# List of top-scoring protein chains for 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.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 1j54A 186 2.02e-01 c.55.3.5 77077 1j53A 186 2.02e-01 c.55.3.5 77076 2guiA 194 2.03e-01 c.55.3.5 135737 1tv8A 340 8.52e-01 c.1.28.3 107352 2fb2A 340 1.06e+00 2ozzA 231 1.88e+00 1iurA 88 2.52e+00 a.2.3.1 90704 1l0wA 580 2.54e+00 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 2f6sA 201 2.61e+00 a.265.1.1 133058 1v9mA 323 3.03e+00 f.40.1.1 100543 2etrA 415 5.61e+00 2hdcA 97 5.93e+00 2hfh a.4.5.14 16146 2hfhA 109 6.25e+00 a.4.5.14 16145 1lnwA 147 7.14e+00 a.4.5.28 78104 1wsuA 124 7.86e+00 a.4.5.35 121245 a.4.5.35 121246 2b3uA 171 1.05e+01 d.108.1.1 127797 2igtA 332 1.05e+01 c.66.1.51 137401 1yxaA 398 1.07e+01 2jevA 174 1.12e+01 d.108.1.1 138287 2b5gA 171 1.12e+01 d.108.1.1 127892 2fxfA 170 1.12e+01 d.108.1.1 134308 1b0nB 57 1.15e+01 1b0nB a.34.1.1 17002 2g3tA 179 1.15e+01 d.108.1.1 134572 2b5gB 171 1.23e+01 d.108.1.1 127893 2ptrA 462 1.29e+01 2ptqA 462 1.29e+01 2ptsA 462 1.29e+01 1ub4A 110 1.52e+01 b.34.6.2 88399 1lvaA 258 1.53e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1tyyA 339 1.55e+01 c.72.1.1 112850 2c1xA 456 1.68e+01 1ywtA 248 1.70e+01 2ocdA 337 1.71e+01 1gm6A 175 1.76e+01 b.60.1.1 70272 1q15A 503 1.93e+01 c.26.2.1 95538 d.153.1.1 95539 2i6eA 301 1.95e+01 2dx5A 139 1.99e+01 b.55.1.12 131866 1z5zA 271 2.11e+01 c.37.1.19 124499 1bwrA 233 2.23e+01 c.23.10.3 31344 1bwqA 233 2.24e+01 c.23.10.3 31343 1wabA 232 2.25e+01 c.23.10.3 31341 2dvtA 327 2.39e+01 c.1.9.15 131793 1yq1A 208 2.50e+01 2qfcA 293 2.55e+01 2zbkA 389 2.65e+01 1ltlA 279 2.67e+01 b.40.4.11 84701 2braA 484 2.75e+01 1n81A 186 2.77e+01 a.185.1.1 85388 1ly1A 181 2.80e+01 c.37.1.1 74334 2uxuA 210 2.81e+01 3bblA 287 2.92e+01 2dbbA 151 2.94e+01 2clyA 214 2.96e+01 4gtuA 217 3.12e+01 1b8xA a.45.1.1 17621 c.47.1.5 32915 2v9uA 132 3.13e+01 2bryA 497 3.17e+01 2araA 149 3.25e+01 b.82.4.1 28152 1timA 247 3.27e+01 1amk c.1.1.1 28453 1sw7A 248 3.35e+01 c.1.1.1 106073 2aacA 177 3.37e+01 2arcA b.82.4.1 28150 2bcjQ 353 3.37e+01 a.66.1.1 128291 c.37.1.8 128292 2pu9C 111 3.37e+01 2arcA 164 3.38e+01 2arcA b.82.4.1 28148 2vdwA 302 3.38e+01 1xjaA 178 3.43e+01 b.82.4.1 115382 1tpb1 247 3.49e+01 1amk 1jbiA 100 3.52e+01 d.209.1.1 66481 1spqA 247 3.53e+01 c.1.1.1 105878 2ejnA 153 3.53e+01 a.101.1.1 132279 a.101.1.1 132280 1zkrA 153 3.53e+01 a.101.1.1 125209 a.101.1.1 125210 1ssdA 247 3.54e+01 c.1.1.1 105979 1iu1A 146 3.55e+01 b.1.10.2 71428 1hkxA 147 3.55e+01 d.17.4.7 83567 1tph1 247 3.58e+01 1amk 1su5A 247 3.62e+01 c.1.1.1 106020 1tpuA 247 3.64e+01 1amk c.1.1.1 28441 1s9aA 257 3.74e+01 b.3.6.1 105379 1sw3A 248 3.78e+01 c.1.1.1 106065 1es9A 232 3.79e+01 1wab c.23.10.3 31340 2fe7A 166 3.81e+01 d.108.1.1 133325 2b9sA 432 3.84e+01 2pk2A 358 3.85e+01 1tpc1 247 3.87e+01 1amk 1edzA 320 3.94e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1ee9A 320 3.94e+01 1ee9A c.2.1.7 30288 c.58.1.2 33936 1tpwA 247 3.97e+01 1amk c.1.1.1 28449