# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1tiqA 180 3.32e-16 1vhsA 175 7.49e-16 d.108.1.1 -10794 1nslA 184 7.45e-13 d.108.1.1 86137 1qsmA 152 8.14e-13 1qsmA d.108.1.1 40808 1s3zA 165 8.76e-13 1qsoA 149 1.73e-12 1qsmA d.108.1.1 40812 1on0A 158 5.24e-12 d.108.1.1 87095 1gheA 177 7.14e-12 d.108.1.1 76222 1mk4A 157 1.13e-11 d.108.1.1 84979 1i1dA 161 1.37e-11 1i21A d.108.1.1 61526 1i12A 160 1.73e-11 1i21A d.108.1.1 61515 1n71A 180 1.93e-10 d.108.1.1 85370 1qstA 160 6.66e-10 1yghA d.108.1.1 40804 1cjwA 166 6.68e-10 1cjwA d.108.1.1 40818 1bo4A 168 8.18e-10 1bo4A d.108.1.1 40798 1q2yA 140 1.22e-09 d.108.1.1 -10791 1p0hA 318 2.29e-09 d.108.1.1 -10802 1yghA 164 9.32e-08 1yghA d.108.1.1 40802 1sqhA 312 4.24e-06 unknown_sccs -10812 1m4iA 181 6.65e-06 d.108.1.1 74457 1bob 320 6.79e-05 1bob d.108.1.1 40816 1iicA 422 3.05e-03 1nmtA d.108.1.2 62422 d.108.1.2 62423 1fy7A 278 1.14e-02 1fy7A d.108.1.1 40817 1vicA 262 1.42e-01 c.68.1.13 -8252 1o50A 157 2.54e-01 d.37.1.1 -9604 d.37.1.1 -9605 1pbjA 125 3.57e-01 d.37.1.1 -9608 d.37.1.1 -9609 1ne9A 335 4.13e-01 d.108.1.4 -10805 d.108.1.4 -10806 1pvmA 184 5.49e-01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1v2xA 194 1.13e+00 c.116.1.1 -6704 1vjqA 79 1.17e+00 unknown_sccs -13478 1dmmA 131 1.29e+00 1opy d.17.4.3 38114 1oh0A 131 1.73e+00 d.17.4.3 87004 1mo7A 213 1.96e+00 d.220.1.1 85028 1hv9A 456 1.98e+00 1fwyA b.81.1.4 28060 c.68.1.5 34518 1opy 131 2.08e+00 1opy d.17.4.3 38113 1lqpA 135 2.19e+00 d.32.1.2 78151 1nkiA 135 2.27e+00 d.32.1.2 -9544 1qysA 106 2.35e+00 unknown_sccs -13432 1fjgK 129 2.46e+00 1fjfK c.55.4.1 33733 1jqgA 433 2.56e+00 c.56.5.1 71791 d.58.3.1 71792 1lrzA 426 2.75e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1j2zA 270 3.03e+00 b.81.1.1 -4797 1oltA 457 3.06e+00 unknown_sccs -5688 1g61A 228 3.07e+00 1g61A d.126.1.1 41126 1cr1A 296 3.16e+00 1cr1A c.37.1.11 32286 1p4kA 295 3.63e+00 d.153.1.5 87772 1pea 385 3.83e+00 1pea c.93.1.1 35662 1ecsA 126 4.36e+00 1ecsA d.32.1.2 59407 1hi9A 274 4.43e+00 1hi9A c.99.1.1 61063 1d2tA 231 4.54e+00 1d2tA a.111.1.1 19052 1cpt 412 4.87e+00 1cpt a.104.1.1 18968 1i9zA 347 5.20e+00 1i9yA d.151.1.2 62102 1han 297 5.37e+00 1han d.32.1.3 38506 d.32.1.3 38507 1fxjA 331 5.53e+00 1fwyA b.81.1.4 28062 c.68.1.5 34520 1n40A 396 5.54e+00 a.104.1.1 79977 1e19A 314 5.58e+00 1b7bA c.73.1.1 34967 1mc0A 368 5.77e+00 d.110.2.1 78937 d.110.2.1 78938 1hdoA 206 5.96e+00 1he2A c.2.1.2 60965 1ml4A 308 6.03e+00 c.78.1.1 79255 c.78.1.1 79256 1iw8A 231 6.04e+00 a.111.1.1 76866 1rfmA 344 6.11e+00 c.122.1.1 -8032 1uehA 253 6.11e+00 c.101.1.1 -6879 1dd9A 338 6.24e+00 1dd9A e.13.1.1 43254 1lkdA 297 6.26e+00 d.32.1.3 78059 d.32.1.3 78060 1s14A 194 6.35e+00 d.122.1.2 -10973 1dorA 311 6.73e+00 2dorA c.1.4.1 28595 1s0uA 408 6.84e+00 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1nlfA 279 7.39e+00 c.37.1.11 85850 1lfkA 398 7.47e+00 a.104.1.1 77926 1hlgA 371 7.53e+00 