# List of top-scoring protein chains for T0384.t2k-w0.5 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 1evjA 352 7.89e-46 1ofgA c.2.1.3,d.81.1.5 30070,39985 1ofgA 381 1.22e-45 1ofgA c.2.1.3,d.81.1.5 30064,39979 1rydA 387 1.22e-45 1h6dA 433 1.23e-45 c.2.1.3,d.81.1.5 65656,65657 1zh8A 340 6.43e-41 1ydwA 362 2.73e-36 1tltA 319 1.62e-29 c.2.1.3,d.81.1.5 107135,107136 1xeaA 323 1.23e-26 c.2.1.3,d.81.1.5 109572,109573 1gcuA 295 2.31e-18 1gcuA c.2.1.3,d.81.1.4 30063,39978 2h63A 292 2.33e-18 1lc0A 294 2.38e-18 c.2.1.3,d.81.1.4 73823,73824 2ahrA 259 2.11e-03 1nvmB 312 3.07e-03 c.2.1.3,d.81.1.1 86251,86252 1b7gO 340 4.73e-03 1b7gO c.2.1.3,d.81.1.1 29992,39907 1nptO 334 4.92e-03 c.2.1.3,d.81.1.1 85987,85988 1nqoA 334 4.99e-03 c.2.1.3,d.81.1.1 86044,86045 1gd1O 334 5.12e-03 1dssG c.2.1.3,d.81.1.1 29962,39877 2dbvO 334 1.31e-02 1dssG c.2.1.3,d.81.1.1 29970,39885 1ff9A 450 1.33e-02 1ff9A c.2.1.3,d.81.1.2 30039,39954 3dbvO 334 1.84e-02 1dssG c.2.1.3,d.81.1.1 29982,39897 2czcA 334 2.32e-02 1ys4A 354 4.75e-02 1y81A 138 4.89e-02 1vpdA 299 5.59e-02 1cf2O 337 7.50e-02 1b7gO c.2.1.3,d.81.1.1 29994,39909 2cvoA 366 1.14e-01 1ffkB 337 2.44e-01 1ffkB b.43.3.2 25719 1f06A 320 2.46e-01 1dapA c.2.1.3,d.81.1.3 59556,59557 2dikA 873 2.48e-01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29306,30704,41574 1jdeA 873 2.49e-01 c.1.12.2,c.8.1.1,d.142.1.5 66546,66547,66548 1dik 874 2.51e-01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1ggoA 873 2.70e-01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29305,30703,41573 1kblA 873 2.72e-01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 2g17A 337 2.96e-01 1yl3E 338 5.59e-01 1yrlA 491 5.71e-01 1vknA 351 6.69e-01 c.2.1.3,d.81.1.1 108676,108677 1jj2B 337 7.01e-01 1ffkB b.43.3.2 63086 1vqoB 338 7.02e-01 1gaeO 330 7.16e-01 1dssG c.2.1.3,d.81.1.1 29954,39869 1gadO 330 7.17e-01 1dssG c.2.1.3,d.81.1.1 29950,39865 1s7cA 331 7.21e-01 c.2.1.3,d.81.1.1 105346,105347 1gpjA 404 7.24e-01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1ldnA 316 8.03e-01 1hyhA c.2.1.5,d.162.1.1 30166,42133 1ldbA 317 8.03e-01 2g5cA 281 8.13e-01 2gf2A 296 8.62e-01 1xygA 359 1.03e+00 1omoA 322 1.29e+00 c.2.1.13 104017 1vllA 334 1.47e+00 c.2.1.13 108834 1bg6 359 1.47e+00 1bg6 a.100.1.5,c.2.1.6 18810,30214 1hdgO 332 1.48e+00 1dssG c.2.1.3,d.81.1.1 29990,39905 1nvtA 287 1.52e+00 c.2.1.7,c.58.1.5 86270,86271 1np3A 338 1.52e+00 a.100.1.2,c.2.1.6 85946,85947 1k3tA 359 1.87e+00 c.2.1.3,d.81.1.1 72022,72023 1drw 273 2.25e+00 1drw c.2.1.3,d.81.1.3 30057,39972 1nytA 271 2.95e+00 c.2.1.7,c.58.1.5 86417,86418 1obbA 480 3.77e+00 c.2.1.5,d.162.1.2 86760,86761 1a5z 319 3.96e+00 1ceqA c.2.1.5,d.162.1.1 30181,42148 1oi7A 288 4.20e+00 c.2.1.8,c.23.4.1 87049,87050 