# 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.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 1of4A 179 3.64e+00 b.18.1.18 86932 1oh4A 179 3.72e+00 b.18.1.18 -3123 1ikpA 613 5.26e+00 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1wwbX 103 6.31e+00 1wwcA b.1.1.4 21777 1who 96 6.84e+00 1who b.7.3.1 23215 1o91A 178 7.71e+00 b.22.1.1 -3282 1mspA 126 7.72e+00 1mspA b.1.11.2 22333 3mspA 126 8.07e+00 1mspA b.1.11.2 22343 1h3nA 878 8.21e+00 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1lqbC 162 8.80e+00 b.3.3.1 74186 1tl2A 236 9.00e+00 1tl2A b.67.1.1 27541 1gr3A 160 9.16e+00 b.22.1.1 65476 1lm8V 160 9.26e+00 b.3.3.1 74035 1mjuL 219 1.02e+01 b.1.1.1 -2083 b.1.1.2 -2360 1i9gA 280 1.14e+01 c.66.1.13 62090 1h8gA 95 1.24e+01 b.109.1.1 65735 1c3hA 137 1.25e+01 b.22.1.1 -3255 1rerA 391 1.25e+01 b.1.18.4 -2740 f.10.1.1 -12385 2mspA 126 1.33e+01 1mspA b.1.11.2 22335 1vcbC 160 1.34e+01 1vcbC b.3.3.1 22535 1jv4A 162 1.49e+01 b.60.1.1 67343 1hcxA 127 1.49e+01 b.109.1.1 65800 1c5kA 439 1.59e+01 1crzA b.68.4.1 27630 c.51.2.1 33212 1cqqA 180 1.64e+01 1cqqA b.47.1.4 26422 1m1hA 248 1.65e+01 b.114.1.1 78415 d.58.42.1 78416 1j5wA 298 1.73e+01 d.104.1.1 71589 1crzA 403 1.77e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1i06A 180 1.77e+01 1mup b.60.1.1 27131 1i05A 180 1.77e+01 1mup b.60.1.1 27130 1qy1A 174 1.79e+01 b.60.1.1 -4445 1c28A 135 1.80e+01 1c28A b.22.1.1 23857 1lw3A 657 1.85e+01 unknown_sccs -4378 unknown_sccs -7358 1aun 208 1.91e+01 1thv b.25.1.1 23900 1r4kA 169 2.15e+01 unknown_sccs -3625 1drs 59 2.17e+01 3ebx g.7.1.2 44457 1h09A 338 2.29e+01 b.109.1.1 83420 c.1.8.8 83421 1thjA 214 2.33e+01 1qreA b.81.1.5 28072 1jguH 217 2.36e+01 b.1.1.1 66688 b.1.1.2 66689 1ubpB 122 2.36e+01 1ubpB b.85.3.1 28346 1r6wA 322 2.39e+01 c.1.11.2 -5563 d.54.1.1 -9821 1bu8A 452 2.52e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1gvmA 136 2.53e+01 b.109.1.1 70612 4ubpB 126 2.54e+01 1ubpB b.85.3.1 28345 1qmvA 197 2.56e+01 1qq2A c.47.1.10 33066 1a7cA 379 2.59e+01 1sek e.1.1.1 42660 1qq2A 199 2.88e+01 1qq2A c.47.1.10 33064 1df9A 191 2.91e+01 1befA b.47.1.3 26420 1qreA 247 2.95e+01 1qreA b.81.1.5 28066 1k9tA 540 2.96e+01 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 1ejrB 101 2.99e+01 1ubpB b.85.3.1 28320 1qfcA 306 3.01e+01 1uteA d.159.1.1 42077 1p3dA 475 3.04e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1gqyA 475 3.05e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1bs0A 384 3.07e+01 1bs0A c.67.1.4 34490 2madH 373 3.10e+01 2bbkH b.69.2.1 27639 1hzgA 295 3.17e+01 1hzgA d.194.1.1 61436 1wkt 88 3.29e+01 1wkt b.11.1.2 23630 1mup 166 3.32e+01 1mup b.60.1.1 27133 1hq0A 295 3.33e+01 1hzgA d.194.1.1 61122 1ejxB 101 3.38e+01 b.85.3.1 83183 1fwcB 106 3.38e+01 1ubpB b.85.3.1 28324 1noa 113 3.44e+01 2mcm b.1.7.1 22208 1ctn 540 3.50e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1a2yA 107 3.51e+01 8fabA b.1.1.1 19926 5croA 66 3.57e+01 1orc a.35.1.2 17044 1eybA 471 3.58e+01 1ey2A b.82.1.4 28115 1befA 181 3.68e+01 1befA b.47.1.3 26419 1ni9A 338 3.73e+01 e.7.1.2 85739 1f00I 282 3.80e+01 1f00I b.1.14.1 22368 b.1.14.1 22369 d.169.1.3 42439 1pj5A 830 3.80e+01 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1aac 105 3.80e+01 1aac b.6.1.1 22838 1e5pA 151 3.85e+01 1bj7 b.60.1.1 59272 1copD 66 3.88e+01 1orc a.35.1.2 17058 1axdA 209 3.93e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 1j1tA 233 3.98e+01 unknown_sccs -3462