# List of top-scoring protein chains for T0226.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 1dabA 539 4.89e-02 1dabA b.80.1.7 28049 1ny6A 267 7.85e-01 c.37.1.20 -7221 1fvgA 199 8.32e-01 1fvaA d.58.28.1 39408 1fvaA 217 9.08e-01 1fvaA d.58.28.1 39409 1ny5A 387 1.19e+00 c.23.1.1 -6419 c.37.1.20 -7219 1o6yA 299 2.85e+00 d.144.1.7 81106 1twdA 256 4.25e+00 1agi 125 4.94e+00 7rsa d.5.1.1 37303 1s4vA 229 5.36e+00 d.3.1.1 -8875 1mruA 311 5.48e+00 d.144.1.7 79425 1m6dA 214 5.92e+00 d.3.1.1 84849 1ow0A 214 6.86e+00 b.1.1.2 87477 b.1.1.2 87478 1jj2L 194 8.16e+00 1ffkI d.12.1.2 63097 1dqvA 296 1.00e+01 1rsy b.7.1.2 23194 b.7.1.2 23195 1lknA 89 1.00e+01 b.82.1.8 84624 1nfjA 89 1.07e+01 d.68.6.1 -10285 1o5uA 101 1.09e+01 b.82.1.8 -4845 1khqA 212 1.23e+01 d.3.1.1 -8868 1gqrA 532 1.25e+01 c.69.1.1 70374 2dfpA 534 1.26e+01 2bce c.69.1.1 34597 1eeaA 534 1.26e+01 2bce c.69.1.1 34609 1acj 537 1.26e+01 2bce c.69.1.1 34588 1ea5A 537 1.26e+01 2bce c.69.1.1 34592 1e66A 543 1.29e+01 c.69.1.1 59291 9pap 212 1.36e+01 1cs8A d.3.1.1 37006 1qtwA 285 1.38e+01 1qumA c.1.15.1 29392 1culA 217 1.44e+01 1azsA d.58.29.1 39417 1azsA 220 1.44e+01 1azsA d.58.29.1 39416 1f9zA 135 1.44e+01 1qipA d.32.1.1 38484 1cs4A 225 1.46e+01 1azsA d.58.29.1 39418 1ru8A 232 1.48e+01 c.26.2.1 -6635 1bev1 281 1.61e+01 1aym1 1o7dE 126 1.65e+01 1kyzA 365 1.74e+01 a.4.5.29 73312 c.66.1.12 73313 1ef7A 242 1.77e+01 1theB d.3.1.1 37087 1jswA 478 1.85e+01 1furA a.127.1.1 19399 1flzA 228 1.86e+01 3eugA c.18.1.1 31027 2uugA 229 1.86e+01 3eugA c.18.1.1 31025 3eugA 229 1.86e+01 3eugA c.18.1.1 31018 1eugA 229 1.87e+01 3eugA c.18.1.1 31021 1euiA 228 1.87e+01 3eugA c.18.1.1 31028 2sas 185 1.87e+01 2sas a.39.1.5 17258 1uugA 229 1.88e+01 3eugA c.18.1.1 31023 4eugA 229 1.89e+01 3eugA c.18.1.1 31019 1kxe 159 1.93e+01 1svpA b.47.1.3 26393 1deuA 277 2.01e+01 1theB d.3.1.1 37085 1cgjI 56 2.01e+01 2ovo unknown_sccs 44705 2snv 151 2.07e+01 1svpA b.47.1.3 26394 1wykA 153 2.13e+01 1svpA b.47.1.3 26386 1yal 218 2.20e+01 1cs8A d.3.1.1 37025 1wkt 88 2.34e+01 1wkt b.11.1.2 23630 1h8dH 260 2.37e+01 5ptp 1mqtA 283 2.42e+01 b.121.4.1 -3001 2snwA 158 2.49e+01 1svpA b.47.1.3 26381 1kxa 159 2.54e+01 1svpA b.47.1.3 26383 1kxc 159 2.59e+01 1svpA b.47.1.3 26391 1i4uA 181 2.61e+01 b.60.1.1 61732 1v5xA 203 2.74e+01 c.1.2.4 -5169 1okbA 223 2.77e+01 c.18.1.1 -6324 1d2tA 231 2.88e+01 1d2tA a.111.1.1 19052 1cuf 214 2.89e+01 1cex unknown_sccs 31301 1nbwB 117 2.91e+01 c.51.3.2 80396 1svpA 161 3.00e+01 1svpA b.47.1.3 26384 1kxb 159 3.03e+01 1svpA b.47.1.3 26390 1j3qA 190 3.05e+01 b.82.1.7 -4841 1poiA 317 3.10e+01 1poiA unknown_sccs 34153 1broA 277 3.20e+01 1brt c.69.1.12 34700 1a8uA 277 3.25e+01 1brt c.69.1.12 34703 1ep5A 157 3.29e+01 b.47.1.3 83186 1mzjA 339 3.31e+01 c.95.1.1 79700 c.95.1.1 79701 1j2qH 202 3.42e+01 d.153.1.4 84036 1cov1 281 3.46e+01 1pov1 1akz 223 3.48e+01 3eugA c.18.1.1 31007 1mj0A 166 3.48e+01 k.37.1.1 79174 1se0A 116 3.48e+01 g.52.1.1 -12841 1eah2 271 3.49e+01 1aym2 1iuhA 198 3.53e+01 d.61.1.2 83711 1i38A 260 3.55e+01 1a28A a.123.1.1 61584 1i37A 260 3.56e+01 1a28A a.123.1.1 61583 1e3gA 263 3.61e+01 1a28A a.123.1.1 59192 1j27A 102 3.70e+01 unknown_sccs -10116 1j0wA 103 3.72e+01 b.55.1.2 -4364 1nmeA 146 3.87e+01 c.17.1.1 85874 1csbB 205 3.89e+01 1theB 1rhjA 147 3.93e+01 c.17.1.1 -7916 1pqzA 238 3.95e+01 8pchA 220 3.98e+01 1cs8A