# List of top-scoring protein chains for T0301.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 2b3nA 159 6.41e-01 1b1cA 181 2.60e+00 1amoA c.23.5.2 31212 1ygs 234 4.49e+00 1ygs b.26.1.1 23907 1mr1A 235 4.52e+00 b.26.1.1 79418 1u7vB 236 4.64e+00 b.26.1.1 107730 1u7fB 239 4.72e+00 b.26.1.1 107721 1tm0A 350 4.76e+00 d.21.1.3 107147 1g88A 268 4.93e+00 1ygs b.26.1.1 23911 1dd1A 268 5.11e+00 b.26.1.1 23908 1re5A 450 6.37e+00 a.127.1.1 104911 2fug3 783 7.19e+00 1shzC 233 7.20e+00 1wchA 315 7.62e+00 2ftsA 419 7.83e+00 1t3eA 421 7.85e+00 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 2gkeA 274 8.38e+00 2deoA 230 9.01e+00 1ja1A 622 9.82e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1amoA 615 9.89e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 25669,31210,31557 1j9zA 622 9.89e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62792,62793,62794 1ja0A 620 9.89e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62798,62799,62800 1yeeL 219 9.91e+00 32c2A b.1.1.1,b.1.1.2 20156,21186 1o9jA 501 1.03e+01 c.82.1.1 86694 1bwzA 274 1.07e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1yejL 219 1.16e+01 8fabA b.1.1.1,b.1.1.2 20140,21170 1yedA 219 1.18e+01 32c2A b.1.1.1,b.1.1.2 20150,21180 1ewrA 649 1.18e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1 19073,32387,33744 1ewqA 765 1.23e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1fw6A 768 1.23e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19071,32385,33742,39745 1b1xA 689 1.37e+01 1cb6A c.94.1.2,c.94.1.2 35865,35866 1f9bA 695 1.38e+01 1cb6A c.94.1.2,c.94.1.2 35869,35870 1zo1I 501 1.49e+01 1jazA 326 1.51e+01 c.88.1.1 90883 1ho3A 326 1.52e+01 4pgaA c.88.1.1 61101 1nnsA 326 1.54e+01 c.88.1.1 85910 1moq 368 1.54e+01 1moq c.80.1.1 35302 4ecaA 326 1.58e+01 4pgaA c.88.1.1 35550 1lm6A 215 1.92e+01 d.167.1.1 84628 1yecL 219 1.95e+01 8fabA b.1.1.1,b.1.1.2 20144,21174 1o0pA 104 1.98e+01 d.58.7.1 86535 1c7qA 445 2.06e+01 2pgi c.80.1.2 35307 2a5vA 213 2.07e+01 1ym3A 215 2.09e+01 1mxmA 254 2.17e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 2c1pA 218 2.30e+01 1ioiA 208 2.37e+01 1a2zA c.56.4.1 62629 2f3oA 776 2.40e+01 1n1jB 97 2.41e+01 a.22.1.3 79814 1iofA 208 2.41e+01 1a2zA c.56.4.1 62625 1d4dA 572 2.49e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19702,30439,42322 2bplA 608 2.63e+01 2aiaA 203 2.66e+01 2c1oA 254 2.67e+01 2bpjA 608 2.68e+01 2aieP 203 2.74e+01 2biwA 490 2.82e+01 1viuA 203 2.86e+01 d.113.1.1 100771 2a8nA 144 2.98e+01 1d4cA 572 3.08e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19698,30435,42318 2gsq 202 3.14e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1uf2K 506 3.15e+01 1prxA 224 3.30e+01 1prxA c.47.1.10 33076 1kxjA 205 3.38e+01 c.23.16.1 73153 1w78A 422 3.54e+01 1k9vF 201 3.59e+01 c.23.16.1 68365 1nkpA 88 3.75e+01 a.38.1.1 80573 2b94A 267 3.81e+01 1ci0A 228 3.98e+01 1ci0A b.45.1.1 