# List of top-scoring protein chains for T0301.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 1ygs 234 1.38e+00 1ygs b.26.1.1 23907 1mr1A 235 1.39e+00 b.26.1.1 79418 1u7vB 236 1.39e+00 b.26.1.1 107730 1u7fB 239 1.41e+00 b.26.1.1 107721 1g88A 268 1.46e+00 1ygs b.26.1.1 23911 1dd1A 268 1.48e+00 b.26.1.1 23908 2b3nA 159 2.16e+00 1tm0A 350 3.54e+00 d.21.1.3 107147 1lm6A 215 3.98e+00 d.167.1.1 84628 1ewrA 649 4.24e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1 19073,32387,33744 1ewqA 765 4.44e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1fw6A 768 4.46e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19071,32385,33742,39745 2aiaA 203 5.31e+00 2aieP 203 5.38e+00 1ioiA 208 6.53e+00 1a2zA c.56.4.1 62629 1iofA 208 7.00e+00 1a2zA c.56.4.1 62625 2gkeA 274 7.95e+00 2deoA 230 8.00e+00 1shzC 233 8.41e+00 1hl9A 449 8.44e+00 b.71.1.3,c.1.8.11 90650,90651 1bwzA 274 9.87e+00 1bwzA d.21.1.1,d.21.1.1 38337,38338 1b1cA 181 1.03e+01 1amoA c.23.5.2 31212 1kkoA 413 1.08e+01 c.1.11.2,d.54.1.1 68675,68676 1o0pA 104 1.15e+01 d.58.7.1 86535 1o9jA 501 1.46e+01 c.82.1.1 86694 1wchA 315 1.48e+01 2fug3 783 1.54e+01 1re5A 450 1.54e+01 a.127.1.1 104911 1jscA 630 1.93e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 1t9bA 677 2.05e+01 1f5vA 240 2.13e+01 1bkjA d.90.1.1 40255 1djuA 388 2.16e+01 1bjwA c.67.1.1 59116 1gdeA 389 2.16e+01 c.67.1.1 60456 2b94A 267 2.44e+01 2b1xA 470 2.60e+01 1gc9A 345 2.62e+01 1cnzA c.77.1.1 35037 1uf2K 506 2.62e+01 1yeeL 219 2.63e+01 32c2A b.1.1.1,b.1.1.2 20156,21186 1yejL 219 2.82e+01 8fabA b.1.1.1,b.1.1.2 20140,21170 1yedA 219 2.84e+01 32c2A b.1.1.1,b.1.1.2 20150,21180 1k6nL 281 2.88e+01 f.26.1.1 72090 2ftsA 419 2.91e+01 1t3eA 421 2.91e+01 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 1jh0L 281 3.14e+01 f.26.1.1 63036 1ksr 100 3.29e+01 1qfhA b.1.18.10 21897 1o0sA 605 3.41e+01 c.2.1.7,c.58.1.3 86540,86541 2biwA 490 3.53e+01 1ci0A 228 3.80e+01 1ci0A b.45.1.1 25750 1ho3A 326 3.90e+01 4pgaA c.88.1.1 61101 1jazA 326 3.91e+01 c.88.1.1 90883 1rzhL 281 3.92e+01 f.26.1.1 98164 1nnsA 326 3.95e+01 c.88.1.1 85910 4ecaA 326 4.00e+01 4pgaA c.88.1.1 35550 2a5vA 213 4.00e+01 1ym3A 215 4.02e+01 1ystL 273 4.04e+01 6prcL f.26.1.1 43509 1v1cA 71 4.26e+01 1h2hA 241 4.40e+01 d.81.1.3,c.2.1.3 70861,83058 1d4dA 572 4.43e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19702,30439,42322 1cm0A 168 4.48e+01 1yghA d.108.1.1 40800 1fnqL 281 4.53e+01 6prcL f.26.1.1 59918 1qovL 281 4.55e+01 6prcL f.26.1.1 43455 1y8xA 160 4.62e+01 1yecL 219 4.65e+01 8fabA b.1.1.1,b.1.1.2 20144,21174 1yf6L 281 4.72e+01 1pprM 