1wwkA 307 4.33e+00 1obfO 335 4.48e+00 c.2.1.3,d.81.1.1 86768,86769 2f57A 317 4.58e+00 1u8fO 335 4.58e+00 1znqO 338 4.64e+00 1gypA 358 4.65e+00 1dssG c.2.1.3,d.81.1.1 30004,39919 1i32A 360 4.66e+00 c.2.1.3,d.81.1.1 65993,65994 1ygyA 529 4.99e+00 2f1kA 279 5.32e+00 2ez3A 302 6.24e+00 1ywgO 337 6.49e+00 1nr6A 473 6.56e+00 a.104.1.1 92085 2b4rO 345 6.74e+00 1ee0A 402 6.91e+00 1bi5A c.95.1.2,c.95.1.2 36007,36008 2cvxA 888 7.05e+00 1yqgA 263 7.21e+00 3gpdG 334 7.22e+00 1dssG c.2.1.3,d.81.1.1 30029,39944 1pgjA 478 7.64e+00 2pgd a.100.1.1,c.2.1.6 18783,30195 1vc2A 331 7.81e+00 c.2.1.3,d.81.1.1 100555,100556 1ggaA 358 8.23e+00 1dssG c.2.1.3,d.81.1.1 30002,39917 1rwtA 232 9.11e+00 f.43.1.1 97992 1pzgA 331 9.35e+00 c.2.1.5,d.162.1.1 95425,95426 1jayA 212 9.43e+00 c.2.1.6 66478 2dbqA 334 1.02e+01 1skxA 313 1.03e+01 1xwwA 157 1.03e+01 1nrlA 316 1.03e+01 a.123.1.1 92091 1k9vF 201 1.10e+01 c.23.16.1 68365 1kxjA 205 1.13e+01 c.23.16.1 73153 1j49A 333 1.18e+01 c.2.1.4,c.23.12.1 71498,71499 2bw0A 329 1.18e+01 2cdzA 303 1.21e+01 1gkrA 458 1.29e+01 b.92.1.3,c.1.9.6 70251,70252 1j4aA 333 1.31e+01 c.2.1.4,c.23.12.1 71502,71503 1xcbA 211 1.33e+01 a.4.5.38,c.2.1.12 109552,109553 1lsuA 147 1.36e+01 c.2.1.9 74250 1p9lA 245 1.38e+01 c.2.1.3,d.81.1.3 94393,94394 2d5cA 263 1.38e+01 2gn4A 344 1.43e+01 1vm6A 228 1.52e+01 c.2.1.3,d.81.1.3 108876,108877 1j0xO 332 1.53e+01 c.2.1.3,d.81.1.1 90750,90751 1s3iA 310 1.59e+01 b.46.1.1,c.65.1.1 98435,98436 1ub7A 322 1.77e+01 c.95.1.2,c.95.1.2 88402,88403 1dljA 402 1.86e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 1.88e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1i16 130 1.91e+01 1i16 b.36.1.2 24787 1p77A 272 1.96e+01 c.2.1.7,c.58.1.5 94214,94215 1vhnA 318 1.96e+01 c.1.4.1 100693 1yqdA 366 1.97e+01 1mqbA 333 2.08e+01 d.144.1.7 91392 1eaxA 241 2.09e+01 b.47.1.2 64889 1mc0A 368 2.10e+01 d.110.2.1,d.110.2.1 78937,78938 1cyg 680 2.12e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21843,22512,27750,28737 2dldA 337 2.15e+01 1dxy c.2.1.4,c.23.12.1 30099,31359 1urdA 370 2.19e+01 c.94.1.1 99825 2h1sA 328 2.28e+01 1ursA 402 2.38e+01 c.94.1.1 99833 1vl8A 267 2.40e+01 c.2.1.2 108733 2bvaA 292 2.44e+01 1yl5A 247 2.50e+01 1cydA 244 2.58e+01 1cydA c.2.1.2 29825 1fmtA 314 2.58e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1wl7A 312 2.58e+01 1o7xA 377 2.72e+01 a.103.1.1 81171 1zitA 121 2.99e+01 1h93A 485 3.07e+01 1dpgA c.2.1.3,d.81.1.5 60807,60808 2cvzA 289 3.13e+01 1e7yA 485 3.27e+01 1dpgA c.2.1.3,d.81.1.5 30077,39992 1dpgA 485 3.43e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1h9aA 485 3.54e+01 1dpgA c.2.1.3,d.81.1.5 60816,60817 1hyhA 309 3.55e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 2fpqA 444 3.67e+01 