1hlgA c.69.1.6 34656 1odfA 290 7.68e+00 c.37.1.6 -7045 1qs0B 338 7.92e+00 1qs0B c.36.1.7 31830 c.48.1.2 33103 1dxy 333 8.15e+00 1dxy c.2.1.4 30094 c.23.12.1 31354 9gafA 295 8.49e+00 1apyA d.153.1.5 42008 2dorA 311 8.90e+00 2dorA c.1.4.1 28593 1ocvA 125 8.94e+00 d.17.4.3 86810 1jubA 311 9.70e+00 c.1.4.1 -5188 1npk 154 9.71e+00 1npk d.58.6.1 39099 1v7oA 165 9.77e+00 unknown_sccs -10249 1adt 356 9.93e+00 1anv a.54.1.1 17887 g.51.1.1 45362 g.51.1.1 45368 1pv5A 264 1.06e+01 unknown_sccs -10182 1cvl 319 1.09e+01 1cvl c.69.1.18 34786 1io7A 368 1.11e+01 1f4tA a.104.1.1 18971 1bmtA 246 1.11e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1lvwA 295 1.17e+01 c.68.1.6 84723 1oniA 137 1.21e+01 d.79.1.1 87144 1jflA 228 1.21e+01 c.78.2.1 71656 c.78.2.1 71657 1b00A 127 1.24e+01 3chy c.23.1.1 31122 1hg4A 279 1.24e+01 1lbd a.123.1.1 19333 1d3gA 367 1.26e+01 1d3gA c.1.4.1 28600 1o5oA 221 1.31e+01 c.61.1.1 -7954 1f1uA 323 1.40e+01 d.32.1.3 83200 d.32.1.3 83201 1i0vA 104 1.41e+01 9rnt d.1.1.4 36054 1uc8A 280 1.43e+01 unknown_sccs -6718 unknown_sccs -11230 1gv3A 248 1.47e+01 a.2.11.1 70585 d.44.1.1 70586 1bj4A 470 1.54e+01 1bj4A c.67.1.4 34479 1f1xA 322 1.60e+01 d.32.1.3 83208 d.32.1.3 83209 1g8yA 279 1.62e+01 1g8yA c.37.1.11 32302 1nxuA 333 1.64e+01 c.122.1.1 86389 1p0zA 131 1.64e+01 unknown_sccs -10853 1q9iA 571 1.65e+01 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1k1xA 659 1.66e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1rv3A 483 1.73e+01 1hynP 379 1.73e+01 1hynP d.112.1.2 61408 1dvpA 220 1.75e+01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1ezfA 340 1.75e+01 1ezfA a.128.1.2 19440 1a0i 348 1.76e+01 1a0i b.40.4.6 25363 d.142.2.1 41577 1v7wA 807 1.76e+01 1lvmA 229 1.78e+01 b.47.1.3 78243 1gefA 123 1.80e+01 1gefA c.52.1.18 60465 1b8bA 605 1.81e+01 1b8bA 1gz6A 319 1.89e+01 c.2.1.2 76410 7ahlA 293 1.90e+01 7ahlA f.6.1.1 43812 1qahA 136 1.93e+01 d.79.1.1 -10377 1fqiA 147 1.94e+01 1agrE a.91.1.1 18542 1tiyA 164 2.03e+01 1dqsA 393 2.08e+01 1dqsA e.22.1.1 43347 1d7yA 408 2.10e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 8abp 306 2.12e+01 8abp c.93.1.1 35647 1uiuA 502 2.13e+01 c.94.1.1 -8674 1nmeA 146 2.16e+01 c.17.1.1 85874 2scpA 174 2.17e+01 2scpA a.39.1.5 17256 1kafA 108 2.19e+01 d.199.1.1 68372 1h1nA 305 2.21e+01 c.1.8.3 70855 1oatA 439 2.24e+01 2dkb c.67.1.4 34461 1l0lA 446 2.25e+01 d.185.1.1 84482 d.185.1.1 84483 1hqsA 423 2.27e+01 1iso c.77.1.1 61154 1w1kA 560 2.28e+01 1fezA 256 2.30e+01 1fezA c.108.1.3 43343 1h7eA 245 2.35e+01 c.68.1.13 60717 1ftrA 296 2.36e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1giqA 413 2.38e+01 d.166.1.1 76224 d.166.1.1 76225 1p9oA 313 2.40e+01 unknown_sccs -8423 1vkdA 338 2.42e+01 1har 216 2.43e+01 1rthA e.8.1.2 43025 2oatA 439 2.43e+01 2dkb c.67.1.4 34452 1eiwA 111 2.44e+01 1eiwA c.23.3.1 31130 1rcwA 231 2.48e+01 unknown_sccs -1921 1oxwA 373 2.48e+01 c.19.1.3 87539 1nv8A 284 