# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1hfoA 113 2.21e-02 d.80.1.3 61006 1dptA 117 3.57e-02 1dptA d.80.1.3 39862 1gyxA 76 5.02e-02 d.80.1.1 76387 9gafA 295 2.14e-01 1apyA d.153.1.5 42008 1p4kA 295 2.15e-01 d.153.1.5 87772 1otgA 125 3.64e-01 1otgA d.80.1.2 39831 1mfiA 114 5.11e-01 1dptA d.80.1.3 39856 1qj5A 429 1.25e+00 1dtyA c.67.1.4 34493 1s0yA 76 1.25e+00 d.80.1.1 -10434 1ur1A 378 1.30e+00 c.1.8.3 -5311 1ukkA 142 2.17e+00 d.227.1.1 -11206 1k20A 310 2.53e+00 c.107.1.1 68027 1dtyA 429 2.68e+00 1dtyA c.67.1.4 34495 1m0dA 138 2.82e+00 c.52.1.17 74354 1owfA 99 2.95e+00 a.55.1.1 87487 1k6xA 352 3.12e+00 c.2.1.2 68238 1k6iA 352 3.17e+00 c.2.1.2 68223 1pwhA 327 3.38e+00 c.79.1.1 -8524 1gd0A 122 3.64e+00 1dptA d.80.1.3 39834 1otfA 62 4.00e+00 1otfA d.80.1.1 39820 1d4xG 126 4.04e+00 1d0nA d.109.1.1 59109 1ihfA 99 4.22e+00 1huuA a.55.1.1 17893 1nm1G 125 4.30e+00 d.109.1.1 80653 1yagG 125 4.31e+00 1d0nA d.109.1.1 40846 1mwwA 128 4.43e+00 unknown_sccs -10451 1iv3A 152 4.71e+00 d.79.5.1 76828 1npdA 288 5.11e+00 c.2.1.7 80681 c.58.1.5 80682 1b6sA 355 5.31e+00 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1s0aA 429 5.59e+00 c.67.1.4 -8201 1nrhX 472 5.84e+00 c.2.1.5 -5944 d.162.1.2 -11511 1dkuA 317 6.07e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1ex2A 189 6.84e+00 1ex2A c.51.4.2 33225 1esgA 213 6.95e+00 1bam c.52.1.3 33286 1q53A 112 7.10e+00 d.58.4.4 -9944 1iicA 422 7.35e+00 1nmtA d.108.1.2 62422 d.108.1.2 62423 2chsA 127 7.58e+00 2chsA d.79.1.2 39764 1dkrA 317 8.31e+00 1dkuA c.61.1.2 34114 c.61.1.2 34115 1c9oA 66 8.48e+00 1mjc b.40.4.5 25325 1exnB 290 8.59e+00 1exnA a.60.7.1 18089 c.120.1.2 33359 1bam 213 8.61e+00 1bam c.52.1.3 33285 1fzrA 138 8.85e+00 1fzrA c.52.1.17 33336 1elqA 390 9.32e+00 1elqA c.67.1.3 34436 1eluB 390 9.52e+00 1elqA c.67.1.3 34435 1eluA 390 9.57e+00 1elqA c.67.1.3 34434 1evlA 401 9.60e+00 1qf6A c.51.1.1 33202 d.104.1.1 40751 1ow1A 195 9.73e+00 unknown_sccs -4422 1p5jA 372 1.02e+01 1vknA 351 1.03e+01 1qysA 106 1.04e+01 unknown_sccs -13432 1q8yA 373 1.15e+01 d.144.1.7 -11319 1tph1 247 1.17e+01 1amk 3bamB 213 1.18e+01 1bam c.52.1.3 33289 1rypI 222 1.20e+01 d.153.1.4 41877 1b6rA 355 1.22e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 2kinA 238 1.23e+01 1bg2 c.37.1.9 32190 1howA 373 1.24e+01 1hcl d.144.1.7 41679 1xvaA 292 1.30e+01 1xvaA c.66.1.5 34183 1dbfA 127 1.31e+01 2chsA d.79.1.2 39761 1j7nB 776 1.35e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1i60A 278 1.35e+01 c.1.15.4 71118 3bamA 213 1.37e+01 1bam c.52.1.3 33288 1mo0A 275 1.38e+01 c.1.1.1 79329 1jkxA 212 1.39e+01 c.65.1.1 66813 1q4rA 112 1.39e+01 d.58.4.4 -9943 1ibsA 317 1.42e+01 c.61.1.2 66107 c.61.1.2 66108 1nnmA 652 1.43e+01 1pg4A 652 1.43e+01 e.23.1.1 88067 1rypD 241 1.46e+01 1rypD d.153.1.4 41935 1unnC 115 1.46e+01 unknown_sccs -10216 1i74A 309 1.47e+01 1i74A c.107.1.1 61867 1fjgJ 105 1.48e+01 1fjfJ d.58.15.1 39330 1a99A 344 1.52e+01 1pot c.94.1.1 35812 2vil 126 1.58e+01 2vil d.109.1.1 40830 1cr1A 296 1.60e+01 1cr1A c.37.1.11 32286 2ptd 298 1.60e+01 2plc c.1.18.2 29605 2vik 126 1.60e+01 2vil d.109.1.1 40829 1ukuA 102 1.64e+01 d.58.5.2 -9992 1j7nA 776 1.65e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1m5sA 