# List of top-scoring protein chains for t2k-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 1j9yA 385 1.38e+00 1j9yA c.1.8.3 62791 1vsrA 136 1.90e+00 1vsrA c.52.1.15 33332 1cw0A 155 2.11e+00 1vsrA c.52.1.15 33333 1ldpH 272 4.00e+00 1agdA b.1.1.2 20839 d.19.1.1 38309 1ld9A 268 4.01e+00 1agdA b.1.1.2 20835 d.19.1.1 38307 1i1qA 520 7.54e+00 1qdlA d.161.1.1 61543 1dmzA 158 7.75e+00 1qu5A b.26.1.2 23921 1qu5A 182 8.23e+00 1qu5A b.26.1.2 23922 1fjgI 128 8.76e+00 1fjfI d.14.1.1 37559 1blr 137 9.09e+00 1hmt b.60.1.2 27208 1bm5 137 9.18e+00 1hmt b.60.1.2 27207 1cbs 137 9.20e+00 1hmt b.60.1.2 27201 1xcaA 137 9.30e+00 1hmt b.60.1.2 27205 1fehA 574 9.33e+00 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1qgbA 93 9.84e+00 1qgbA g.27.1.1 44952 g.27.1.1 44953 1f15B 218 9.96e+00 1f15B b.10.1.2 23321 1f15A 218 9.96e+00 1f15B b.10.1.2 23320 2crkA 381 9.99e+00 1qh4A a.83.1.1 18474 d.128.1.2 41209 1gveA 327 1.05e+01 1ggvA 232 1.09e+01 1din c.69.1.9 34683 1qs2A 401 1.09e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1gveB 327 1.13e+01 1qs1A 462 1.14e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1iatA 557 1.15e+01 1dqrA c.80.1.2 62123 1iriA 558 1.15e+01 1k8dA 274 1.18e+01 b.1.1.2 68292 d.19.1.1 68293 1e7rA 321 1.19e+01 1bsvA c.2.1.2 29808 1e6uA 321 1.19e+01 1bsvA c.2.1.2 29805 1e7qA 321 1.19e+01 1bsvA c.2.1.2 29807 1bsvA 321 1.21e+01 1bsvA c.2.1.2 29809 1gfsA 321 1.21e+01 c.2.1.2 29811 1e7sA 321 1.22e+01 1bsvA c.2.1.2 29806 35c8H 217 1.25e+01 8fabA b.1.1.1 20297 b.1.1.2 21289 1brwA 433 1.45e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1vasA 137 1.49e+01 2end a.18.1.1 16404 1qo3A 277 1.49e+01 1agdA b.1.1.2 20841 d.19.1.1 38310 1enj 138 1.49e+01 2end a.18.1.1 16401 3hfmH 215 1.51e+01 1igtB b.1.1.1 19977 b.1.1.2 21033 2end 138 1.53e+01 2end a.18.1.1 16400 1eni 138 1.53e+01 2end a.18.1.1 16403 1b6rA 355 1.56e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1b6sA 355 1.59e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1din 234 1.60e+01 1din c.69.1.9 34682 1h6kA 757 1.61e+01 a.118.1.2 60675 a.118.1.2 60676 a.118.1.2 60677 1enk 138 1.63e+01 2end a.18.1.1 16402 1h8bA 75 1.63e+01 a.39.1.7 60736 1fizA 263 1.64e+01 5ptp 1sacA 204 1.67e+01 1sacA b.29.1.5 24237 1fjgD 209 1.68e+01 1c05A d.66.1.2 39553 1djc 257 1.70e+01 1btl e.3.1.1 42710 1j5eD 208 1.71e+01 1iblD 209 1.72e+01 1c05A i.1.1.1 62188 1lj5A 379 1.80e+01 3blm 257 1.82e+01 1btl e.3.1.1 42709 1a7cA 379 1.83e+01 1sek e.1.1.1 42660 1biiA 365 1.84e+01 1agdA b.1.1.2 20843 d.19.1.1 38311 1c5gA 402 1.84e+01 1sek e.1.1.1 42661 1dja 258 1.87e+01 1btl e.3.1.1 42706 1hcz 252 1.91e+01 1hcz b.2.6.1 22464 b.84.2.2 28250 9paiA 379 1.95e+01 1sek e.1.1.1 42667 