# List of top-scoring protein chains for T0307.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 2gwxA 267 2.93e-01 2prgA a.123.1.1 19323 2awhA 268 2.96e-01 3gwxA 271 3.01e-01 2prgA a.123.1.1 19325 1y0sA 272 3.02e-01 2b50A 272 3.05e-01 1zczA 464 7.29e-01 1vefA 395 9.18e-01 1v2wT 223 1.81e+00 b.47.1.2 108299 1h1dA 221 2.13e+00 c.66.1.1 83452 1eapB 216 3.36e+00 1mfa b.1.1.1,b.1.1.2 20015,21069 2gshA 414 3.59e+00 1z6hA 72 4.24e+00 487dL 133 4.26e+00 1mmsA i.1.1.2 45839 1jqmA 139 4.32e+00 i.1.1.1 63235 1eg0K 140 4.34e+00 1mmsA i.1.1.1 45817 1mmsA 140 4.34e+00 1mmsA a.4.7.1,d.47.1.1 16247,38766 1yl3L 141 4.35e+00 1wgsA 133 4.56e+00 1zchA 255 6.27e+00 1v2lT 223 6.66e+00 b.47.1.2 108288 1m6tA 106 6.87e+00 a.24.3.1 78705 2ex4A 241 7.12e+00 1v2sT 223 7.13e+00 b.47.1.2 108295 1gsoA 431 7.62e+00 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1v2nT 223 9.00e+00 b.47.1.2 108290 1n25A 368 9.14e+00 c.37.1.20 85264 1v2rT 223 9.27e+00 b.47.1.2 108294 1svmA 377 9.30e+00 1v2oT 223 9.39e+00 b.47.1.2 108291 1xnfA 275 9.40e+00 1v2qT 223 9.65e+00 b.47.1.2 108293 1ksiA 642 9.96e+00 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1w2zA 649 1.01e+01 1mjdA 113 1.07e+01 d.15.11.1 84977 1lrtA 376 1.18e+01 c.1.5.1 84685 1pvnA 376 1.21e+01 c.1.5.1 88312 1q5dA 419 1.26e+01 a.104.1.1 95891 1xctL 80 1.26e+01 1pkfA 419 1.27e+01 a.104.1.1 94829 2ftcG 145 1.30e+01 1dq3A 454 1.42e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1z15A 344 1.45e+01 1gzeA 211 1.52e+01 d.166.1.1 76414 1fyhB 229 1.59e+01 1jrhI b.1.2.1,b.1.2.1 22055,22056 1g24A 211 1.61e+01 1g24A d.166.1.1 42270 1xf5L 80 1.61e+01 2a9kB 223 1.75e+01 1fg9C 245 1.75e+01 1jrhI b.1.2.1,b.1.2.1 22060,22061 1me8A 503 1.94e+01 c.1.5.1 79028 2bovB 251 1.96e+01 1j8fA 323 2.06e+01 1j8fA c.31.1.5 62738 2aw4I 141 2.11e+01 2ap1A 327 2.13e+01 1w68A 390 2.26e+01 a.25.1.2 109216 1dklA 410 2.29e+01 1dklA c.60.1.2 33996 2cw6A 298 2.32e+01 1ymhE 65 2.51e+01 1rl1A 114 2.53e+01 b.15.1.3 97635 1q5tA 122 2.60e+01 a.133.1.2 95932 1y59T 223 2.64e+01 2aywA 223 2.70e+01 2fi5E 223 2.74e+01 1ntp 223 2.79e+01 5ptp b.47.1.2 25858 1yumA 242 2.86e+01 2liv 344 2.90e+01 2liv c.93.1.1 35708 1ijdA 53 2.92e+01 f.3.1.1 66155 1g3dA 228 2.94e+01 5ptp b.47.1.2 25920 1dkmA 410 2.95e+01 1dklA c.60.1.2 34000 1dkqA 410 2.96e+01 1dklA c.60.1.2 33998 1sezA 504 2.98e+01 c.3.1.2,d.16.1.5 98822,98823 1bty 229 3.02e+01 5ptp b.47.1.2 25833 1hezE 61 3.07e+01 2ptl d.15.7.1 60991 1mhhE 63 3.10e+01 d.15.7.1 79127 1tuwA 109 3.27e+01 d.58.4.8 107346 2lbp 346 3.30e+01 2liv c.93.1.1 35709 1nz8A 119 3.38e+01 d.58.42.1 92363 1zzzA 237 3.39e+01 5ptp b.47.1.2 25892 1wybA 392 3.41e+01 1wycA 392 3.44e+01 1vlqA 337 3.46e+01 c.69.1.25 108848 1smqA 399 3.56e+01 a.25.1.2 105766 1jk0A 419 3.60e+01 a.25.1.2 63142 