# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1q48A 134 5.96e-01 unknown_sccs -9776 1b9dA 163 8.13e-01 1b9dA c.55.3.2 33649 1hyvA 166 1.00e+00 1b9dA c.55.3.2 61424 1exqA 154 2.05e+00 1b9dA c.55.3.2 33646 1kk8B 139 2.58e+00 a.39.1.5 77430 1scmB 145 3.01e+00 1wdcB a.39.1.5 17304 1i5sA 367 3.38e+00 1bg2 c.37.1.9 61822 1wdcB 156 3.92e+00 1wdcB a.39.1.5 17302 1mpxA 615 4.17e+00 b.18.1.13 85041 c.69.1.21 85042 1bl3A 160 4.69e+00 1b9dA c.55.3.2 33655 1fiuA 286 4.83e+00 1fiuA c.52.1.10 33317 1iz0A 302 6.55e+00 b.35.1.2 83821 c.2.1.1 83822 1lshB 319 7.38e+00 f.7.1.1 74245 1ptmA 329 7.41e+00 unknown_sccs -8456 1itg 166 8.05e+00 1b9dA c.55.3.2 33661 1dljA 402 9.03e+00 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1i6iA 366 1.00e+01 1bg2 c.37.1.9 61844 1k8kA 418 1.10e+01 c.55.1.1 68305 c.55.1.1 68306 1qnoA 344 1.10e+01 1qnoA c.1.8.3 28838 1qnrA 344 1.19e+01 1qnoA c.1.8.3 28834 1ak1 310 1.21e+01 1ak1 c.92.1.1 35594 1dliA 402 1.24e+01 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1dozA 309 1.27e+01 1ak1 c.92.1.1 35592 1h2aL 567 1.30e+01 1h2rL e.18.1.1 43299 1b8oA 284 1.39e+01 1b8oA c.56.2.1 33762 1o5xA 248 1.44e+01 c.1.1.1 -5157 1kay 381 1.45e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1g8yA 279 1.47e+01 1g8yA c.37.1.11 32302 1nlfA 279 1.50e+01 c.37.1.11 85850 1bupA 386 1.56e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1rvkA 382 1.59e+01 c.1.11.2 -5568 d.54.1.1 -9826 1ba1 386 1.61e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1mdl 359 1.75e+01 2mnr c.1.11.2 29247 d.54.1.1 38891 1ihrA 76 1.86e+01 1ihrA d.212.1.2 62392 1ubkL 534 1.99e+01 e.18.1.1 88422 1f44A 324 2.01e+01 a.60.9.1 64982 d.163.1.1 64983 2phlA 397 2.04e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1ltqA 301 2.05e+01 c.108.1.9 78208 c.37.1.1 78209 1gm5A 780 2.09e+01 unknown_sccs 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1ry9A 145 2.15e+01 d.198.1.1 -9020 1byqA 228 2.15e+01 1yer d.122.1.1 41100 1rypA 243 2.20e+01 1pmaA d.153.1.4 41932 1gg4A 452 2.22e+01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1h2rL 534 2.23e+01 1h2rL e.18.1.1 43298 2itg 163 2.23e+01 1b9dA c.55.3.2 33669 1lyxA 248 2.31e+01 c.1.1.1 78304 1ad3A 452 2.48e+01 1ad3A c.82.1.1 35335 1dmgA 225 2.49e+01 1dmgA c.22.1.1 31036 1nnhA 294 2.51e+01 d.104.1.1 -10772 1ei6A 406 2.56e+01 unknown_sccs -8436 1j99A 293 2.59e+01 c.37.1.5 71618 1d2eA 397 2.63e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1crxA 322 2.68e+01 4crxA a.60.9.1 18097 d.163.1.1 42157 1h8mA 140 2.69e+01 1h8mA d.110.4.1 60782 1r4vA 171 2.69e+01 unknown_sccs -1221 1h7zA 194 2.76e+01 1qhvA b.21.1.1 60733 1huxA 270 2.95e+01 1huxA c.55.1.5 61278 1g0uG 252 2.98e+01 d.153.1.4 41952 1axdA 209 3.02e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 1j54A 186 3.09e+01 c.55.3.5 77077 1r71A 178 3.10e+01 4crxA 322 3.16e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1ekeA 230 3.18e+01 1ekeA c.55.3.1 33572 1mgtA 174 3.26e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1s1dA 331 3.40e+01 unknown_sccs -4566 1o6dA 163 3.42e+01 c.116.1.3 -6689 1a8l 226 3.49e+01 1a8l c.47.1.2 32777 c.47.1.2 32778 1gt7A 274 3.54e+01 c.74.1.1 70398 1rypE 242 3.58e+01 1rypE d.153.1.4 41936 2mnr 357 3.61e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1dkzA 219 3.65e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1jdfA 447 3.67e+01 c.1.11.2 62897 d.54.1.1 62898 1dkxA 219 3.78e+01 1dkzA unknown_sccs -446 unknown_sccs -3061 1qc5A 192 3.86e+01 1aoxA c.62.1.1 34147 1ojrA 274 3.90e+01 c.74.1.1 -8441 1hqcA 324 3.97e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1is8A 230 3.99e+01 d.96.1.1 66321