1dvmA 379 1.96e+01 1sek e.1.1.1 42663 1b3kA 379 1.96e+01 1sek e.1.1.1 42668 1ctm 250 1.98e+01 1hcz b.2.6.1 22465 b.84.2.2 28251 1bwsA 321 1.99e+01 1bsvA c.2.1.2 29812 1db2A 377 2.00e+01 1sek e.1.1.1 42672 1ej3A 191 2.05e+01 1ej3A a.39.1.5 17259 1agdA 276 2.18e+01 1agdA b.1.1.2 20741 d.19.1.1 38260 1ia0B 445 2.19e+01 1h4kX 271 2.23e+01 1e0cA 271 2.23e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1blp 257 2.26e+01 1btl e.3.1.1 42716 1gpc 218 2.30e+01 1gpc b.40.4.7 25393 1jt8A 102 2.34e+01 b.40.4.5 63279 1cf8H 218 2.36e+01 1igtB b.1.1.1 20379 b.1.1.2 21371 1i94M 125 2.48e+01 1fjfM a.5.5.1 62004 1fjgM 126 2.50e+01 1fjfM a.5.5.1 16293 1gpoH 221 2.52e+01 1igtB b.1.1.1 20225 b.1.1.2 21237 1bvuA 418 2.58e+01 1hwyA c.2.1.7 30226 c.58.1.1 33874 1ddhA 274 2.61e+01 1agdA b.1.1.2 20845 d.19.1.1 38312 1f9nE 149 2.66e+01 a.4.5.3 64998 d.74.2.1 64999 1erjA 393 2.68e+01 1erjA b.69.4.1 27660 1ddcA 247 2.75e+01 1ddcA a.138.1.3 19684 1aerB 195 2.75e+01 1aerA d.166.1.1 42250 1alq 266 2.76e+01 1btl e.3.1.1 42707 1gc9A 345 2.76e+01 1cnzA c.77.1.1 35037 1a4aA 129 2.82e+01 1nwpA b.6.1.1 22907 1aizA 129 2.86e+01 1nwpA b.6.1.1 22903 2azaA 129 2.93e+01 1nwpA b.6.1.1 22901 1uriA 129 3.00e+01 1nwpA b.6.1.1 22905 1kxrA 339 3.01e+01 1e28A 276 3.07e+01 1agdA b.1.1.2 20765 d.19.1.1 38272 1e27A 276 3.08e+01 1agdA b.1.1.2 20763 d.19.1.1 38271 1qo3C 137 3.10e+01 1qo3C d.169.1.1 42350 1cbiA 136 3.12e+01 1hmt b.60.1.2 27209 2cbrA 136 3.14e+01 1hmt b.60.1.2 27211 1pcfA 66 3.30e+01 1pcfA d.18.1.1 38142 1en7A 157 3.31e+01 1en7A a.140.4.1 64733 d.4.1.5 64734 1lwhA 441 3.33e+01 1dgkN 917 3.34e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1pioA 257 3.36e+01 1btl e.3.1.1 42719 1koqB 221 3.39e+01 2cba b.74.1.1 27965 1koqA 222 3.42e+01 2cba b.74.1.1 27964 1kopA 223 3.45e+01 2cba b.74.1.1 27966 1lepA 99 3.47e+01 1lepA b.35.1.1 24649 1j8mF 297 3.48e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1emuA 132 3.62e+01 1agrE a.91.1.1 18549 1j8yF 297 3.62e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1e7lA 157 3.62e+01 1en7A a.140.4.1 64728 d.4.1.5 64729 1czaN 917 3.65e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1ej0A 180 3.68e+01 1ej0A c.66.1.2 34179 1e6jP 210 3.70e+01 1ak4C a.28.3.1 16956 a.73.1.1 18323 1kgf 258 3.71e+01 1btl e.3.1.1 42712 1tubB 427 3.74e+01 1tubA c.32.1.1 31752 d.79.2.1 39804 1nwpA 128 3.75e+01 1nwpA b.6.1.1 23011 1kxjA 205 3.84e+01 1kge 258 3.87e+01 1btl e.3.1.1 42708 1eysL 280 3.91e+01 6prcL f.2.1.2 43515 1qhaA 917 3.97e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1hkcA 917 3.97e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1hkbA 917 3.99e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482