# List of top-scoring protein chains for t2k-100-30-str 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 1jatA 155 1.10e-34 1u9aA d.20.1.1 62818 1jbbA 153 1.43e-34 1u9aA d.20.1.1 62842 2e2c 156 2.22e-34 1u9aA d.20.1.1 38336 1fzyA 149 1.18e-33 d.20.1.1 65072 1u9aA 160 2.71e-33 1u9aA d.20.1.1 38333 1i7kA 179 2.79e-33 1u9aA d.20.1.1 61889 2ucz 165 3.07e-33 1u9aA d.20.1.1 38330 1fxtA 149 2.79e-32 d.20.1.1 65055 1jatB 138 1.09e-22 1jatB d.20.1.1 62819 1j7dA 145 1.43e-22 1jatB d.20.1.1 62680 1kppA 145 5.82e-04 d.20.1.2 72846 1tgoA 773 6.32e-01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1qhtA 775 7.70e-01 1tgoA c.55.3.5 33722 e.8.1.1 43011 6gsvA 217 1.06e+00 1b8xA a.45.1.1 17633 c.47.1.5 32925 1eqfA 280 1.30e+00 1eqfA a.29.2.1 16972 a.29.2.1 16973 1h3fA 432 1.95e+00 c.26.1.1 76631 d.66.1.4 76632 1ej8A 140 1.96e+00 1qupA b.1.8.1 22300 1gtkA 313 2.05e+00 c.94.1.1 76346 d.50.2.1 76347 1ezvH 74 2.18e+00 1be3H f.28.1.1 59552 1kb9F 74 2.26e+00 f.28.1.1 77321 1jpzA 473 2.64e+00 a.104.1.1 67069 1qnrA 344 2.89e+00 1qnoA c.1.8.3 28834 1qupA 222 3.15e+00 1qupA b.1.8.1 22301 d.58.17.1 39352 1chrA 370 3.16e+00 1mucA c.1.11.2 29252 d.54.1.1 38896 1qnoA 344 3.25e+00 1qnoA c.1.8.3 28838 1fohA 664 3.98e+00 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1kbhB 59 4.27e+00 a.153.1.1 68383 1i8kB 124 4.32e+00 b.1.1.1 71131 1jw3A 140 4.59e+00 d.208.1.1 67373 1go3E 187 4.83e+00 b.40.4.5 65406 1a2yB 116 4.90e+00 1gc1H b.1.1.1 19927 1vfaB 116 4.93e+00 1gc1H b.1.1.1 19929 1jj2L 194 5.29e+00 1ffkI d.12.1.2 63097 1aa0 113 5.48e+00 1aa0 h.1.17.1 45659 1pda 315 5.76e+00 1pda c.94.1.1 35751 d.50.2.1 38794 1mmoB 384 6.11e+00 1mtyB a.25.1.2 16768 1mtyB 384 6.17e+00 1mtyB a.25.1.2 16740 1eyvA 156 6.68e+00 1eyvA a.79.1.1 18446 1g7jB 116 6.78e+00 1f3rB b.1.1.1 19933 1lvmA 229 7.30e+00 b.47.1.3 78243 1fm4A 159 7.33e+00 1bv1 d.129.3.1 76186 1k38A 254 7.58e+00 1c1kA 217 7.65e+00 1c1kA a.120.1.1 19239 1bu7A 455 7.91e+00 1bu7A a.104.1.1 18937 2ms2A 129 8.37e+00 1msc d.85.1.1 40049 1htrB 329 8.68e+00 1smrA 1vpsA 289 9.83e+00 1vpsA b.10.1.4 23336 1h3oB 76 1.03e+01 a.22.1.3 76645 1cd9C 175 1.14e+01 1bgc a.26.1.1 16816 1qgiA 259 1.19e+01 1qgiA d.2.1.7 37001 1phk 298 1.19e+01 1cdkA d.144.1.1 41635 1dypA 271 1.20e+01 1dypA b.29.1.2 24185 1i5nA 146 1.21e+01 1i5nA a.24.10.3 61805 1lm8V 160 1.22e+01 b.3.3.1 74035 1brwA 433 1.27e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1krhA 338 1.32e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1rcd 173 