A 183 5.10e+00 1qipA d.32.1.1 38476 1ux5A 411 5.17e+00 1gln 468 5.52e+00 1gln a.97.1.1 18752 c.26.1.1 31588 1pwmA 316 5.57e+00 1kekA 1231 5.65e+00 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1l92 164 5.70e+00 1l92 d.2.1.3 36629 1dkxA 219 5.78e+00 1dkzA e.20.1.1 43315 1hy3A 294 5.94e+00 c.37.1.5 71090 1ads 315 6.30e+00 1frb c.1.7.1 28671 1auiA 521 6.57e+00 1auiA d.159.1.3 42085 1m1hA 248 7.01e+00 b.114.1.1 78415 d.58.42.1 78416 2dkb 433 8.00e+00 2dkb c.67.1.4 34438 1qipA 183 8.37e+00 1qipA d.32.1.1 38470 119l 164 8.39e+00 1l92 d.2.1.3 36622 1sziA 247 8.41e+00 1j09A 468 8.70e+00 a.97.1.1 77025 c.26.1.1 77026 1e7uA 961 8.84e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1j7nB 776 9.11e+00 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1l58 164 9.19e+00 1l92 d.2.1.3 36635 1miuA 738 9.33e+00 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 2acr 315 9.34e+00 1frb c.1.7.1 28674 2a0b 125 9.57e+00 2a0b a.24.10.1 16630 1agjA 242 9.68e+00 1agjA b.47.1.1 25827 1ni3A 392 9.86e+00 c.37.1.8 80531 d.15.10.2 80532 1jx2B 315 1.06e+01 c.37.1.8 67404 1eg5A 384 1.06e+01 1ecxA c.67.1.3 34429 1n4kA 381 1.07e+01 a.118.1.11 79992 b.42.6.1 79993 1ecxA 384 1.13e+01 1ecxA c.67.1.3 34431 1jeyB 565 1.13e+01 1jeqB e.31.1.2 62925 1qgdA 662 1.18e+01 c.36.1.6 88367 c.36.1.10 88368 c.48.1.1 88369 1jbgA 109 1.18e+01 a.6.1.3 66480 1p9oA 313 1.21e+01 1dkzA 219 1.23e+01 1dkzA e.20.1.1 43314 1uahA 431 1.24e+01 1ug6A 431 1.24e+01 c.1.8.4 88490 1h6gA 256 1.31e+01 1h6gA a.24.9.1 60669 a.24.9.1 60670 1eswA 500 1.32e+01 1cwyA c.1.8.1 59500 1qhlA 227 1.41e+01 1qhlA c.37.1.12 32382 1eia 207 1.42e+01 1eia a.28.3.1 16951 a.73.1.1 18331 1d7uA 433 1.43e+01 2dkb c.67.1.4 34439 1fr0A 125 1.46e+01 2a0b a.24.10.1 59996 1din 236 1.54e+01 1din c.69.1.9 34682 1gj7B 253 1.57e+01 1c5yB 253 1.62e+01 5ptp 1el3A 316 1.62e+01 1frb c.1.7.1 28672 1mvfD 82 1.64e+01 b.129.1.1 85143 1f45B 197 1.69e+01 1f45B a.26.1.1 59642 1b7yB 785 1.70e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1nmtA 392 1.74e+01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1kdgA 546 1.82e+01 c.3.1.2 77337 d.16.1.1 77338 1ggvA 232 1.86e+01 1din c.69.1.9 34683 1fhoA 119 1.89e+01 1fhoA b.55.1.1 26982 1clqA 903 1.93e+01 1clqA c.55.3.5 33717 e.8.1.1 43006 1ogaD 215 2.02e+01 b.1.1.1 86990 b.1.1.2 86991 1kyoD 248 2.03e+01 a.3.1.3 73254 f.23.11.1 73255 1hxs2 272 2.10e+01 1oe4A 247 2.10e+01 c.18.1.3 86895 1g5yA 238 2.15e+01 1lbd a.123.1.1 60294 1h6pA 203 2.15e+01 a.146.1.1 60690 1hqsA 423 2.17e+01 1iso c.77.1.1 61154 1q06A 135 2.18e+01 1phk 298 2.22e+01 1cdkA d.144.1.7 41635 1cwyA 500 2.23e+01 1cwyA c.1.8.1 28789 1ivnA 190 2.27e+01 c.23.10.5 83719 1us0A 316 2.28e+01 2gwxA 267 2.29e+01 2prgA a.123.1.1 19323 1fxxA 482 2.32e+01 1fxxA c.55.3.5 33726 2aat 396 2.33e+01 1ajsA c.67.1.1 34348 1ipcA 217 2.33e+01 d.86.1.1 71257 1tz9A 367 2.34e+01 1iwgA 1053 2.39e+01 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1ti6A 875 2.43e+01 1vljA 407 2.44e+01 1e8xA 961 2.45e+01 1e8xA a.118.1.6 19148 b.7.1.1 23183 d.15.1.5 37631 d.144.1.4 41711 1vypX 364 2.54e+01 1o5nA 126 2.63e+01 1vj2A 126 2.63e+01 1jwyB 315 2.67e+01 c.37.1.8 67401 1asyA 490 2.71e+01 1b8aA b.40.4.1 25242 d.104.1.1 40763 1prgA 270 2.72e+01 2prgA a.123.1.1 19314 1aozA 552 2.73e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1t0qB 330 2.75e+01 2shpA 525 2.83e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1axdA 209 2.88e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 1pyp 285 2.89e+01 1wgjA b.40.5.1 25409 1iapA 211 2.89e+01 a.91.1.1 62119 1vhxA 150 3.03e+01 1evsA 187 3.12e+01 1evsA a.26.1.1 16845 1qcwA 410 3.15e+01 1gox c.1.4.1 28622 1o6eA 235 3.22e+01 b.57.1.1 81083 1dnv 437 3.25e+01 1dnv b.121.5.3 23332 1j96A 323 3.30e+01 c.1.7.1 71616 1lvmA 229 3.32e+01 b.47.1.3 78243 1ih7A 903 3.32e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1s1pA 331 3.37e+01 1eiyB 785 3.38e+01 1pysB a.6.1.1 16305 a.6.1.1 16306 b.40.4.4 25314 d.58.13.1 39313 d.104.1.1 40782 d.138.1.1 41458 1sskA 158 3.38e+01 1v93A 296 3.40e+01 1p1mA 406 3.52e+01 b.92.1.4 87696 c.1.9.9 87697 1cl8A 276 3.55e+01 1ckqA c.52.1.1 33230 1vsgA 364 3.56e+01 1vsgA h.4.1.1 45782 1ars 396 3.59e+01 1ajsA c.67.1.1 34287 1dghB 498 3.64e+01 1cf9A e.5.1.1 42791 1ahxA 396 3.68e+01 1ajsA c.67.1.1 34293 1a76 326 3.77e+01 1a76 a.60.7.1 18091 c.120.1.2 33361 2eiaB 206 3.78e+01 1eia a.28.3.1 16950 a.73.1.1 18330 1pk9A 237 3.79e+01 1oahA 519 3.81e+01 a.138.1.3 86736 1cjaA 342 3.84e+01 1cjaA d.144.1.3 41708 1ezvD 245 3.88e+01 1be3D a.3.1.3 59546 f.23.11.1 59547 1c5lH 259 3.90e+01 5ptp 1bmdA 327 3.97e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1cb0A 283 4.00e+01 1cb0A c.56.2.1 33790