# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1rvaA 244 1.00e+00 1rvaA c.52.1.2 33240 1eonA 245 1.01e+00 1rvaA c.52.1.2 33238 1sx5A 244 1.24e+00 c.52.1.2 -7551 1vh5A 148 1.28e+00 d.38.1.5 -9677 1dp0A 1023 1.49e+00 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 1bzyA 217 1.88e+00 1qk3A c.61.1.1 34071 1e44B 96 2.20e+00 1e44B b.101.1.1 59220 1oi7A 288 2.62e+00 c.2.1.8 87049 c.23.4.1 87050 1bw0A 416 4.61e+00 1bw0A c.67.1.1 34385 1b77A 228 5.14e+00 1b77A d.131.1.2 41362 d.131.1.2 41363 1iyeA 309 5.15e+00 e.17.1.1 83786 1bif 469 5.56e+00 1bif c.37.1.7 31961 c.60.1.4 34003 1b6rA 355 6.10e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 7a3hA 303 6.11e+00 7a3hA c.1.8.3 28817 1skoB 130 6.19e+00 1o50A 157 6.30e+00 d.37.1.1 -9604 d.37.1.1 -9605 1hh1A 143 6.35e+00 1gefA c.52.1.18 61036 1abrA 251 6.53e+00 1mrj d.165.1.1 42196 2prd 174 6.71e+00 2prd b.40.5.1 25435 1o0iA 138 6.76e+00 d.38.1.5 86532 1l2tA 235 6.80e+00 c.37.1.12 73514 1r4kA 169 6.86e+00 unknown_sccs -3625 2igd 61 6.89e+00 2igd d.15.7.1 37821 1lxjA 104 6.99e+00 d.58.48.1 84736 1d3cA 686 7.47e+00 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1oj4A 283 7.49e+00 d.14.1.5 -9088 d.58.26.5 -10133 1rkqA 282 7.51e+00 c.108.1.10 -6847 1jz8A 1023 8.83e+00 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1pbuA 162 8.90e+00 d.58.46.1 88030 1odfA 290 8.91e+00 c.37.1.6 -7045 1cr1A 296 9.12e+00 1cr1A c.37.1.11 32286 1mg7A 417 9.85e+00 d.14.1.6 84954 d.58.26.6 84955 1vk3A 615 9.98e+00 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1g8pA 350 1.01e+01 1g8pA c.37.1.20 60376 1cliA 345 1.05e+01 1cliA d.79.4.1 39816 d.139.1.1 41459 1i1kA 309 1.09e+01 1daaA e.17.1.1 61533 1skoA 143 1.10e+01 1lqaA 346 1.12e+01 c.1.7.1 84674 1jj2E 177 1.13e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1s72E 178 1.13e+01 1m7yA 435 1.15e+01 c.67.1.4 78761 1b8gA 429 1.22e+01 1b8gA c.67.1.4 34499 1nmmB 286 1.24e+01 c.68.1.2 80662 1mwxA 646 1.26e+01 d.17.4.5 79610 d.175.1.1 79611 e.3.1.1 79612 1fgxA 288 1.28e+01 1fgxA c.68.1.2 34508 1udxA 416 1.28e+01 b.117.1.1 -3546 c.37.1.8 -7101 unknown_sccs -9009 1reqA 727 1.29e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1cy9A 264 1.32e+01 1ecl e.10.1.1 43236 1gxrA 337 1.36e+01 b.69.4.1 70722 1f1xA 322 1.44e+01 d.32.1.3 83208 d.32.1.3 83209 1f4lA 551 1.45e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1h7mA 102 1.48e+01 d.79.3.1 83485 1p9oA 313 1.74e+01 unknown_sccs -8423 1mvfD 82 1.81e+01 b.129.1.1 85143 1pqzA 238 1.84e+01 1pfvA 551 1.86e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1o8uA 257 1.87e+01 c.14.1.3 81194 1gefA 123 1.95e+01 1gefA c.52.1.18 60465 1gqiA 708 1.98e+01 c.1.8.10 76279 d.92.2.2 76280 1s2wA 295 2.06e+01 c.1.12.7 -5577 1jeoA 180 2.07e+01 c.80.1.3 66611 1rxyA 253 2.08e+01 c.56.2.1 -7834 1je0A 236 2.11e+01 c.56.2.1 66581 1t35A 191 2.18e+01 unknown_sccs -7285 1ac5 483 2.21e+01 1ac5 c.69.1.5 34653 1heiA 451 2.21e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1mw9X 592 2.29e+01 e.10.1.1 -11986 1pymA 295 2.34e+01 1pymA c.1.12.7 29308 1q74A 303 2.39e+01 unknown_sccs -8121 1dhpA 292 2.40e+01 1dhpA c.1.10.1 29097 1d4oA 184 2.49e+01 1d4oA c.31.1.4 31748 1t6aA 126 2.49e+01 1v7zA 260 2.57e+01 unknown_sccs -6353 1r89A 437 2.65e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1lx7A 253 2.66e+01 c.56.2.1 74329 1ls1A 295 2.69e+01 a.24.13.1 78170 c.37.1.10 78171 1vdwA 254 2.69e+01 e.7.1.1 -11868 1pamA 686 2.72e+01 1cxlA b.1.18.2 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 2tysA 268 2.73e+01 2tysA c.1.2.4 28572 1nf3C 128 2.80e+01 b.36.1.1 85596 1o5zA 442 2.82e+01 c.59.1.2 -7939 c.72.2.2 -8418 1j31A 262 2.88e+01 d.160.1.2 -11473 1m2xA 223 2.89e+01 d.157.1.1 84764 1kutA 230 2.93e+01 d.143.1.1 73017 1t82A 155 2.97e+01 1gqeA 365 2.98e+01 e.38.1.1 70351 1uanA 227 3.01e+01 unknown_sccs -8129 1pztA 286 3.02e+01 c.68.1.2 -8213 1pvtA 238 3.03e+01 c.74.1.1 -8444 1gd1O 334 3.06e+01 1dssG c.2.1.3 29962 d.81.1.1 39877 2baa 243 3.19e+01 1cnsA d.2.1.1 36243 1vjzA 341 3.19e+01 c.1.8.3 -5318 830cA 168 3.23e+01 1ck7A d.92.1.11 40400 1n35A 1267 3.24e+01 e.8.1.4 79935 1e6uA 321 3.29e+01 1bsvA c.2.1.2 29805 1vimA 200 3.29e+01 c.80.1.3 -8532 1sh8A 154 3.37e+01 1ufoA 238 3.49e+01 unknown_sccs -8303 1nq6A 302 3.60e+01 c.1.8.3 -5332 1oz7A 131 3.61e+01 d.169.1.1 -11622 1a0rP 245 3.68e+01 1b9yC c.47.1.6 33054 1ift 263 3.84e+01 1mrj d.165.1.1 42211 1ro2A 216 3.84e+01 unknown_sccs -11391 5reqA 727 3.90e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 1pj5A 830 3.95e+01 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1pjcA 361 3.96e+01 1sayA c.2.1.4 30101 c.23.12.2 31361