# 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 1o5oA 221 7.55e-33 c.61.1.1 -7954 1a3c 181 3.69e-31 1a3c c.61.1.1 34095 1bzyA 217 5.75e-30 1qk3A c.61.1.1 34071 1cjbA 231 2.26e-27 1qk3A c.61.1.1 34079 1dkuA 317 1.66e-25 1dkuA c.61.1.2 34118 c.61.1.2 34119 1bd3A 243 3.63e-22 1bd3A c.61.1.1 34098 1hgxA 183 1.07e-21 1tc1A c.61.1.1 34027 1fsgA 233 1.58e-21 1qk3A c.61.1.1 34029 1tc1A 220 3.65e-19 1tc1A c.61.1.1 34083 1ecfA 504 7.11e-14 1ecfB c.61.1.1 34053 d.153.1.1 41820 1l1qA 186 3.72e-13 c.61.1.1 77653 1qb7A 236 5.44e-12 1qb7A c.61.1.1 34087 1g2qA 187 1.56e-10 c.61.1.1 65117 1lh0A 213 2.21e-08 c.61.1.1 73896 1o57A 291 3.44e-08 unknown_sccs -249 c.61.1.1 -7960 1nulA 152 5.86e-08 1nulA c.61.1.1 34011 1opr 213 9.68e-08 1opr c.61.1.1 34091 1oroA 213 1.02e-07 1opr c.61.1.1 34093 1dqpA 230 2.50e-06 1dqnA c.61.1.1 34069 1dqnA 230 7.58e-06 1dqnA c.61.1.1 34067 1e39A 571 3.26e-02 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1gpjA 404 4.47e-02 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1b74A 254 5.09e-02 1b74A c.78.2.1 35264 c.78.2.1 35265 1q9iA 571 5.50e-02 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1r61A 207 5.84e-02 unknown_sccs -6086 1q7bA 244 6.09e-02 c.2.1.2 -5826 1dxy 333 6.35e-02 1dxy c.2.1.4 30094 c.23.12.1 31354 1kssA 571 8.39e-02 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1hdiA 413 9.55e-02 16pk c.86.1.1 60964 1nnlA 225 1.09e-01 c.108.1.4 85906 1e0tA 470 1.60e-01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1d2nA 272 1.83e-01 1d2nA c.37.1.20 32428 1o0uA 429 1.98e-01 c.118.1.1 80743 1k2yX 463 2.62e-01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1nsf 273 2.70e-01 1d2nA c.37.1.20 32429 1p5dX 463 2.73e-01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1b16A 254 3.47e-01 1b16A c.2.1.2 29875 1qorA 327 3.68e-01 1qorA b.35.1.2 24766 c.2.1.1 29782 1tmy 120 4.45e-01 1dbwA c.23.1.1 31083 1o58A 303 4.49e-01 c.79.1.1 -8503 1cf9A 753 4.73e-01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1thtA 305 5.72e-01 1thtA c.69.1.13 34711 1afwA 393 6.94e-01 1afwA c.95.1.1 35900 c.95.1.1 35901 1fwkA 296 7.22e-01 1fwkA d.14.1.5 37576 d.58.26.1 39398 1p80A 753 7.82e-01 c.23.16.3 -6547 e.5.1.1 -11840 1itxA 419 7.92e-01 c.1.8.5 71425 d.26.3.1 71426 1bykA 255 8.03e-01 1bykA c.93.1.1 35706 1h72C 296 8.17e-01 d.14.1.5 60712 d.58.26.1 60713 1upaA 573 8.23e-01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1q1gA 276 8.56e-01 c.56.2.1 -7846 1vk9A 151 8.83e-01 1gs5A 258 9.25e-01 c.73.1.2 70395 1ug6A 431 1.09e+00 c.1.8.4 88490 1fcjA 322 1.13e+00 1oasA c.79.1.1 35289 1o0yA 260 1.16e+00 c.1.10.1 80756 1pwhA 327 1.17e+00 c.79.1.1 -8524 1hnjA 317 1.21e+00 1hn9A c.95.1.1 35969 c.95.1.1 35970 1qflA 389 1.21e+00 1afwA c.95.1.1 35908 c.95.1.1 35909 1rovA 857 1.28e+00 a.119.1.1 -1656 b.12.1.1 -3034 1efvA 315 1.29e+00 1efvA c.26.2.3 31633 c.31.1.2 31728 1j4aA 333 1.42e+00 c.2.1.4 71502 c.23.12.1 71503 1qyiA 384 1.48e+00 unknown_sccs -6836 1pmi 440 1.53e+00 1pmi b.82.1.3 