25750 1cauB 184 4.06e+01 1caxB b.82.1.2 28103 1xttA 216 4.25e+01 1xhkA 187 4.25e+01 1tqbC 219 4.34e+01 b.1.1.1,b.1.1.2 107215,107216 1b4rA 80 4.36e+01 1b4rA b.1.3.1 22072 1pprM 312 4.49e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1f5vA 240 4.56e+01 1bkjA d.90.1.1 40255 1q90M 39 4.81e+01 f.23.25.1 96246 1seiA 130 4.85e+01 1seiA d.140.1.1 41463 1ncwL 219 4.91e+01 b.1.1.1,b.1.1.2 85557,85558 1rumL 219 4.94e+01 b.1.1.1,b.1.1.2 97869,97870 1cr9L 219 5.28e+01 8fabA b.1.1.1,b.1.1.2 20430,21400 1nldL 219 5.37e+01 8fabA b.1.1.1,b.1.1.2 20110,21140 1plgL 215 5.56e+01 8fabA b.1.1.1,b.1.1.2 20080,21112 1l7tL 219 5.56e+01 b.1.1.1,b.1.1.2 77801,77802 1souA 194 5.57e+01 c.124.1.6 105858 1tetL 216 5.67e+01 32c2A b.1.1.1,b.1.1.2 19902,20996 1zeaL 216 5.71e+01 1gc9A 345 5.75e+01 1cnzA c.77.1.1 35037 1zivA 339 5.78e+01 4ubpC 570 5.81e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1ie7C 570 5.89e+01 1ubpC b.92.1.1,c.1.9.2 62315,62316 1rlgA 119 5.98e+01 d.79.3.1 104981 1hl9A 449 6.02e+01 b.71.1.3,c.1.8.11 90650,90651 1ikfL 214 6.03e+01 32c2A b.1.1.1,b.1.1.2 20032,21086 1f8tL 219 6.03e+01 32c2A b.1.1.1,b.1.1.2 59707,59708 1mr4A 47 6.31e+01 g.3.7.5 91429 1cm0A 168 6.49e+01 1yghA d.108.1.1 40800 1mjtA 347 6.66e+01 d.174.1.1 79212 1ub6B 213 6.68e+01 b.1.1.1,b.1.1.2 99153,99154 1fl3B 214 6.69e+01 32c2A b.1.1.1,b.1.1.2 20487,21451 1pgjA 478 6.73e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 2bsxA 253 6.73e+01 1wjoA 124 6.77e+01 1q1gA 276 6.86e+01 c.56.2.1 95574 2a1wL 216 6.91e+01 2ai0L 217 6.92e+01 1oe4A 247 6.94e+01 c.18.1.3 86895 1nksA 194 6.94e+01 1nksA c.37.1.1 31886 1k6nL 281 6.95e+01 f.26.1.1 72090 1sq6A 253 7.00e+01 c.56.2.1 98964 1v1cA 71 7.04e+01 1pfc 113 7.04e+01 1cqkA b.1.1.2 21546 2ajuL 216 7.04e+01 2b5oA 402 7.05e+01 1vqoF 120 7.17e+01 2a77L 216 7.23e+01 1v9cA 218 7.30e+01 c.23.17.1 100533 2d03L 217 7.34e+01 1fh5L 213 7.35e+01 32c2A b.1.1.1,b.1.1.2 20464,21428 1o8pA 151 7.45e+01 b.18.1.10 86668 1vhzA 198 7.48e+01 d.113.1.1 100718 1t2qL 217 7.61e+01 1ystL 273 7.74e+01 6prcL f.26.1.1 43509 1xi6A 262 7.84e+01 1xxiB 368 7.87e+01 1jr3A 373 7.92e+01 a.80.1.1,c.37.1.20 63245,63246 1nbvL 219 7.97e+01 8fabA b.1.1.1,b.1.1.2 19898,20992 1jh0L 281 7.98e+01 f.26.1.1 63036 1ji8A 111 7.98e+01 d.203.1.1 66733 1rzhL 281 8.01e+01 f.26.1.1 98164 1yoxA 250 8.11e+01 1njgA 250 8.13e+01 c.37.1.20 85785 1kvkA 395 8.18e+01 d.14.1.5,d.58.26.3 73060,73061 1q8fA 313 8.33e+01 c.70.1.1 96203 1rurL 217 8.37e+01 b.1.1.1,b.1.1.2 97881,97882 1miqA 375 8.39e+01 b.50.1.2 79151 1yioA 208 8.51e+01 1od3A 168 8.55e+01 b.18.1.10 86825 1qovL 281 8.56e+01 6prcL f.26.1.1 43455 1fnqL 281 8.56e+01 6prcL f.26.1.1 59918 4xiaA 393 8.59e+01 4xis c.1.15.3 29439 1yf6L 281 8.61e+01 1xlaA 394 8.77e+01 4xis c.1.15.3 29445 1wt1A 292 8.77e+01 1jscA 630 8.91e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 1wt3A 292 8.91e+01 1z9jA 281 8.98e+01