# List of top-scoring protein chains for T0356.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 1fd0A 235 3.78e+00 a.123.1.1 76164 1fcyA 236 3.78e+00 2lbd a.123.1.1 19282 1exaA 246 3.83e+00 2lbd a.123.1.1 19285 2lbd 267 3.86e+00 2lbd a.123.1.1 19287 1dm5A 315 4.61e+00 1avc a.65.1.1 18186 1aeiA 315 4.64e+00 1avc a.65.1.1 18180 1yvbA 241 6.51e+00 1xapA 267 6.88e+00 1xdkB 303 7.10e+00 1wqaA 455 7.74e+00 1jyoA 130 8.30e+00 d.198.1.1 67483 1xc3A 302 8.62e+00 1dkfB 235 8.78e+00 2lbd a.123.1.1 19281 1q3bA 262 1.27e+01 a.156.1.2,b.113.1.1,g.39.1.8 104518,104519,104520 1q3cA 262 1.36e+01 a.156.1.2,b.113.1.1,g.39.1.8 104521,104522,104523 1k3xA 262 1.36e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1aoxA 203 1.38e+01 1aoxA c.62.1.1 34151 2bkrA 212 1.54e+01 1se9A 126 1.59e+01 d.15.1.1 98821 1zu4A 320 1.70e+01 1j0dA 341 1.71e+01 c.79.1.1 83902 2b2xA 223 1.71e+01 1of5B 184 1.82e+01 d.17.4.2 86934 1ps9A 671 1.84e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1pybA 111 1.87e+01 b.40.4.4 95330 1mo9A 523 1.94e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1eoqA 96 1.96e+01 1d1dA a.28.3.1 16959 1v7pC 200 2.02e+01 c.62.1.1 108408 1zud1 251 2.24e+01 1zfnA 253 2.30e+01 1ri7A 171 2.36e+01 a.4.5.32,d.58.4.2 97504,97505 1z8qA 404 2.87e+01 1jipA 403 2.88e+01 a.104.1.1 66748 1z8pA 404 2.89e+01 1m4vA 204 2.89e+01 b.40.2.2,d.15.6.1 74459,74460 1jioA 403 2.90e+01 a.104.1.1 66747 1z8oA 404 2.90e+01 2fu0A 160 2.92e+01 1xt9A 212 2.95e+01 1ffkI 194 3.11e+01 1ffkI d.12.1.2 37494 1t3cA 421 3.12e+01 d.92.1.7 106343 1yf9A 171 3.23e+01 1j0eA 341 3.36e+01 c.79.1.1 83906 1f2dA 341 3.36e+01 1f2dA c.79.1.1 35298 1jj2L 194 3.40e+01 1ffkI d.12.1.2 63097 1di1A 300 3.41e+01 1di1A a.128.1.4 19446 2fv1A 377 3.54e+01 2fuzA 377 3.59e+01 7mdhA 375 3.67e+01 1bmdA c.2.1.5,d.162.1.1 30130,42097 1bqg 451 3.70e+01 1bqg c.1.11.2,d.54.1.1 29217,38861 1autL 114 3.76e+01 1hcgB g.3.11.1,g.3.11.1 44244,44245 1dziA 185 3.82e+01 1aoxA c.62.1.1 59142 2evaA 307 4.07e+01 1g71A 347 4.27e+01 1g71A d.264.1.1 43268 1a1s 314 4.31e+01 1othA c.78.1.1,c.78.1.1 35258,35259 1pvvA 315 4.32e+01 c.78.1.1,c.78.1.1 95190,95191 1tpwA 247 4.32e+01 1amk c.1.1.1 28449 1tpc1 247 4.46e+01 1amk 1u55A 188 4.48e+01 d.278.1.1 107677 1id1A 153 4.49e+01 1id1A c.2.1.9 62286 1xbnA 195 4.53e+01 d.278.1.1 109541 1myo 118 4.59e+01 2myo d.211.1.1 19174 2f51A 118 4.63e+01 2fcwB 80 4.63e+01 1zkwA 420 4.72e+01 1zl6A 420 4.75e+01 1tpvA 247 4.82e+01 1amk c.1.1.1 28443 2ccmA 191 4.83e+01 1zkxA 420 4.87e+01 1zn3A 420 4.94e+01 1zl5A 420 4.95e+01 1vkhA 273 4.97e+01 c.69.1.32 108662 1t3aA 421 5.18e+01 d.92.1.7 106339 1b4pA 217 5.19e+01 a.45.1.1,c.47.1.5 83158,83159 1s0uA 408 5.22e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1spqA 247 5.34e+01 c.1.1.1 105878 1tph1 247 5.38e+01 1amk 1sw7A 248 5.43e+01 c.1.1.1 106073 1su5A 247 5.46e+01 c.1.1.1 106020 1sw3A 248 5.53e+01 c.1.1.1 106065 1sq7A 247 5.56e+01 c.1.1.1 105886 1tpb1 247 5.56e+01 1amk 1sw0A 248 5.59e+01 c.1.1.1 106060 1ssdA 247 5.60e+01 c.1.1.1 105979 1tpuA 247 5.80e+01 1amk c.1.1.1 28441 1ryiA 382 5.90e+01 1iq8A 582 5.95e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1ng4A 390 6.08e+01 c.3.1.2,d.16.1.3 85666,85667 2fswA 107 6.18e+01 2a25A 193 6.27e+01 1souA 194 6.27e+01 c.124.1.6 105858 1k8rB 110 6.29e+01 d.15.1.5 72180 1k2fA 190 6.33e+01 b.8.1.2 68054 2an6A 191 6.34e+01 1st9A 143 6.36e+01 c.47.1.10 98987 1hqvA 191 6.59e+01 1hqvA a.39.1.8 61160 1yxsA 293 6.61e+01 2cg5B 91 6.64e+01 2cugA 88 6.80e+01 1i35A 95 6.94e+01 d.15.1.5 66017 1x40A 91 7.06e+01 1qk6A 33 7.23e+01 1qk6A g.3.6.2 44114 2f9sA 151 7.24e+01 2fxaA 207 7.52e+01 1timA 247 7.60e+01 1amk c.1.1.1 28453 1u8wA 149 7.91e+01 1ibhA 151 7.97e+01 1yaiA b.1.8.1 62159 1avoB 140 8.04e+01 1avoB 1gp6A 356 8.09e+01 b.82.2.1 65441 1xtoA 311 8.29e+01 1d1dA 262 8.32e+01 1d1dA a.28.3.1,a.73.1.1 16958,18335 1l5wA 796 8.70e+01 c.87.1.4 73605 1qm5A 796 8.71e+01 1a8i c.87.1.4 35542 1r1kD 266 8.85e+01 a.123.1.1 96819 1nswA 105 8.93e+01 c.47.1.1 92097 1qe0A 420 8.98e+01 1adjA c.51.1.1,d.104.1.1 33186,40735