# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1dnlA 199 5.18e-08 1ci0A b.45.1.1 25753 1g79A 218 5.95e-08 1ci0A b.45.1.1 25752 1nrgA 261 1.35e-06 b.45.1.1 80694 1axj 122 5.80e-05 1axj b.45.1.1 25749 1flmA 122 2.48e-04 1axj b.45.1.1 25747 1ci0A 228 6.63e-03 1ci0A b.45.1.1 25750 1ko3A 230 5.65e-01 d.157.1.1 -11454 1tin 69 6.63e-01 2sniI d.40.1.1 38580 1j71A 334 1.29e+00 1eagA b.50.1.2 62669 1ejhA 190 1.58e+00 1ejhA d.86.1.1 40147 1t5yA 190 1.80e+00 1azo 232 2.35e+00 1azo c.52.1.14 33329 1plq 258 2.85e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1r6lA 239 3.25e+00 d.14.1.4 -9057 d.101.1.1 -10747 1b43A 340 3.37e+00 1a76 a.60.7.1 18092 c.120.1.2 33362 1d8hA 311 3.69e+00 1d8iA d.63.1.1 39544 1knqA 175 4.10e+00 c.37.1.17 72786 1lq9A 112 4.36e+00 d.58.4.3 78129 1v0wA 506 4.64e+00 1gal 583 4.76e+00 1gpeA c.3.1.2 30386 d.16.1.1 37950 1pmmA 466 5.03e+00 c.67.1.6 -8159 1f0iA 504 5.04e+00 1f0iA d.136.1.2 59566 d.136.1.2 59567 1kllA 130 5.12e+00 d.32.1.2 72720 1cf3A 583 5.22e+00 1gpeA c.3.1.2 30385 d.16.1.1 37949 1uocA 289 5.53e+00 unknown_sccs -7671 1d8iA 311 6.35e+00 1d8iA d.63.1.1 39541 1dixA 208 6.87e+00 1bk7A d.124.1.1 41122 1ffyA 917 7.10e+00 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 7.10e+00 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1roaA 122 7.89e+00 1vdeA 454 8.63e+00 1vdeA b.86.1.2 28378 d.95.2.2 40581 d.95.2.2 40582 1plr 258 8.85e+00 1plq d.131.1.2 41390 d.131.1.2 41391 1l8bA 190 8.94e+00 d.86.1.1 73683 1b8aA 438 9.03e+00 1b8aA b.40.4.1 25244 d.104.1.1 40765 1fy7A 278 9.20e+00 1fy7A d.108.1.1 40817 1jkxA 212 9.29e+00 c.65.1.1 66813 1rkqA 282 9.31e+00 c.108.1.10 -6847 1i52A 236 9.55e+00 1i52A c.68.1.13 61767 1ea0A 1479 1.01e+01 b.80.4.1 64854 c.1.4.1 64855 d.153.1.1 64856 1pvtA 238 1.08e+01 c.74.1.1 -8444 1ha3A 405 1.12e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 3gcb 470 1.13e+01 3gcb d.3.1.1 37032 1exmA 405 1.14e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1nftA 329 1.16e+01 1nnt c.94.1.2 35881 1lgr 468 1.17e+01 1lgr d.15.9.1 37837 d.128.1.1 41167 2lgsA 468 1.17e+01 1lgr d.15.9.1 37838 d.128.1.1 41168 1pyaB 228 1.20e+01 1pyaB 1a26 361 1.20e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1aipE 405 1.27e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1ac6A 110 1.28e+01 1tcrA b.1.1.1 20606 1ibvB 229 1.35e+01 1n9lA 109 1.37e+01 d.110.3.6 85468 1nnmA 652 1.39e+01 1pg4A 652 1.39e+01 e.23.1.1 88067 1f52A 468 1.41e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 2sak 121 1.45e+01 2sak d.15.5.1 37711 1qp2A 70 1.49e+01 1pse b.34.4.2 24596 1fthA 122 1.50e+01 d.150.1.2 60028 1lldA 319 1.50e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1qreA 247 1.52e+01 1qreA b.81.1.5 28066 1qrrA 394 1.54e+01 1qrrA c.2.1.2 29824 1aoeA 192 1.55e+01 1aoeA c.71.1.1 34923 1a6r 471 1.57e+01 3gcb d.3.1.1 37033 1gci 269 1.59e+01 1gci c.41.1.1 32503 1jj2E 177 1.61e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1i24A 404 1.62e+01 c.2.1.2 83663 1iq8A 582 1.70e+01 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1gcb 454 1.70e+01 3gcb d.3.1.1 37034 1ukgA 252 1.70e+01 b.29.1.1 -3390 1sup 275 1.71e+01 1gci c.41.1.1 32510 1tfaA 329 1.74e+01 1nnt c.94.1.2 35880 1kutA 