2.51e+01 c.66.1.30 86224 1vhmA 195 2.52e+01 d.110.2.1 -10828 1jykA 254 2.53e+01 c.68.1.13 67458 2trcP 217 2.57e+01 1b9yC c.47.1.6 33051 1v1aA 309 2.57e+01 c.72.1.1 -8400 1ezvA 430 2.59e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1iscA 192 2.62e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1ih8A 271 2.63e+01 2nsyA c.26.2.1 62377 1fehA 574 2.65e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1dar 691 2.65e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1k77A 260 2.66e+01 c.1.15.5 72096 1k3xA 262 2.67e+01 a.156.1.2 77242 b.113.1.1 77243 g.39.1.8 77244 1kssA 571 2.68e+01 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1fvrA 327 2.69e+01 d.144.1.7 60047 1eljA 381 2.73e+01 4mbp c.94.1.1 35791 1rro 108 2.74e+01 1a75A a.39.1.4 17195 1shdA 107 2.77e+01 1fmk d.93.1.1 40440 1a7tA 232 2.81e+01 1a7tA d.157.1.1 42041 1gcvA 140 2.83e+01 1cg5B a.1.1.2 15410 1nxmA 197 2.87e+01 b.82.1.1 86385 1j0hA 588 2.87e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1flcA 432 2.90e+01 1flcA b.19.1.3 23837 c.23.10.2 31337 1e0cA 271 2.91e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1b5tA 275 2.93e+01 1b5tA c.1.23.1 29676 1p3cA 215 2.99e+01 b.47.1.1 -4129 1ro2A 216 3.04e+01 unknown_sccs -11391 1mkiA 330 3.04e+01 e.3.1.2 84994 1p5dX 463 3.11e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1qpcA 279 3.19e+01 1fgkA d.144.1.7 41685 1ppjA 446 3.22e+01 1a0rP 245 3.23e+01 1b9yC c.47.1.6 33054 1qmqA 414 3.24e+01 1phd a.104.1.1 18907 1uyrA 737 3.24e+01 c.14.1.4 -6258 c.14.1.4 -6259 1ju3A 583 3.25e+01 b.18.1.13 67300 c.69.1.21 67301 1r8oA 96 3.31e+01 1dugA 234 3.31e+01 1b8xA a.45.1.1 17718 c.47.1.5 33012 1h3fA 432 3.33e+01 c.26.1.1 76631 d.66.1.4 76632 1o13A 136 3.36e+01 c.55.5.1 80762 1lm8B 118 3.39e+01 d.15.1.1 74033 1oqcA 125 3.39e+01 a.24.15.1 87264 1kllA 130 3.41e+01 d.32.1.2 72720 1kqpA 271 3.43e+01 c.26.2.1 72883 1lfaA 187 3.50e+01 1ido c.62.1.1 34122 1e8gA 560 3.53e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1wkqA 164 3.53e+01 1ldg 316 3.54e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1unkA 87 3.55e+01 1cei a.28.2.1 16935 1otjA 283 3.55e+01 b.82.2.5 -4893 1tuhA 156 3.63e+01 1l6oA 95 3.65e+01 b.36.1.1 84534 1lmzA 187 3.66e+01 a.96.1.4 74037 1e39A 571 3.67e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1jy5A 212 3.68e+01 d.124.1.1 71940 1a53 247 3.72e+01 1a53 c.1.2.4 28564 1k2yX 463 3.76e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1i0sA 169 3.77e+01 1i0rA b.45.1.2 61491 1ro0A 216 3.77e+01 unknown_sccs -11390 1ghhA 81 3.79e+01 1ghhA d.57.1.1 38940 1i0rA 169 3.80e+01 1i0rA b.45.1.2 61489 1vrtA 560 3.81e+01 1rthA c.55.3.1 33574 e.8.1.2 43023 1spgB 147 3.89e+01 1cg5B a.1.1.2 15588 1s5aA 150 3.96e+01 unknown_sccs -9300 1cei 94 3.97e+01 1cei a.28.2.1 16939 1v88A 130 3.99e+01 1g4mA 393 3.99e+01 b.1.18.11 65143 b.1.18.11 65144 1bn7A 294 4.00e+01 1bn6A c.69.1.8 34677 1shbA 104 4.00e+01 1fmk d.93.1.1 40425