1.34e+01 2fha a.25.1.1 16687 1kqwA 134 1.40e+01 b.60.1.2 72887 2bmhA 455 1.47e+01 1bu7A a.104.1.1 18941 1vcbC 160 1.57e+01 1vcbC b.3.3.1 22535 1c4kA 730 1.58e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1ordA 730 1.61e+01 1ordA c.23.1.4 31274 c.67.1.5 34503 d.125.1.1 41124 1hwwA 1015 1.63e+01 e.33.1.1 65949 1iknD 236 1.63e+01 1iknD d.211.1.1 19171 1jb9A 316 1.67e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1ezfA 340 1.73e+01 1ezfA a.128.1.2 19440 1oebA 62 1.79e+01 1nekC 129 1.80e+01 f.21.2.2 80431 1ir6A 424 1.85e+01 c.107.1.2 71342 1fz1C 389 1.88e+01 1mtyB a.25.1.2 16746 8prkA 287 1.92e+01 1wgjA b.40.5.1 25395 1iapA 211 1.97e+01 a.91.1.1 62119 1fm2A 169 1.97e+01 1fm2A d.153.1.2 59877 1jyhA 157 1.98e+01 d.60.1.3 71956 1humA 69 2.00e+01 1b3aA d.9.1.1 37397 1es2A 262 2.01e+01 1skf e.3.1.1 42680 1qfhA 212 2.04e+01 1qfhA b.1.18.10 21893 b.1.18.10 21894 1xnaA 183 2.08e+01 1xnaA b.18.1.8 23773 1ks8A 433 2.12e+01 a.102.1.2 77519 1seiA 130 2.12e+01 1seiA d.140.1.1 41463 1bea 127 2.14e+01 1bea a.52.1.2 17826 2abk 211 2.27e+01 2abk a.96.1.1 18743 1bfa 134 2.38e+01 1bea a.52.1.2 17827 1pnsB 234 2.41e+01 1l9mA 692 2.44e+01 b.1.18.9 73732 b.1.5.1 73733 b.1.5.1 73734 d.3.1.4 73735 1wwcA 118 2.68e+01 1wwcA b.1.1.4 21778 1lqbC 162 2.76e+01 b.3.3.1 74186 1e9gA 286 2.84e+01 1wgjA b.40.5.1 59393 1qrdA 273 2.86e+01 1d4aA c.23.5.3 31217 1j5eB 256 2.88e+01 c.23.15.1 71543 1ev0A 58 2.91e+01 1ev0A d.71.1.1 39594 1tafA 68 2.95e+01 1tafA a.22.1.3 16481 1bs0A 384 3.00e+01 1bs0A c.67.1.4 34490 1bp3B 211 3.11e+01 1axiB b.1.2.1 22031 b.1.2.1 22032 1iu4A 331 3.24e+01 d.3.1.8 71430 1hs6A 611 3.30e+01 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1jl0A 334 3.40e+01 1jenA d.156.1.1 63155 1es4A 262 3.43e+01 1skf e.3.1.1 42683 1b87A 181 3.43e+01 1b87A d.108.1.1 40797 1n71A 180 3.48e+01 1llnA 262 3.55e+01 1mqkH 127 3.66e+01 1dseA 292 3.67e+01 1ryc a.93.1.1 59130 1vpsB 289 3.71e+01 1vpsA b.10.1.4 23337 2hmx 133 3.71e+01 1hiwA a.61.1.1 18129 1jmxA 494 3.73e+01 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1foeA 377 3.73e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1htyA 1015 3.73e+01 e.33.1.1 65948 1hxkA 1015 3.74e+01 e.33.1.1 65951 1g9mC 185 3.74e+01 1cdy b.1.1.1 19721 b.1.1.3 21660 1mntA 76 3.78e+01 1bazA a.43.1.1 17453 1b7yB 785 3.78e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1jpnA 296 3.85e+01 a.24.13.1 67039 c.37.1.10 67040 1ls1A 295 3.97e+01 a.24.13.1 78170 c.37.1.10 78171 1es5A 262 3.99e+01 1skf e.3.1.1 42679