312 4.86e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 2gsq 202 4.96e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1z9jA 281 4.98e+01 1lmhA 184 5.00e+01 d.167.1.1 74036 2a8nA 144 5.01e+01 1kxjA 205 5.02e+01 c.23.16.1 73153 2b5oA 402 5.09e+01 1vhxA 150 5.13e+01 c.55.3.8 100712 2c1pA 218 5.15e+01 1souA 194 5.18e+01 c.124.1.6 105858 1d4cA 572 5.21e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19698,30435,42318 1xi6A 262 5.22e+01 1lqwA 183 5.25e+01 d.167.1.1 74210 1rybA 212 5.28e+01 c.56.3.1 98098 1q1yA 191 5.42e+01 d.167.1.1 104480 1k9vF 201 5.50e+01 c.23.16.1 68365 1j5pA 253 5.52e+01 d.81.1.3,c.2.1.3 71577,83092 1esxA 96 5.68e+01 1esxA j.11.1.1 59501 1pgjA 478 5.69e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 2c1oA 254 5.70e+01 1n1jB 97 6.08e+01 a.22.1.3 79814 2gjgA 248 6.13e+01 1f6nL 281 6.15e+01 6prcL f.26.1.1 59660 1lm4A 194 6.21e+01 d.167.1.1 84626 1miqA 375 6.33e+01 b.50.1.2 79151 1jryA 571 6.34e+01 a.138.1.3,c.3.1.4,d.168.1.1 67199,67200,67201 4ubpC 570 6.48e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1ie7C 570 6.53e+01 1ubpC b.92.1.1,c.1.9.2 62315,62316 1fnpL 281 6.55e+01 6prcL f.26.1.1 59914 1gynA 358 6.57e+01 c.1.10.2 83385 1vhzA 198 6.68e+01 d.113.1.1 100718 1sq6A 253 6.71e+01 c.56.2.1 98964 1kssA 571 6.85e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1y0pA 571 6.86e+01 1p8aA 146 6.87e+01 c.44.1.1 104084 1ksuA 571 6.88e+01 a.138.1.3,c.3.1.4,d.168.1.1 72931,72932,72933 2bsxA 253 6.97e+01 1b4rA 80 7.12e+01 1b4rA b.1.3.1 22072 1sxjA 516 7.20e+01 a.80.1.1,c.37.1.20 106081,106082 1w85B 324 7.24e+01 1q1gA 276 7.31e+01 c.56.2.1 95574 1p2hA 571 7.38e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1jrzA 571 7.45e+01 a.138.1.3,c.3.1.4,d.168.1.1 67205,67206,67207 1zivA 339 7.48e+01 2bvbA 137 7.54e+01 2aw4I 141 7.74e+01 1j3jA 280 7.75e+01 c.71.1.1 84066 1moq 368 7.86e+01 1moq c.80.1.1 35302 1lqyA 184 7.89e+01 d.167.1.1 74212 1w78A 422 7.92e+01 1qi1A 475 7.95e+01 1euhA c.82.1.1 35381 1jrxA 571 8.09e+01 a.138.1.3,c.3.1.4,d.168.1.1 67193,67194,67195 2a1wL 216 8.25e+01 2ai0L 217 8.26e+01 1euhA 475 8.32e+01 1euhA c.82.1.1 35369 1zccA 248 8.40e+01 1dykA 394 8.44e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1q9iA 571 8.52e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1tqbC 219 8.60e+01 b.1.1.1,b.1.1.2 107215,107216 2cqoA 119 8.65e+01 1xt8A 292 8.65e+01 1l7tL 219 8.66e+01 b.1.1.1,b.1.1.2 77801,77802 2a5lA 200 8.67e+01 2a77L 216 8.67e+01 1j3iA 280 8.68e+01 c.71.1.1 84062 1c7qA 445 8.76e+01 2pgi c.80.1.2 35307 1zwkA 207 8.80e+01 1mkiA 330 9.00e+01 e.3.1.2 84994