# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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.soe.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 2v6kA 214 4.27e-01 2j1dG 483 7.58e-01 1vbgA 876 7.91e-01 c.1.12.2 119951 c.8.1.1 119952 d.142.1.5 119953 1yrbA 262 8.32e-01 c.37.1.10 123915 1xxsA 122 9.22e-01 1mn8A 100 1.85e+00 a.61.1.6 79318 3iq3A 121 2.56e+00 1y4lA 121 2.71e+00 a.133.1.2 122624 3a04A 372 3.20e+00 2x64A 207 3.31e+00 3fvyA 728 3.35e+00 1yuzA 202 3.54e+00 a.25.1.1 124077 g.41.5.1 124078 3hyhA 275 3.82e+00 2pg0A 385 3.87e+00 2q2jA 121 4.48e+00 1s8iA 121 4.50e+00 a.133.1.2 98735 2javA 279 4.54e+00 d.144.1.7 138243 1xqoA 256 4.66e+00 a.96.1.6 115853 2r1fA 270 4.77e+00 1glqA 209 5.05e+00 1pgtA a.45.1.1 17588 c.47.1.5 32882 3f75P 106 5.15e+00 1zeeA 403 6.09e+00 a.266.1.2 124981 3euhC 234 6.24e+00 1cojA 212 8.68e+00 1avmA a.2.11.1 15737 d.44.1.1 38734 3fd9A 256 8.80e+00 1kyhA 276 8.95e+00 c.72.1.4 73222 3bniA 229 8.96e+00 2vdxA 373 8.99e+00 2ahfA 377 9.42e+00 1yc9A 442 1.02e+01 2vjvA 159 1.03e+01 d.58.57.1 153201 1u5tA 233 1.04e+01 a.4.5.54 107684 a.4.5.54 107685 2d29A 387 1.05e+01 a.29.3.1 131157 e.6.1.1 131158 3f7cA 200 1.10e+01 3a0gA 141 1.10e+01 3kzqA 208 1.12e+01 2nwbA 400 1.12e+01 2o20A 332 1.14e+01 1pgtA 210 1.19e+01 1pgtA a.45.1.1 17515 c.47.1.5 32809 1dceB 331 1.21e+01 1dceB a.102.4.3 18872 1vjyA 303 1.22e+01 d.144.1.7 108633 3ky9A 587 1.23e+01 2eyqA 1151 1.31e+01 b.34.18.1 132590 c.37.1.19 132591 c.37.1.19 132592 c.37.1.19 132593 c.37.1.19 132594 d.315.1.1 132595 1py5A 326 1.31e+01 d.144.1.7 104389 1vmbA 140 1.31e+01 d.58.14.1 113672 1wmuA 141 1.31e+01 a.1.1.2 109416 2hzgA 401 1.31e+01 1a1vA 476 1.44e+01 1heiA c.37.1.14 32467 c.37.1.14 32468 2b5tI 432 1.45e+01 e.1.1.1 127905 2g5cA 281 1.49e+01 a.100.1.12 134646 c.2.1.6 134647 2wotA 306 1.51e+01 1cg5B 141 1.52e+01 1cg5B a.1.1.2 15585 1mdwA 328 1.54e+01 d.3.1.3 84934 3g7sA 549 1.57e+01 17gsA 210 1.58e+01 1pgtA a.45.1.1 17524 c.47.1.5 32818 1ku2A 241 1.59e+01 a.4.13.1 83096 a.177.1.1 83097 1v4xA 144 1.60e+01 a.1.1.2 108363 3c8eA 288 1.62e+01 1heiA 451 1.63e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 2zfoA 140 1.64e+01 1phkA 298 1.65e+01 d.144.1.7 41635 2g47A 990 1.67e+01 1vd5A 377 1.69e+01 a.102.1.7 108518 3eheA 313 1.70e+01 1dciA 275 1.70e+01 1dciA c.14.1.3 30918 3hmmA 303 1.74e+01 2bsjA 133 1.75e+01 1jtvA 327 1.75e+01 c.2.1.2 84230 1adjA 421 1.77e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 2vtyA 182 1.77e+01 2of3A 266 1.78e+01 1egdA 396 1.78e+01 3mdeA a.29.3.1 16596 e.6.1.1 42857 2qm4A 235 1.79e+01 1wzzA 334 1.91e+01 a.102.1.2 121536 1rx0A 393 1.93e+01 a.29.3.1 98007 e.6.1.1 98008 1lbkA 208 1.94e+01 a.45.1.1 73809 c.47.1.5 73810 1h4vB 421 1.95e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1uc2A 