1uwhA 276 3.78e+01 d.144.1.7 100123 1y6jA 318 3.88e+01 2d1yA 256 3.98e+01 2etfA 441 4.09e+01 2c6nA 612 4.09e+01 1w9hA 427 4.41e+01 1xdwA 331 4.48e+01 1pb7A 292 4.48e+01 c.94.1.1 88025 1jsmA 325 4.69e+01 b.19.1.2 63264 1sqiA 393 4.73e+01 d.32.1.3,d.32.1.3 105914,105915 2b8wA 328 4.77e+01 1yl7A 245 4.87e+01 2ajrA 331 5.02e+01 1fouA 309 5.05e+01 1fouA e.27.1.1 43364 1treA 255 5.06e+01 1amk c.1.1.1 28505 1z1eA 390 5.16e+01 1uxjA 309 5.36e+01 c.2.1.5,d.162.1.1 108112,108113 1ze0A 181 5.37e+01 1uxgA 309 5.46e+01 c.2.1.5,d.162.1.1 108100,108101 1ex0A 731 5.48e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1uxkA 309 5.51e+01 c.2.1.5,d.162.1.1 108116,108117 1ur5A 309 5.54e+01 c.2.1.5,d.162.1.1 99807,99808 1i36A 264 5.54e+01 a.100.1.8,c.2.1.6 71108,71109 1f5nA 592 5.58e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1rg9A 383 5.62e+01 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1e1hA 287 5.69e+01 d.92.1.7 83167 1ebfA 358 5.78e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1q7gA 359 5.78e+01 c.2.1.3,d.81.1.2 96038,96039 1liwA 528 5.81e+01 b.58.1.1,c.1.12.1,c.49.1.1 77982,77983,77984 1f83A 425 5.82e+01 1f82A d.92.1.7 40306 2bvyA 475 5.92e+01 2fsjA 346 5.93e+01 1f82A 424 5.96e+01 1f82A d.92.1.7 40307 2axoA 270 6.01e+01 1bo1A 416 6.06e+01 1bo1A d.143.1.2 41591 2ahuA 531 6.20e+01 1oc2A 348 6.37e+01 c.2.1.2 92765 1ile 821 6.39e+01 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1g68A 271 6.42e+01 1btl e.3.1.1 42705 1gzkA 315 6.56e+01 d.144.1.7 83406 1dxy 333 6.62e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 2bhwA 232 6.68e+01 1g6aA 271 6.73e+01 1btl e.3.1.1 42704 1hrkA 359 6.93e+01 1hrkA c.92.1.1 61228 2g50A 530 7.21e+01 1pdiA 278 7.25e+01 i.19.1.1 94536 2bshA 125 7.25e+01 1cerA 331 7.30e+01 1oypA 245 7.36e+01 d.14.1.4,d.101.1.1 93734,93735 1mvyA 628 7.37e+01 b.71.1.1,c.1.8.1 79547,79548 1g5aA 628 7.40e+01 b.71.1.1,c.1.8.1 65152,65153 1jgiA 628 7.41e+01 b.71.1.1,c.1.8.1 66676,66677 2bsjA 133 7.48e+01 2d0iA 333 7.62e+01 1h5wA 309 7.75e+01 e.27.1.1 65635 1uwjA 276 7.77e+01 d.144.1.7 100125 1yf9A 171 7.80e+01 1gznA 335 7.85e+01 d.144.1.7 83407 1mryA 339 7.86e+01 d.144.1.7 91451 1qhtA 775 7.91e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1o6kA 336 7.95e+01 d.144.1.7 81091 1pguA 615 8.07e+01 b.69.4.1,b.69.4.1 88069,88070 1xlsE 242 8.18e+01 1o6lA 337 8.19e+01 d.144.1.7 81092 1rl0A 255 8.32e+01 1oflA 481 8.34e+01 b.80.1.4 103934 1pklA 499 8.35e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27052,29280,33134 1uirA 314 8.68e+01 c.66.1.17 99429 1v4aA 440 8.78e+01 a.24.16.4,d.218.1.9 108350,108351 2a0nA 265 8.81e+01 1bd0A 388 8.82e+01 1bd0A b.49.2.2,c.1.6.1 26480,28642 1l8fA 207 8.84e+01 b.52.1.1 84537 2h78A 302 8.89e+01