# List of top-scoring protein chains for T0299.t04-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 1n71A 180 1.65e+00 d.108.1.1 85370 1b87A 181 1.67e+00 1b87A d.108.1.1 40797 2a4nA 182 1.68e+00 1ufrA 181 3.09e+00 c.61.1.1 99354 1rcuA 195 3.67e+00 c.129.1.1 97295 1zbrA 349 5.97e+00 1e6iA 121 6.53e+00 1b91A a.29.2.1 16969 1zghA 260 7.98e+00 1i8fA 81 1.13e+01 1i8fA b.38.1.1 61959 1y6jA 318 1.19e+01 1iwmA 186 1.40e+01 b.125.1.2 83758 1xfiA 367 1.52e+01 e.50.1.1 109584 1orvA 728 1.59e+01 b.70.3.1,c.69.1.24 87354,87355 1j2rA 199 1.62e+01 c.33.1.3 90788 2f1dA 207 1.78e+01 1p8dA 250 1.80e+01 a.123.1.1 87941 1pq9A 253 1.80e+01 a.123.1.1 95004 1upvA 257 1.81e+01 1i8tA 367 2.05e+01 c.4.1.3,d.16.1.7 66094,66095 1z9uA 179 2.08e+01 1s7kA 182 2.12e+01 2cg4A 152 2.22e+01 2abk 211 2.34e+01 2abk a.96.1.1 18743 1uarA 285 2.34e+01 c.46.1.2,c.46.1.2 107762,107763 1s7fA 199 2.35e+01 1liyA 528 2.46e+01 b.58.1.1,c.1.12.1,c.49.1.1 78006,78007,78008 1liuA 528 2.47e+01 b.58.1.1,c.1.12.1,c.49.1.1 77970,77971,77972 1liwA 528 2.48e+01 b.58.1.1,c.1.12.1,c.49.1.1 77982,77983,77984 1aj8A 371 2.49e+01 1aj8A a.103.1.1 18900 1a3c 181 2.52e+01 1a3c c.61.1.1 34095 1lixA 528 2.53e+01 b.58.1.1,c.1.12.1,c.49.1.1 77994,77995,77996 1e0jA 289 2.60e+01 1cr1A c.37.1.11 32290 1cr1A 296 2.64e+01 1cr1A c.37.1.11 32286 1eqcA 394 2.93e+01 1cz1A c.1.8.3 28811 1eqpA 394 2.95e+01 1cz1A c.1.8.3 28812 1v73A 342 3.04e+01 1fo5A 85 3.08e+01 1fo5A c.47.1.1 59922 2g6tA 306 3.22e+01 2a74A 643 3.36e+01 1z0hA 438 3.37e+01 1j05A 111 3.57e+01 b.1.1.1 90735 2arhA 203 3.58e+01 2btwB 254 3.65e+01 2bu3A 254 3.75e+01 1tu2B 254 3.90e+01 1yv9A 264 3.92e+01 1bqcA 302 4.05e+01 1bqcA c.1.8.3 28831 1kooA 277 4.16e+01 c.10.2.3,d.58.7.2 68726,68727 1d3bB 91 4.19e+01 1d3bB b.38.1.1 24804 1i4k1 77 4.25e+01 1i8fA 1moeA 240 4.33e+01 b.1.1.1,b.1.1.1 85030,85031 1gz3A 554 4.64e+01 c.2.1.7,c.58.1.3 83393,83394 1s4vA 229 4.76e+01 d.3.1.1 98511 1gzqA 300 4.86e+01 b.1.1.2,d.19.1.1 70818,70819 1rf8A 213 4.98e+01 d.86.1.1 97370 1qycA 308 5.01e+01 c.2.1.2 96581 2bvfA 459 5.01e+01 1z5nA 242 5.37e+01 1wyjA 125 5.44e+01 3bifA 468 5.73e+01 1bif c.37.1.7,c.60.1.4 31962,34008 1bif 469 5.73e+01 1bif c.37.1.7,c.60.1.4 31961,34003 2bifA 469 5.76e+01 1bif c.37.1.7,c.60.1.4 31963,34009 1vcsA 102 5.77e+01 1k6mA 432 5.85e+01 c.37.1.7,c.60.1.4 77275,77276 1mozA 183 5.85e+01 c.37.1.8 79368 1a0i 348 5.92e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1v25A 541 6.09e+01 e.23.1.1 108275 2f20A 240 6.10e+01 2c0nA 203 6.14e+01 1fp1D 372 6.37e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 2f9sA 151 6.68e+01 1fbtA 190 6.75e+01 1bif c.60.1.4 34004 1c80A 191 6.76e+01 c.60.1.4 83162 2bwjA 199 6.80e+01 2av4A 160 6.81e+01 1qapA 296 6.86e+01 1qpoA c.1.17.1,d.41.2.1 29559,38595 1jv2A 957 6.90e+01 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 1kohA 277 7.03e+01 c.10.2.3,d.58.7.2 68719,68720 1k68A 140 7.37e+01 c.23.1.1 90943 1yb5A 351 7.45e+01 1z9vA 121 7.51e+01 1gz4A 551 7.68e+01 c.2.1.7,c.58.1.3 70794,70795 1w68A 390 7.71e+01 a.25.1.2 109216 1b2pA 119 7.76e+01 1b2pA b.78.1.1 27998 1vbgA 876 7.87e+01 1cqmA 101 7.89e+01 1ris d.58.14.1 39321 2b1eA 564 7.90e+01 2b7mA 566 7.92e+01 1pj3A 564 7.96e+01 c.2.1.7,c.58.1.3 94726,94727 1eqfA 280 7.96e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 2b82A 211 7.99e+01 1ap8 213 8.02e+01 1ap8 d.86.1.1 40151 1czkA 169 8.07e+01 1rcf c.23.5.1 31186 1rmtA 212 8.08e+01 1qy9A 297 8.12e+01 d.21.1.2,d.21.1.2 104645,104646 1zblA 139 8.21e+01 1qr6A 584 8.32e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1v5lA 103 8.32e+01 b.36.1.1 108378 2g8iA 142 8.32e+01 1st9A 143 8.33e+01 c.47.1.10 98987 2g8fA 142 8.35e+01 2c4wA 176 8.44e+01 1tk3A 728 8.44e+01 b.70.3.1,c.69.1.24 107069,107070 1x70A 728 8.48e+01 1sdjA 310 8.50e+01 d.21.1.2,d.21.1.2 98807,98808 1jysA 242 8.52e+01 c.56.2.1 77216 1r9mA 733 8.54e+01 b.70.3.1,c.69.1.24 104870,104871 1pfqA 731 8.55e+01 b.70.3.1,c.69.1.24 88061,88062 1qyaA 307 8.57e+01 d.21.1.2,d.21.1.2 104653,104654 1r9nA 739 8.58e+01 2aclB 244 8.69e+01 1wcyA 740 8.70e+01 2bgrA 738 8.75e+01 1otjA 283 8.76e+01 b.82.2.5 93517 2a98A 259 8.77e+01 1qfwL 114 8.84e+01 1tvdA b.1.1.1 20434