481 1.97e+01 d.261.1.1 99161 3kmnA 209 1.97e+01 1y08A 323 1.99e+01 d.3.1.12 116280 2jfkA 433 1.99e+01 1aqwA 209 2.00e+01 1pgtA a.45.1.1 17517 c.47.1.5 32811 6gsvA 217 2.02e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 2f6hX 419 2.05e+01 2a2rA 210 2.06e+01 a.45.1.1 126058 c.47.1.5 126059 2f37A 251 2.06e+01 2dxnA 274 2.07e+01 d.159.1.11 146605 1b6cB 342 2.11e+01 1b6cB d.144.1.7 41673 2hm2Q 89 2.12e+01 1vlbA 907 2.14e+01 a.56.1.1 108739 d.15.4.2 108740 d.41.1.1 108741 d.133.1.1 108742 2v95A 371 2.16e+01 1hfoA 113 2.16e+01 d.80.1.3 61006 3hhdA 965 2.17e+01 2avwA 311 2.21e+01 1cg5A 141 2.21e+01 1abwA a.1.1.2 15406 1r9dA 787 2.26e+01 c.7.1.1 104865 2zs0A 140 2.27e+01 2j07A 420 2.28e+01 a.99.1.1 137891 c.28.1.1 137892 3bomB 147 2.31e+01 2wauA 302 2.37e+01 3brnA 157 2.38e+01 1tr0A 108 2.42e+01 d.58.4.4 107261 1ea1A 455 2.42e+01 1ea1A a.104.1.1 18970 2rccA 346 2.46e+01 1evsA 187 2.49e+01 1evsA a.26.1.1 16845 2w5aA 279 2.52e+01 2igsA 219 2.56e+01 d.2.1.11 147659 2qubA 615 2.56e+01 1elqA 390 2.65e+01 1elqA c.67.1.3 34436 1y1pA 342 2.66e+01 c.2.1.2 122550 1eluA 390 2.67e+01 1elqA c.67.1.3 34434 3kcgI 432 2.74e+01 1fmjA 351 2.80e+01 c.37.1.5 59879 3dssB 331 2.80e+01 a.102.4.3 157841 1o5iA 249 2.83e+01 c.2.1.2 92499 3clmA 352 2.86e+01 2hlyA 207 2.86e+01 d.3.1.19 147310 2w72C 141 2.87e+01 2welA 327 2.89e+01 2wvvA 450 2.93e+01 3ccyA 203 2.96e+01 1jalA 363 2.99e+01 c.37.1.8 84138 d.15.10.2 84139 1hu3A 260 3.04e+01 1hu3A a.118.1.14 19137 1trrA 107 3.05e+01 1jhgA a.4.12.1 19017 2jbrA 422 3.05e+01 3h9rA 330 3.05e+01 1rp3A 239 3.06e+01 a.4.13.1 97678 a.4.13.2 97679 a.177.1.1 97680 1wy1A 172 3.07e+01 1jhgA 101 3.07e+01 1jhgA a.4.12.1 19009 1g3qA 237 3.13e+01 1hyqA c.37.1.10 60237 1i5nA 146 3.13e+01 1i5nA a.24.10.3 61805 1j7yA 141 3.16e+01 a.1.1.2 66426 3fbiB 130 3.17e+01 2w72A 141 3.18e+01 2oayA 391 3.24e+01 2hsbA 126 3.27e+01 3d03A 274 3.28e+01 d.159.1.11 157161 1x9fA 151 3.29e+01 a.1.1.2 114983 2zo9B 274 3.30e+01 d.159.1.11 154714 2d5xA 141 3.36e+01 a.1.1.2 131282 1aq3A 129 3.40e+01 1msc d.85.1.1 40079 3ledA 392 3.42e+01 3es7A 391 3.44e+01 1msc 129 3.46e+01 1msc 1mscA 129 3.46e+01 d.85.1.1 40039 1fds 327 3.47e+01 1fds 3eciA 122 3.47e+01 2oqyA 391 3.48e+01 3g11A 427 3.53e+01 1sr4B 261 3.54e+01 d.151.1.1 105949 2wzqA 619 3.55e+01 1qhlA 227 3.57e+01 1qhlA c.37.1.12 32382 3menA 362 3.66e+01 1guxA 218 3.68e+01 1guxA a.74.1.3 18388 2q83A 346 3.70e+01 1ry6A 360 3.72e+01 c.37.1.9 98090 2lefA 86 3.72e+01 2lefA a.21.1.1 16433 1g8kA 825 3.74e+01 1g8jA b.52.2.2 26920 c.81.1.1 35328 3l0lA 248 3.76e+01 1epuA 591 3.76e+01 1dn1A e.25.1.1 43358 2aaxA 275 3.86e+01 1p5hA 428 3.89e+01 c.123.1.1 87802 1gm7A 209 3.89e+01 d.153.1.2 65302 1fiuA 286 3.91e+01 1fiuA c.52.1.10 33317 3ho9A 427 3.99e+01