28114 1vhwA 253 1.58e+00 c.56.2.1 -7765 1cqyA 99 1.66e+00 1b9zA b.3.1.1 22527 1m3kA 392 1.78e+00 c.95.1.1 78565 c.95.1.1 78566 1jflA 228 1.79e+00 c.78.2.1 71656 c.78.2.1 71657 1ufoA 238 1.84e+00 unknown_sccs -8303 1rybA 212 1.84e+00 c.56.3.1 -7858 1p2fA 220 2.47e+00 a.4.6.1 87720 c.23.1.1 87721 1tedA 393 2.51e+00 1hqsA 423 2.55e+00 1iso c.77.1.1 61154 1m4tA 392 2.56e+00 c.95.1.1 78617 c.95.1.1 78618 1omzA 293 2.62e+00 c.68.1.15 87093 1us5A 314 2.76e+00 c.94.1.1 -8686 1hyeA 313 2.80e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1lc0A 294 2.83e+00 c.2.1.3 73823 d.81.1.4 73824 1i1jA 108 3.01e+00 1i1jA b.34.2.1 61531 1o7qA 289 3.09e+00 c.68.1.9 -8216 1gx4A 289 3.09e+00 c.68.1.9 83362 1iv3A 152 3.18e+00 d.79.5.1 76828 1bif 469 3.55e+00 1bif c.37.1.7 31961 c.60.1.4 34003 1dl5A 317 3.57e+00 1dl5A c.66.1.7 64720 d.197.1.1 64721 1wdkC 390 3.68e+00 1p1xA 260 4.20e+00 1b5qA 472 4.26e+00 1b37B c.3.1.2 30404 d.16.1.5 37968 1i88A 389 5.01e+00 c.95.1.2 66070 c.95.1.2 66071 1o7tA 309 5.14e+00 c.94.1.1 86645 1t6cA 315 5.28e+00 1jclA 260 5.43e+00 c.1.10.1 66501 1mk4A 157 5.45e+00 d.108.1.1 84979 1va4A 279 5.52e+00 1qysA 106 5.54e+00 unknown_sccs -13432 1bi5A 389 5.72e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1vjnA 220 5.86e+00 unknown_sccs -11458 1qgoA 264 6.00e+00 1qgoA c.92.1.2 35596 1jj2E 177 6.24e+00 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1b00A 127 6.40e+00 3chy c.23.1.1 31122 1s72E 178 6.50e+00 1nv8A 284 6.89e+00 c.66.1.30 86224 1vg8A 207 7.10e+00 1uox 296 7.17e+00 1uox 1r4uA 301 7.45e+00 d.96.1.4 -10709 d.96.1.4 -10710 1pg5A 299 7.47e+00 1ta3B 303 7.62e+00 1lk5A 229 7.99e+00 unknown_sccs 73960 d.58.40.1 73961 1vicA 262 8.00e+00 c.68.1.13 -8252 1jg1A 235 8.48e+00 c.66.1.7 66661 4uagA 437 9.00e+00 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1k0iA 394 9.17e+00 c.3.1.2 67942 d.16.1.2 67943 1j0lA 98 9.99e+00 unknown_sccs -9789 1dbxA 158 1.01e+01 1dbuA d.116.1.1 40928 1v8dA 235 1.03e+01 1mv8A 436 1.08e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1eudB 396 1.09e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1o13A 136 1.15e+01 c.55.5.1 80762 1pbe 394 1.17e+01 1pbe c.3.1.2 30338 d.16.1.2 37869 1m6yA 301 1.20e+01 a.60.13.1 78716 c.66.1.23 78717 1iibA 106 1.20e+01 1iibA c.44.2.1 32648 1j27A 102 1.21e+01 unknown_sccs -10116 1edqA 540 1.22e+01 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1m3uA 264 1.25e+01 c.1.12.8 84784 1jhdA 396 1.27e+01 b.122.1.3 66712 c.26.1.5 66713 1j0aA 325 1.29e+01 c.79.1.1 83871 1lv7A 257 1.30e+01 c.37.1.20 78232 1gcuA 295 1.32e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1bgvA 449 1.32e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1rm8A 169 1.33e+01 d.92.1.11 -10584 1j3kA 280 1.38e+01 c.71.1.1 84070 1php 394 1.38e+01 16pk c.86.1.1 35452 3dfr 162 1.39e+01 3dfr c.71.1.1 34880 1bia 321 1.39e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1cfzA 162 1.52e+01 1cfzA c.56.1.1 33754 1dxeA 256 1.52e+01 1dxeA c.1.12.5 