230 1.75e+01 d.143.1.1 73017 2ebn 289 1.77e+01 2ebn c.1.8.5 28990 1lci 550 1.79e+01 1lci e.23.1.1 43349 1n3oA 252 1.80e+01 b.29.1.1 79967 1lw6E 281 1.85e+01 c.41.1.1 74293 1fo5A 85 1.86e+01 1fo5A c.47.1.1 59922 1nnt 328 1.89e+01 1nnt c.94.1.2 35884 1gppA 237 1.91e+01 b.86.1.2 76262 1k3sA 113 1.93e+01 d.198.1.1 68120 1efyA 350 1.94e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1dyr 206 2.05e+01 1aoeA c.71.1.1 34916 1dm1A 146 2.06e+01 2fal a.1.1.2 15153 1bo4A 168 2.10e+01 1bo4A d.108.1.1 40798 1qg3A 195 2.12e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1ivhA 394 2.15e+01 3mdeA a.29.3.1 16608 e.6.1.1 42869 1gtxA 472 2.16e+01 1gtxA 1g8oA 310 2.20e+01 1g8oA c.68.1.9 60375 1a3lL 217 2.26e+01 8fabA b.1.1.1 20240 b.1.1.2 21252 1d2fA 390 2.28e+01 1d2fA c.67.1.3 34411 1e1aA 314 2.31e+01 1e1aA b.68.6.1 59155 1pjxA 314 2.31e+01 1gx4A 289 2.33e+01 c.68.1.9 83362 1k4vA 289 2.35e+01 c.68.1.9 72066 1b0jA 754 2.35e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1o7qA 289 2.35e+01 c.68.1.9 -8216 1ekrA 161 2.37e+01 1ekrA d.58.21.1 39380 1b6e 128 2.39e+01 1b6e d.169.1.1 42326 1iejA 332 2.44e+01 1nnt c.94.1.2 62328 7acn 754 2.46e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1c96A 753 2.48e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1dlfL 113 2.49e+01 8fabA b.1.1.1 20382 1prxA 224 2.49e+01 1prxA c.47.1.10 33076 1pxvA 183 2.53e+01 d.3.1.1 -8881 8acn 754 2.53e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1s72E 178 2.53e+01 1amj 754 2.60e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1mmq 170 2.64e+01 1hfc d.92.1.11 40396 1g7jA 107 2.73e+01 32c2A b.1.1.1 19932 1a2yA 107 2.74e+01 8fabA b.1.1.1 19926 1vfbA 107 2.74e+01 8fabA b.1.1.1 19930 1thjA 214 2.76e+01 1qreA b.81.1.5 28072 1a7qL 106 2.91e+01 8fabA b.1.1.1 19954 1gvp 87 2.91e+01 1gvp b.40.4.7 25369 1vqb 87 2.91e+01 1gvp b.40.4.7 25370 6acn 754 2.96e+01 1amj c.8.2.1 30721 c.83.1.1 35397 1f1xA 322 2.97e+01 d.32.1.3 83208 d.32.1.3 83209 1cdwA 179 3.03e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 1bywA 110 3.05e+01 1bywA d.110.3.6 40912 1hymA 45 3.12e+01 1hymA d.40.1.1 38581 1e8oB 106 3.14e+01 1914 d.49.1.1 38775 1df3A 162 3.18e+01 1mup b.60.1.1 27134 1pyaA 81 3.19e+01 1pyaA d.155.1.1 42026 1garA 212 3.23e+01 2gar c.65.1.1 34162 1rurL 217 3.31e+01 b.1.1.1 -2094 b.1.1.2 -2389 1s01 283 3.32e+01 1gci c.41.1.1 32511 1q15A 503 3.33e+01 c.26.2.1 -6625 d.153.1.1 -11400 1jwqA 179 3.40e+01 unknown_sccs -7897 1j05A 111 3.42e+01 b.1.1.1 -2114 1ig0A 319 3.45e+01 1ig0A b.82.6.1 62354 c.100.1.1 62355 1cv8 174 3.45e+01 1cv8 d.3.1.1 37089 1bo4B 168 3.47e+01 1bo4A d.108.1.1 40799 1rkuA 206 3.49e+01 unknown_sccs -6823 1mo9A 523 3.57e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1ck7A 631 3.58e+01 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1go3E 187 3.58e+01 b.40.4.5 83054 d.230.1.1 83055 1b6sA 355 3.59e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1q72L 218 3.60e+01 b.1.1.1 -2071 b.1.1.2 -2347 1c76A 136 3.61e+01 2sak d.15.5.1 37718 1fggA 261 3.77e+01 1fggA c.68.1.7 34576 1g6hA 257 3.89e+01 1gajA c.37.1.12 60318 1bkcE 256 3.92e+01 1bkcA d.92.1.10 40333 1kwsA 261 3.94e+01 c.68.1.7 73083 1bkcA 255 3.99e+01 1bkcA d.92.1.10 40331