# List of top-scoring protein chains for t2k-100-30-bys 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 1nox 205 1.91e-12 1nox d.90.1.1 40242 1bkjA 240 3.22e-10 1bkjA d.90.1.1 40243 1f5vA 240 2.09e-09 1bkjA d.90.1.1 40255 1icrA 217 1.74e-06 1vfrA d.90.1.1 62274 1necA 216 5.82e-06 1vfrA d.90.1.1 40249 1vfrA 218 1.22e-05 1vfrA d.90.1.1 40247 1kblA 873 6.21e-01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1j6rA 214 1.15e+00 d.173.1.2 71598 1n81A 186 1.17e+00 a.185.1.1 85388 1jeoA 180 1.20e+00 c.80.1.3 66611 1dik 874 1.49e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1khvA 516 1.58e+00 e.8.1.4 68627 1hr6A 475 2.23e+00 1hr6A d.185.1.1 61164 d.185.1.1 61165 1i12A 160 2.68e+00 1i21A d.108.1.1 61515 1i21A 159 3.14e+00 1i21A d.108.1.1 61549 1i1dA 161 3.18e+00 1i21A d.108.1.1 61526 1ei6A 406 3.69e+00 unknown_sccs -8436 1rztA 331 4.09e+00 a.60.6.1 -1023 a.60.12.1 -1030 d.218.1.2 -9807 1ab4 477 4.25e+00 1ab4 e.11.1.1 43251 1uw4B 248 4.96e+00 unknown_sccs -1560 1ig8A 486 6.26e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1tafB 70 6.59e+00 1tafB a.22.1.3 16482 1nf2A 268 7.13e+00 c.108.1.10 -6842 1rfzA 168 7.18e+00 unknown_sccs -1206 1pv6A 417 7.21e+00 unknown_sccs -12263 1n1jA 93 7.21e+00 a.22.1.3 79813 1oi0A 124 7.49e+00 unknown_sccs -8782 1jnyA 435 9.29e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1b47A 304 9.87e+00 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1envA 123 1.05e+01 1envA h.3.2.1 45726 1j5uA 136 1.08e+01 d.208.1.1 71584 1cbg 490 1.09e+01 1e70M c.1.8.4 28933 1h6zA 913 1.11e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1bgvA 449 1.17e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1nkiA 135 1.22e+01 d.32.1.2 -9544 2cblA 305 1.26e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1bzsA 165 1.30e+01 1hfc d.92.1.11 40348 1lqpA 135 1.32e+01 d.32.1.2 78151 1o5zA 442 1.47e+01 c.59.1.2 -7939 c.72.2.2 -8418 1jfiB 179 1.54e+01 1jfiB a.22.1.3 62937 1sdsA 117 1.54e+01 1a3k 137 1.59e+01 1a3k b.29.1.3 24218 1k89 449 1.60e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1m3sA 186 1.62e+01 c.80.1.3 78573 1hrdA 449 1.63e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1i76A 163 1.65e+01 1hfc d.92.1.11 61877 1pxwA 128 1.72e+01 d.79.3.1 -10406 1aocA 175 1.74e+01 1aocA g.17.1.5 44817 1wdcC 156 1.85e+01 1wdcC a.39.1.5 17317 1i4dA 224 1.98e+01 h.4.7.1 61682 1ufiA 64 2.14e+01 unknown_sccs -773 1xat 212 2.16e+01 2xat b.81.1.3 28059 1jdbB 1073 2.26e+01 a.92.1.1 18574 c.24.1.1 31503 c.30.1.1 31705 c.30.1.1 31706 d.142.1.2 41550 d.142.1.2 41551 1rk6A 496 2.32e+01 b.92.1.6 -5087 b.92.1.6 -5088 c.1.9.11 -5435 1rtxA 123 2.32e+01 a.1.1.1 -3 1p2fA 220 2.43e+01 a.4.6.1 87720 c.23.1.1 87721 1ro2A 216 2.46e+01 unknown_sccs -11391 1gqeA 365 2.51e+01 e.38.1.1 70351 1f60A 458 2.60e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1aa7A 158 2.64e+01 1aa7A a.95.1.1 18741 2hgsA 474 2.67e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1pieA 419 2.73e+01 d.14.1.5 -9075 unknown_sccs -10120 1i4tB 224 2.77e+01 h.4.7.1 61730 1dfmA 223 2.87e+01 1d2iA c.52.1.5 33295 1ft1B 437 2.95e+01 1ft1B a.102.4.3 18867 1qfxA 460 3.02e+01 1qfxA c.60.1.2 33994 1f6kA 293 3.06e+01 1nal3 c.1.10.1 29081 1ld8B 437 3.06e+01 a.102.4.3 73839 1n46A 258 3.06e+01 a.123.1.1 85315 1t0qB 330 3.19e+01 1a9xA 1058 3.23e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1iawA 317 3.24e+01 c.52.1.9 62126 1p65A 73 3.27e+01 unknown_sccs -10331 1edoA 244 3.28e+01 1ybvA c.2.1.2 29896 1m7jA 484 3.29e+01 b.92.1.6 78732 b.92.1.6 78733 c.1.9.11 78734 1r6uA 437 3.31e+01 c.26.1.1 -6594 1jcrB 437 3.33e+01 a.102.4.3 66507 1d2iA 223 3.33e+01 1d2iA c.52.1.5 33297 1rhs 296 3.43e+01 1rhs c.46.1.2 32703 c.46.1.2 32704 1ef1A 294 3.48e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1uzxA 169 3.48e+01 d.20.1.2 -9409 1k3eA 156 3.49e+01 d.198.1.1 68103 5reqA 727 3.51e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 1iqzA 81 3.55e+01 d.58.1.4 66281 1vimA 200 3.60e+01 c.80.1.3 -8532 1s9pA 227 3.63e+01 2fokA 579 3.65e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1i49A 224 3.68e+01 1i49A h.4.7.1 61679 1d2mA 665 3.73e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1thm 279 3.74e+01 1gci c.41.1.1 32544 1k0rA 366 3.76e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 7fd1A 106 3.79e+01 1a6l d.58.1.2 38953 1kqfB 294 3.83e+01 d.58.1.5 75900 f.23.22.1 75901 1obbA 480 3.84e+01 c.2.1.5 86760 d.162.1.2 86761 1d8dB 437 3.85e+01 1ft1B a.102.4.3 18866 1be3H 78 3.86e+01 1be3H f.28.1.1 43670 1ev7A 317 3.93e+01 1ev7B c.52.1.9 33315 1a04A 215 3.93e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1fd2 106 3.95e+01 1a6l d.58.1.2 38962 1tlqA 189 3.96e+01 1pg5A 299 4.00e+01