29310 2cb5A 453 1.59e+01 3gcb d.3.1.1 37035 1gpuA 680 1.60e+01 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1wdcC 156 1.67e+01 1wdcC a.39.1.5 17317 1nxqA 251 1.69e+01 c.2.1.2 86388 1n3bA 216 1.75e+01 c.37.1.1 79959 1ukcA 522 1.79e+01 1in6A 334 1.81e+01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1vhtA 218 1.84e+01 c.37.1.1 -7004 1on3A 523 1.85e+01 c.14.1.4 87107 c.14.1.4 87108 1k9sA 237 1.88e+01 c.56.2.1 68359 1ecpA 238 1.90e+01 1ecpA c.56.2.1 33775 1tx4B 178 1.91e+01 1ctqA c.37.1.8 32045 1oz9A 150 1.91e+01 unknown_sccs -10588 1s1pA 331 1.96e+01 c.1.7.1 -5240 1o5iA 249 1.99e+01 c.2.1.2 -5833 1uj6A 227 2.08e+01 1kjnA 157 2.14e+01 c.115.1.1 72614 1fs5A 266 2.15e+01 unknown_sccs 65044 1a4yA 460 2.30e+01 1a4yA c.10.1.1 30852 1l2tA 235 2.32e+01 c.37.1.12 73514 1heiA 451 2.32e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1vypX 364 2.34e+01 1v4vA 376 2.39e+01 c.87.1.3 -8583 1gtmA 419 2.40e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1ebfA 358 2.43e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1q8iA 783 2.43e+01 c.55.3.5 -7635 e.8.1.1 -11885 1gvoA 364 2.43e+01 c.1.4.1 76357 1eokA 290 2.44e+01 1eokA c.1.8.5 28991 1mzjA 339 2.47e+01 c.95.1.1 79700 c.95.1.1 79701 1vid 221 2.53e+01 1vid c.66.1.1 34178 1bpoA 494 2.55e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1qh8A 478 2.61e+01 1qguA c.92.2.3 35633 1j3vA 289 2.63e+01 a.100.1.1 -1303 c.2.1.6 -5947 1e5xA 486 2.63e+01 c.79.1.1 59283 1uylA 236 2.63e+01 1vyrA 364 2.67e+01 1h1dA 221 2.67e+01 c.66.1.1 83452 1ohvA 472 2.67e+01 c.67.1.4 -8181 1m1nB 522 2.71e+01 c.92.2.3 78418 1bmdA 327 2.71e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1kmqA 184 2.74e+01 c.37.1.8 84412 1fjgD 209 2.76e+01 1c05A d.66.1.2 39553 1vjqA 79 2.76e+01 unknown_sccs -13478 1mqiA 263 2.79e+01 c.94.1.1 -8681 1trkA 680 2.79e+01 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1hv9A 456 2.80e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1lhpA 312 2.88e+01 c.72.1.5 77960 1jykA 254 2.93e+01 c.68.1.13 67458 1f3lA 321 2.97e+01 1g6q2 c.66.1.6 59630 2ebn 289 2.98e+01 2ebn c.1.8.5 28990 1vi6A 208 3.05e+01 c.23.15.1 -6489 1dvjA 246 3.07e+01 1dvjA c.1.2.3 28546 1im5A 180 3.07e+01 unknown_sccs 66211 1h61A 364 3.08e+01 1oyc c.1.4.1 60657 1s2wA 295 3.08e+01 c.1.12.7 -5577 1nriA 306 3.09e+01 c.80.1.3 86123 1reqB 637 3.11e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1mtzA 293 3.15e+01 c.69.1.7 79467 1s6yA 450 3.18e+01 1jm0A 50 3.28e+01 k.8.1.1 66870 1p5jA 372 3.35e+01 1mjfA 281 3.35e+01 c.66.1.17 79198 1ep3A 311 3.41e+01 2dorA c.1.4.1 28597 1gklA 297 3.50e+01 c.69.1.2 65250 1jbkA 195 3.55e+01 c.37.1.20 71631 1ub0A 258 3.63e+01 c.72.1.2 88394 1uxy 340 3.73e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1jxhA 288 3.75e+01 c.72.1.2 67415 1ftkA 279 3.87e+01 1gr2A c.94.1.1 35819 1huxA 270 3.89e+01 1huxA c.55.1.5 61278 1jq5A 370 3.97e+01 e.22.1.2 67084 1e87A 118 3.97e+01 1b6e d.169.1.1 42327 1puoA 170 3.99e+01 a.101.1.1 -1318 a.101.1.1 -1322