1utnA 243 3.73e+01 b.47.1.2 99967 1ue8A 367 3.79e+01 a.104.1.1 107781 1whyA 97 3.81e+01 1g4wR 383 3.83e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1oz9A 150 3.85e+01 d.92.1.15 93808 1en7A 157 3.85e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 1t6oA 51 3.87e+01 a.8.5.1 106578 1iooA 196 3.91e+01 d.124.1.1 71250 2g07A 297 3.92e+01 1si8A 484 3.93e+01 e.5.1.1 98884 2g09A 297 3.94e+01 1e7lA 157 3.95e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1cnuA 137 3.99e+01 1cof d.109.1.2 40862 1o78A 84 3.99e+01 b.84.1.1 81130 1z91A 147 4.06e+01 1oksA 56 4.10e+01 a.8.5.1 93271 1ophB 243 4.19e+01 b.47.1.2 93405 1gzhB 249 4.32e+01 c.15.1.4,c.15.1.4 70808,70809 1fljA 260 4.42e+01 2cba b.74.1.1 27954 1q8fA 313 4.43e+01 c.70.1.1 96203 1kzyC 259 4.47e+01 c.15.1.4,c.15.1.4 73383,73384 1iu5A 53 4.65e+01 g.41.5.1 71434 1dxrH 258 4.74e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1prcH 259 4.79e+01 6prcH b.41.1.1,f.23.10.1 25460,43445 1r1hA 696 4.90e+01 d.92.1.4 104756 1ttwA 138 5.00e+01 d.198.1.1 107308 1prgA 270 5.04e+01 2prgA a.123.1.1 19314 1v8qA 85 5.05e+01 b.84.4.1 108428 2fvjA 271 5.06e+01 1mexH 215 5.08e+01 b.1.1.1,b.1.1.2 91257,91258 1fhuA 320 5.09e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1zgyA 272 5.09e+01 1dczA 77 5.11e+01 1iyu b.84.1.1 28219 1fhvA 323 5.11e+01 1fhuA c.1.11.2,d.54.1.1 29235,38879 1knuA 274 5.15e+01 a.123.1.1 77457 1r6wA 322 5.20e+01 c.1.11.2,d.54.1.1 97165,97166 1zeoA 277 5.23e+01 1nyxA 276 5.23e+01 a.123.1.1 86431 1k74D 283 5.26e+01 a.123.1.1 68252 2c46A 241 5.26e+01 3prgA 278 5.32e+01 2prgA a.123.1.1 19318 1wm0X 292 5.41e+01 a.123.1.1 109404 1rdtD 284 5.42e+01 1juoA 198 5.49e+01 a.39.1.8 67312 1i9sA 210 5.64e+01 1i9sA c.45.1.1 62099 1i7iA 292 5.69e+01 a.123.1.1 71125 1wewA 78 5.77e+01 1vh9A 149 6.03e+01 d.38.1.5 100653 1mc7A 95 6.20e+01 b.36.1.1 91241 1lfkA 398 6.21e+01 a.104.1.1 77926 1ry2A 663 6.26e+01 e.23.1.1 98083 1vf5C 289 6.33e+01 b.2.6.1,b.84.2.2,f.23.23.1 100580,100581,100582 256bA 106 6.34e+01 256bA a.24.3.1 16539 1g5vA 88 6.39e+01 1g5vA b.34.9.1 60292 2cshA 110 6.46e+01 1z1mA 119 6.51e+01 1xr4A 509 6.55e+01 1pxqA 35 6.62e+01 j.5.1.2 104382 2c2xA 281 6.67e+01 1edg 380 7.05e+01 1edg c.1.8.3 28807 1s04A 110 7.06e+01 1xhbA 472 7.17e+01 1wu9A 80 7.20e+01 1odkA 235 7.38e+01 c.56.2.1 86863 2c7nA 74 7.54e+01 1ixrA 191 7.56e+01 a.60.2.1,b.40.4.2 76925,76926 1txqB 86 7.58e+01 1rmfH 216 7.90e+01 1igtB b.1.1.1,b.1.1.2 20029,21083 1lg4A 129 7.91e+01 d.6.1.1 77952 1dcb 260 8.25e+01 2cba b.74.1.1 27909 1gweA 503 8.28e+01 e.5.1.1 70667 1uhbB 98 8.29e+01 1t9pA 54 8.36e+01 2f0aA 98 8.42e+01 1hbzA 498 8.44e+01 1cf9A e.5.1.1 60937 1l6oA 95 8.59e+01 b.36.1.1 84534 1ugsA 203 8.73e+01 d.149.1.1 107837 2bkhA 814 8.90e+01 1ireA 204 8.95e+01 d.149.1.1 76769