# List of top-scoring protein chains for T0301.t06-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 4.39e-01 1ioiA 208 7.66e-01 1a2zA c.56.4.1 62629 1iofA 208 8.15e-01 1a2zA c.56.4.1 62625 1ygs 234 1.59e+00 1ygs b.26.1.1 23907 1mr1A 235 1.59e+00 b.26.1.1 79418 1u7vB 236 1.59e+00 b.26.1.1 107730 1u7fB 239 1.63e+00 b.26.1.1 107721 1g88A 268 1.71e+00 1ygs b.26.1.1 23911 1dd1A 268 1.73e+00 b.26.1.1 23908 1lm6A 215 1.85e+00 d.167.1.1 84628 1ewrA 649 2.33e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1 19073,32387,33744 1ewqA 765 2.49e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1fw6A 768 2.49e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19071,32385,33742,39745 2aiaA 203 2.95e+00 2aieP 203 3.01e+00 1tm0A 350 3.63e+00 d.21.1.3 107147 1shzC 233 3.92e+00 2gkeA 274 4.86e+00 1kkoA 413 6.08e+00 c.1.11.2,d.54.1.1 68675,68676 1bwzA 274 6.13e+00 1bwzA d.21.1.1,d.21.1.1 38337,38338 1re5A 450 6.97e+00 a.127.1.1 104911 1o0pA 104 8.40e+00 d.58.7.1 86535 2fug3 783 8.69e+00 1wchA 315 8.82e+00 2deoA 230 1.12e+01 1hl9A 449 1.27e+01 b.71.1.3,c.1.8.11 90650,90651 1o0sA 605 1.27e+01 c.2.1.7,c.58.1.3 86540,86541 2biwA 490 1.55e+01 1b1cA 181 1.55e+01 1amoA c.23.5.2 31212 1o9jA 501 1.62e+01 c.82.1.1 86694 2ftsA 419 1.77e+01 1t3eA 421 1.78e+01 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 1djuA 388 1.93e+01 1bjwA c.67.1.1 59116 1gdeA 389 1.93e+01 c.67.1.1 60456 1uf2K 506 2.05e+01 1jscA 630 2.22e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 2a5vA 213 2.24e+01 1ym3A 215 2.25e+01 1y8xA 160 2.30e+01 1t9bA 677 2.35e+01 1xhkA 187 2.51e+01 1f5vA 240 2.51e+01 1bkjA d.90.1.1 40255 1jazA 326 2.58e+01 c.88.1.1 90883 1ho3A 326 2.59e+01 4pgaA c.88.1.1 61101 1nnsA 326 2.62e+01 c.88.1.1 85910 4ecaA 326 2.67e+01 4pgaA c.88.1.1 35550 1n1jB 97 2.71e+01 a.22.1.3 79814 1gc9A 345 2.76e+01 1cnzA c.77.1.1 35037 1yeeL 219 2.80e+01 32c2A b.1.1.1,b.1.1.2 20156,21186 2b94A 267 2.85e+01 2gsq 202 2.89e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1yejL 219 2.97e+01 8fabA b.1.1.1,b.1.1.2 20140,21170 1k6nL 281 3.00e+01 f.26.1.1 72090 1gynA 358 3.11e+01 c.1.10.2 83385 1yedA 219 3.12e+01 32c2A b.1.1.1,b.1.1.2 20150,21180 1jh0L 281 3.16e+01 f.26.1.1 63036 1kxjA 205 3.18e+01 c.23.16.1 73153 1pprM 312 3.41e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1zccA 248 3.42e+01 1k9vF 201 3.46e+01 c.23.16.1 68365 1itwA 741 3.65e+01 c.77.1.2 76793 1ksr 100 3.79e+01 1qfhA b.1.18.10 21897 1sxjA 516 3.80e+01 a.80.1.1,c.37.1.20 106081,106082 1jryA 571 4.08e+01 a.138.1.3,c.3.1.4,d.168.1.1 67199,67200,67201 1vhzA 198 4.16e+01 d.113.1.1 100718 2b1xA 470 4.22e+01 1vhxA 150 