# 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 1uf2K 506 5.65e-01 1z8wA 208 9.15e-01 1z8tA 208 9.19e-01 1z8xA 208 9.19e-01 1ioiA 208 9.20e-01 1a2zA c.56.4.1 62629 1x12A 208 9.21e-01 1x10A 208 9.23e-01 1iofA 208 9.99e-01 1a2zA c.56.4.1 62625 1ygs 234 2.25e+00 1ygs b.26.1.1 23907 1mr1A 235 2.26e+00 b.26.1.1 79418 1u7vB 236 2.33e+00 b.26.1.1 107730 1u7fB 239 2.37e+00 b.26.1.1 107721 1g88A 268 2.43e+00 1ygs b.26.1.1 23911 1dd1A 268 2.46e+00 b.26.1.1 23908 1tm0A 350 2.57e+00 d.21.1.3 107147 2b3nA 159 2.87e+00 1lm6A 215 3.33e+00 d.167.1.1 84628 1kkoA 413 3.34e+00 c.1.11.2,d.54.1.1 68675,68676 2aiaA 203 4.97e+00 2aieP 203 5.10e+00 1ewrA 649 5.11e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1 19073,32387,33744 1ewqA 765 5.42e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1fw6A 768 5.46e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19071,32385,33742,39745 2deoA 230 7.23e+00 1shzC 233 7.28e+00 2gkeA 274 8.57e+00 1xi6A 262 9.21e+00 1hl9A 449 9.56e+00 b.71.1.3,c.1.8.11 90650,90651 1bwzA 274 1.08e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1wchA 315 1.16e+01 1b1cA 181 1.24e+01 1amoA c.23.5.2 31212 1o9jA 501 1.31e+01 c.82.1.1 86694 2fug3 783 1.43e+01 1re5A 450 1.53e+01 a.127.1.1 104911 1o0pA 104 1.58e+01 d.58.7.1 86535 1jscA 630 1.99e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 1djuA 388 2.02e+01 1bjwA c.67.1.1 59116 1gdeA 389 2.02e+01 c.67.1.1 60456 1t9bA 677 2.11e+01 1gc9A 345 2.33e+01 1cnzA c.77.1.1 35037 1ci0A 228 2.39e+01 1ci0A b.45.1.1 25750 2b94A 267 2.40e+01 2ftsA 419 2.49e+01 1t3eA 421 2.49e+01 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 2b1xA 470 2.73e+01 1pgjA 478 2.76e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 2a5vA 213 2.76e+01 1ym3A 215 2.77e+01 1vhxA 150 2.84e+01 c.55.3.8 100712 1f5vA 240 2.86e+01 1bkjA d.90.1.1 40255 2biwA 490 3.05e+01 1yeeL 219 3.24e+01 32c2A b.1.1.1,b.1.1.2 20156,21186 1o0sA 605 3.38e+01 c.2.1.7,c.58.1.3 86540,86541 1yejL 219 3.41e+01 8fabA b.1.1.1,b.1.1.2 20140,21170 1xhkA 187 3.61e+01 1yedA 219 3.70e+01 32c2A b.1.1.1,b.1.1.2 20150,21180 2gsq 202 3.76e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1n1jB 97 3.88e+01 a.22.1.3 79814 1y8xA 160 4.05e+01 2cb5A 453 4.29e+01 3gcb d.3.1.1 37035 1gynA 358 4.54e+01 c.1.10.2 83385 1k6nL 281 4.64e+01 f.26.1.1 72090 1d4dA 572 4.67e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19702,30439,42322 1kxjA 205 4.77e+01 c.23.16.1 73153 1sxjA 516 4.80e+01 a.80.1.1,c.37.1.20 106081,106082 1jh0L 281 4.91e+01 f.26.1.1 63036 1rybA 212 4.96e+01 c.56.3.1 98098 1pprM 312 5.00e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1k9vF 201 5.04e+01 c.23.16.1 68365 1lmhA 184 5.05e+01 d.167.1.1 74036 1souA 194 5.31e+01 c.124.1.6 105858 1dj3A 442 5.33e+01 1adeA c.37.1.10 32239 1h2hA 241 5.35e+01 d.81.1.3,c.2.1.3 70861,83058 1lqwA 183 5.37e+01 d.167.1.1 74210 1q1yA 191 5.54e+01 d.167.1.1 104480 1d4cA 572 5.54e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19698,30435,42318 2gjgA 248 5.56e+01 1yecL 219 5.65e+01 8fabA b.1.1.1,b.1.1.2 20144,21174 1cb5A 453 5.66e+01 3gcb d.3.1.1 37037 2a8nA 144 5.67e+01 1mxsA 225 5.70e+01 c.1.10.1 91494 2c1pA 218 5.72e+01 1cm0A 168 5.81e+01 1yghA d.108.1.1 40800 1esxA 96 6.07e+01 1esxA j.11.1.1 59501 2bm5A 186 6.11e+01 1oe4A 247 6.13e+01 c.18.1.3 86895 1ksr 100 6.31e+01 1qfhA b.1.18.10 21897 1jazA 326 6.31e+01 c.88.1.1 90883 1ho3A 326 6.33e+01 4pgaA c.88.1.1 61101 1zccA 248 6.34e+01 1lm4A 194 6.37e+01 d.167.1.1 84626 1nnsA 326 6.40e+01 c.88.1.1 85910 1lqyA 184 6.42e+01 d.167.1.1 74212 4ecaA 326 6.43e+01 4pgaA c.88.1.1 35550 2c1oA 254 6.45e+01 1udeA 195 6.54e+01 b.40.5.1 99208 1j5pA 253 6.56e+01 d.81.1.3,c.2.1.3 71577,83092 1vhzA 198 6.93e+01 d.113.1.1 100718 1unfX 238 7.00e+01 4ubpC 570 7.05e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1ie7C 570 7.06e+01 1ubpC b.92.1.1,c.1.9.2 62315,62316 1rzhL 281 7.21e+01 f.26.1.1 98164 1j3jA 280 7.21e+01 c.71.1.1 84066 2g23A 612 7.47e+01 1ystL 273 7.59e+01 6prcL f.26.1.1 43509 1p8aA 146 7.95e+01 c.44.1.1 104084 1ef8A 261 7.98e+01 1ef8A c.14.1.3 30921 1j3iA 280 7.99e+01 c.71.1.1 84062 1jryA 571 8.03e+01 a.138.1.3,c.3.1.4,d.168.1.1 67199,67200,67201 1miqA 375 8.04e+01 b.50.1.2 79151 1sq6A 253 8.23e+01 c.56.2.1 98964 1itwA 741 8.31e+01 c.77.1.2 76793 2bsxA 253 8.43e+01 1mkiA 330 8.60e+01 e.3.1.2 84994 2f4lA 297 8.61e+01 1v1cA 71 8.64e+01 1kssA 571 8.68e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1qovL 281 8.68e+01 6prcL f.26.1.1 43455 1fnqL 281 8.69e+01 6prcL f.26.1.1 59918 1y0pA 571 8.71e+01 1ksuA 571 8.73e+01 a.138.1.3,c.3.1.4,d.168.1.1 72931,72932,72933 1q1gA 276 8.76e+01 c.56.2.1 95574 2d85A 124 8.78e+01 2a5lA 200 8.86e+01 1xad 345 8.96e+01 1cnzA c.77.1.1 35055 1zwkA 207 9.00e+01