# 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 1yhpA 212 2.37e+00 1xx6A 191 3.54e+00 2azpA 318 4.97e+00 1pj5A 830 6.22e+00 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1nz9A 58 7.70e+00 b.34.5.4 92364 1xc3A 302 1.02e+01 2fbjH 220 1.25e+01 1igtB b.1.1.1,b.1.1.2 19851,20955 1rzuA 485 1.25e+01 c.87.1.8 105140 2u1a 88 1.37e+01 2u1a d.58.7.1 39164 1wqaA 455 1.57e+01 1yf9A 171 1.57e+01 1m1hA 248 1.71e+01 b.114.1.1,d.58.42.1 78415,78416 2fcr 173 1.97e+01 1rcf c.23.5.1 31151 2apoA 357 2.26e+01 1tpwA 247 2.26e+01 1amk c.1.1.1 28449 1spqA 247 2.27e+01 c.1.1.1 105878 1tph1 247 2.28e+01 1amk 1tpc1 247 2.28e+01 1amk 1sw7A 248 2.30e+01 c.1.1.1 106073 1ssdA 247 2.31e+01 c.1.1.1 105979 1tpb1 247 2.31e+01 1amk 1tpvA 247 2.32e+01 1amk c.1.1.1 28443 1tpuA 247 2.36e+01 1amk c.1.1.1 28441 1sw3A 248 2.38e+01 c.1.1.1 106065 1sq7A 247 2.40e+01 c.1.1.1 105886 1sw0A 248 2.41e+01 c.1.1.1 106060 1su5A 247 2.45e+01 c.1.1.1 106020 1t83C 176 2.94e+01 b.1.1.4,b.1.1.4 106647,106648 1timA 247 3.08e+01 1amk c.1.1.1 28453 1fcyA 236 3.21e+01 2lbd a.123.1.1 19282 1fd0A 235 3.21e+01 a.123.1.1 76164 1lxjA 104 3.23e+01 d.58.48.1 84736 1e4jA 176 3.24e+01 2fcbA b.1.1.4,b.1.1.4 21785,21786 1bq6A 388 3.29e+01 1bi5A c.95.1.2,c.95.1.2 35987,35988 1bi5A 389 3.29e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1fnlA 175 3.36e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1cmlA 389 3.36e+01 1bi5A c.95.1.2,c.95.1.2 35989,35990 1exaA 246 3.42e+01 2lbd a.123.1.1 19285 2lbd 267 3.44e+01 2lbd a.123.1.1 19287 2czgA 433 3.48e+01 1j88A 172 3.51e+01 2fcbA b.1.1.4,b.1.1.4 62717,62718 1j87A 172 3.52e+01 2fcbA b.1.1.4,b.1.1.4 62715,62716 1jwxA 389 3.54e+01 c.95.1.2,c.95.1.2 71920,71921 1f2qA 176 3.58e+01 2fcbA b.1.1.4,b.1.1.4 21789,21790 1chwA 389 3.62e+01 1bi5A c.95.1.2,c.95.1.2 35997,35998 1zorA 399 3.62e+01 1wsuA 124 3.80e+01 1tvmA 113 3.89e+01 1wzyA 368 3.97e+01 1vj2A 126 4.10e+01 b.82.1.10 100796 1d6iA 388 4.15e+01 1bi5A c.95.1.2,c.95.1.2 36001,36002 1f6aA 176 4.38e+01 2fcbA b.1.1.4,b.1.1.4 21791,21792 2fu0A 160 4.44e+01 1wd8A 670 4.55e+01 b.2.9.1,b.6.1.6,d.126.1.5 109237,109238,109239 1wdaA 670 4.56e+01 b.2.9.1,b.6.1.6,d.126.1.5 109243,109244,109245 2dexX 671 4.56e+01 1uj2A 252 4.58e+01 c.37.1.6 99452 1of5B 184 4.60e+01 d.17.4.2 86934 1lp3A 519 4.89e+01 b.121.5.2 74169 1svuA 327 4.93e+01 c.66.1.26 106052 1x4aA 109 4.93e+01 1xapA 267 5.06e+01 1xrjA 261 5.18e+01 2f51A 118 5.24e+01 1xdkB 303 5.40e+01 1vne 609 5.44e+01 1vns a.111.1.3 19063 2c7pA 327 5.55e+01 1qexA 288 5.62e+01 1qexA b.32.1.1 24425 1vng 609 5.76e+01 1vns a.111.1.3 19066 1vnf 609 5.77e+01 1vns a.111.1.3 19067 1vns 609 5.78e+01 1vns a.111.1.3 19061 1g3qA 237 5.97e+01 1hyqA c.37.1.10 60237 1m54A 363 6.04e+01 c.79.1.1 74463 1w1wA 430 6.05e+01 1iduA 609 6.07e+01 1vns a.111.1.3 62303 2fc1A 361 6.11e+01 1dm5A 315 6.27e+01 1avc a.65.1.1 18186 1nwyT 237 6.40e+01 i.1.1.2 86364 1i86A 389 6.49e+01 c.95.1.2,c.95.1.2 66068,66069 1u0vA 393 6.57e+01 1jbqA 435 6.59e+01 1oasA c.79.1.1 62850 1yl3V 253 6.60e+01 1ogyB 130 6.63e+01 a.138.1.3 92954 2cqcA 95 6.68e+01 1aeiA 315 6.80e+01 1avc a.65.1.1 18180 1d02A 202 6.86e+01 1d02A c.52.1.8 33313 1dkfB 235 6.87e+01 2lbd a.123.1.1 19281 1d6hA 387 6.92e+01 1bi5A c.95.1.2,c.95.1.2 36005,36006 1lvaA 258 6.94e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 2c7rA 327 7.18e+01 1szqA 483 7.61e+01 e.44.1.1 99045 1oc9A 152 7.82e+01 c.47.1.10 86797 2es9A 115 8.04e+01 1hkfA 122 8.42e+01 b.1.1.1 83553 1zud1 251 8.68e+01 1zfnA 253 8.73e+01 1fg4A 149 8.75e+01 1ewxA c.47.1.10 59814 1o6jA 150 8.75e+01 c.47.1.10 81089 1cc1L 498 8.75e+01 1h2rL e.18.1.1 43301 1o81A 152 8.76e+01 c.47.1.10 81175 1aoxA 203 8.85e+01 1aoxA c.62.1.1 34151 1pmr 80 8.89e+01 1ghj b.84.1.1 28233 1lk5A 229 8.91e+01 c.124.1.4,d.58.40.1 73960,73961