4.31e+01 c.55.3.8 100712 1ystL 273 4.37e+01 6prcL f.26.1.1 43509 1kssA 571 4.39e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1ci0A 228 4.39e+01 1ci0A b.45.1.1 25750 1y0pA 571 4.42e+01 1ksuA 571 4.43e+01 a.138.1.3,c.3.1.4,d.168.1.1 72931,72932,72933 2a8nA 144 4.51e+01 1d4dA 572 4.54e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19702,30439,42322 2b5oA 402 4.63e+01 1dj3A 442 4.70e+01 1adeA c.37.1.10 32239 1w0dA 337 4.77e+01 1jrzA 571 4.78e+01 a.138.1.3,c.3.1.4,d.168.1.1 67205,67206,67207 1rzhL 281 4.79e+01 f.26.1.1 98164 1p2hA 571 4.85e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 2a5lA 200 4.86e+01 1zwkA 207 4.94e+01 1yecL 219 4.95e+01 8fabA b.1.1.1,b.1.1.2 20144,21174 2c1pA 218 5.07e+01 2bm5A 186 5.09e+01 1jrxA 571 5.26e+01 a.138.1.3,c.3.1.4,d.168.1.1 67193,67194,67195 1sovA 328 5.33e+01 1ixlA 131 5.36e+01 d.38.1.5 90717 1d4cA 572 5.48e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19698,30435,42318 1oe4A 247 5.59e+01 c.18.1.3 86895 1ru3A 732 5.62e+01 e.26.1.3 97835 1lmhA 184 5.63e+01 d.167.1.1 74036 1v1cA 71 5.70e+01 1q9iA 571 5.76e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 2c1oA 254 5.80e+01 2cb5A 453 5.82e+01 3gcb d.3.1.1 37035 1qovL 281 5.84e+01 6prcL f.26.1.1 43455 1fnqL 281 5.86e+01 6prcL f.26.1.1 59918 1p8aA 146 5.92e+01 c.44.1.1 104084 1esxA 96 5.99e+01 1esxA j.11.1.1 59501 1lqwA 183 6.02e+01 d.167.1.1 74210 1cm0A 168 6.04e+01 1yghA d.108.1.1 40800 1yf6L 281 6.05e+01 1rybA 212 6.12e+01 c.56.3.1 98098 1q1yA 191 6.35e+01 d.167.1.1 104480 1z9jA 281 6.41e+01 1sq6A 253 6.43e+01 c.56.2.1 98964 1g0uD 241 6.48e+01 d.153.1.4 41949 1dosA 358 6.56e+01 1dosA c.1.10.2 29175 1q90M 39 6.66e+01 f.23.25.1 96246 1j3jA 280 6.73e+01 c.71.1.1 84066 2bsxA 253 6.75e+01 1p2eA 571 6.78e+01 a.138.1.3,c.3.1.4,d.168.1.1 93926,93927,93928 1sk4A 163 6.79e+01 d.118.1.1 105664 1twqA 165 6.84e+01 1q1gA 276 7.00e+01 c.56.2.1 95574 1ie7C 570 7.04e+01 1ubpC b.92.1.1,c.1.9.2 62315,62316 4ubpC 570 7.04e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1b4rA 80 7.09e+01 1b4rA b.1.3.1 22072 1prxA 224 7.23e+01 1prxA c.47.1.10 33076 1lqyA 184 7.65e+01 d.167.1.1 74212 1cb5A 453 7.69e+01 3gcb d.3.1.1 37037 1lm4A 194 7.71e+01 d.167.1.1 84626 1w85B 324 7.76e+01 1j3iA 280 7.83e+01 c.71.1.1 84062 1snzA 344 7.85e+01 b.30.5.4 98930 1miqA 375 8.05e+01 b.50.1.2 79151 2gjgA 248 8.08e+01 1moq 368 8.18e+01 1moq c.80.1.1 35302 1qx4A 274 8.21e+01 b.43.4.2,c.25.1.1 104624,104625 1cauB 184 8.44e+01 1caxB b.82.1.2 28103 2fp4A 305 8.74e+01 1eudA 311 8.81e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1f6nL 281 8.85e+01 6prcL f.26.1.1 59660 1zo1I 501 8.99e+01