297 1.68e+01 d.58.33.1 74511 d.58.33.1 74512 3xis 387 1.71e+01 4xis c.1.15.3 29423 1r2rA 248 1.74e+01 c.1.1.1 -5147 1ffkI 194 1.84e+01 1ffkI d.12.1.2 37494 1brlB 324 1.93e+01 1lucA c.1.16.1 29554 1cr0A 296 1.95e+01 1cr1A c.37.1.11 32287 1hmpA 217 2.00e+01 1qk3A c.61.1.1 34075 1g8aA 227 2.01e+01 c.66.1.3 -8049 2cb5A 453 2.02e+01 3gcb d.3.1.1 37035 1rp4A 389 2.02e+01 1sdoA 203 2.02e+01 unknown_sccs -7558 1btkB 169 2.06e+01 1btkA b.55.1.1 26960 1itwA 741 2.18e+01 c.77.1.2 76793 1m4jA 142 2.20e+01 d.109.1.2 78602 1grvB 182 2.21e+01 c.61.1.1 76322 1v8dA 235 2.30e+01 1lucB 324 2.31e+01 1lucA c.1.16.1 29548 1cqqA 180 2.32e+01 1cqqA b.47.1.4 26422 1cnuA 137 2.33e+01 1cof d.109.1.2 40862 1l9gA 192 2.37e+01 c.18.1.2 84568 9apiA 347 2.47e+01 1ovaA e.1.1.1 42630 1owfB 94 2.47e+01 a.55.1.1 87488 1ihfB 94 2.52e+01 1huuA a.55.1.1 17894 1konA 249 2.55e+01 e.39.1.1 72823 1gnxA 479 2.55e+01 c.1.8.4 76241 1f2tB 148 2.56e+01 1f2tB 1je6A 275 2.60e+01 b.1.1.2 71638 d.19.1.1 71639 1eceA 358 2.68e+01 1eceA c.1.8.3 28813 1sviA 195 2.81e+01 1p8xA 344 2.81e+01 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1qhtA 775 2.88e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1ipiA 123 3.03e+01 c.52.1.18 66255 1mml 265 3.04e+01 1mml e.8.1.2 43015 1hqz1 141 3.05e+01 1fzyA 149 3.09e+01 d.20.1.1 65072 1mj5A 302 3.12e+01 c.69.1.8 -8326 1lylA 504 3.12e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1ll7A 392 3.15e+01 c.1.8.5 78085 d.26.3.1 78086 1iyhA 198 3.16e+01 a.45.1.1 83790 c.47.1.5 83791 1i9yA 347 3.17e+01 1i9yA d.151.1.2 62101 1naqA 112 3.24e+01 d.58.5.2 -9984 1b3qA 379 3.27e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1uanA 227 3.28e+01 unknown_sccs -8129 1jznA 135 3.29e+01 d.169.1.1 84262 1i9zA 347 3.31e+01 1i9yA d.151.1.2 62102 1uiuA 502 3.37e+01 c.94.1.1 -8674 1fhuA 320 3.37e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878 1i1qA 520 3.38e+01 1qdlA d.161.1.1 61543 1r6wA 322 3.39e+01 c.1.11.2 -5563 d.54.1.1 -9821 1gd8A 118 3.40e+01 d.188.1.1 60445 1d2gA 292 3.45e+01 1xvaA c.66.1.5 34187 1ir3A 306 3.45e+01 1fmk d.144.1.7 41702 1ab8A 220 3.47e+01 1azsA d.58.29.1 39414 1p1lA 102 3.49e+01 d.58.5.2 87695 1i1gA 141 3.49e+01 a.4.5.32 65982 d.58.4.2 65983 3mefA 69 3.52e+01 1mjc b.40.4.5 25320 1mjc 69 3.53e+01 1mjc b.40.4.5 25319 1c0dA 358 3.54e+01 1eceA c.1.8.3 28815 1l1eA 287 3.57e+01 c.66.1.18 73454 1pf5A 131 3.57e+01 d.79.1.1 -10368 1svq 114 3.61e+01 1svy d.109.1.1 40832 1jwqA 179 3.65e+01 unknown_sccs -7897 1uvqB 198 3.66e+01 b.1.1.2 -2659 d.19.1.1 -9348 1theB 260 3.72e+01 1theB d.3.1.1 37057 1btkA 169 3.73e+01 1btkA b.55.1.1 26959 1j27A 102 3.74e+01 unknown_sccs -10116 1h2kA 349 3.77e+01 b.82.2.6 76572 1d2kA 392 3.77e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1nnlA 225 3.79e+01 c.108.1.4 85906 1mijA 152 3.80e+01 a.4.1.1 79150 1nvmB 312 3.80e+01 c.2.1.3 86251 d.81.1.1 86252 1ldjA 760 3.84e+01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1czaN 917 3.88e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1pe9A 361 3.88e+01 b.80.1.1 -4765 1jtaA 361 3.91e+01 b.80.1.1 71859 1ut8A 291 3.94e+01 a.60.7.1 -1036 c.120.1.2 -6675 1fiuA 286 3.96e+01 1fiuA c.52.1.10 33317 1nw1A 429 3.96e+01 d.144.1.8 86286