# List of top-scoring protein chains for t04-100-30-str2 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 1l0iA 78 2.83e-08 a.28.1.1 77643 1f80D 81 2.92e-06 1acp a.28.1.1 59686 1j0aA 325 9.70e-02 c.79.1.1 83871 1jr2A 286 5.00e-01 c.113.1.1 67111 1sedA 117 5.49e-01 1ka2A 499 6.22e-01 d.92.1.5 77305 1viaA 175 7.65e-01 1h05A 146 1.07e+00 c.23.13.1 76433 1jj2W 91 1.20e+00 1ffkU d.29.1.1 63108 1eg5A 384 1.23e+00 1ecxA c.67.1.3 34429 1clxA 347 1.46e+00 1taxA c.1.8.3 28899 1nh2B 53 1.47e+00 1c3cA 429 1.54e+00 1c3cA a.127.1.1 19425 1ytfB 53 1.62e+00 1ytfB a.32.1.1 16997 1vcbA 118 1.74e+00 1vcbA d.15.1.1 37603 1lm8B 118 1.78e+00 d.15.1.1 74033 1ks9A 291 1.88e+00 a.100.1.7 68857 c.2.1.6 68858 1rqtA 37 1.96e+00 1p0yA 444 2.00e+00 a.166.1.1 87654 b.85.7.3 87655 1kq3A 376 2.15e+00 e.22.1.2 68790 1b25A 619 2.16e+00 1b25A a.110.1.1 19044 d.152.1.1 41796 1lssA 140 2.28e+00 c.2.1.9 74246 1dbwA 126 2.57e+00 1dbwA c.23.1.1 31095 1uc2A 481 2.59e+00 1nvpB 57 2.64e+00 1nv8A 284 2.68e+00 c.66.1.30 86224 2dhqA 146 2.80e+00 2dhqA c.23.13.1 31382 1pl8A 356 3.01e+00 1cby 259 3.07e+00 1cby d.103.1.1 40705 1jqeA 292 3.11e+00 c.66.1.19 71789 1aisB 200 3.21e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1o4vA 183 3.40e+00 c.23.8.1 86628 1qczA 169 3.60e+00 1qczA c.23.8.1 31276 1mpgA 282 3.60e+00 1mpgA a.96.1.3 18747 d.129.1.2 41296 1jidA 128 3.76e+00 d.201.1.1 66735 1v9dA 340 3.85e+00 1d1gA 168 3.87e+00 1d1gA c.71.1.1 34889 1a4iA 301 4.06e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1fwkA 296 4.19e+00 1fwkA d.14.1.5 37576 d.58.26.1 39398 1mdbA 539 4.55e+00 e.23.1.1 79008 1dptA 117 4.63e+00 1dptA d.80.1.3 39862 1n9lA 109 4.84e+00 d.110.3.6 85468 1h72C 296 4.90e+00 d.14.1.5 60712 d.58.26.1 60713 1j54A 186 5.34e+00 c.55.3.5 77077 1i50J 70 5.72e+00 a.4.11.1 61764 1o50A 157 5.75e+00 1bi5A 389 6.20e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1gu7A 364 6.33e+00 b.35.1.2 83321 c.2.1.1 83322 1lddA 74 6.34e+00 a.4.5.34 73841 1i88A 389 6.40e+00 c.95.1.2 66070 c.95.1.2 66071 1qi9A 556 6.66e+00 1qhbA a.111.1.2 19053 1oj4A 283 6.86e+00 1otfA 62 6.97e+00 1otfA d.80.1.1 39820 1rkqA 282 7.00e+00 1bu8A 452 7.03e+00 1gpl b.12.1.2 23647 c.69.1.19 34795 1qgoA 264 7.20e+00 1qgoA c.92.1.2 35596 1fm0D 81 7.43e+00 1fmaD d.15.3.1 37642 2rslA 140 7.71e+00 2rslA c.53.1.1 33345 1se9A 126 8.07e+00 1afwA 393 8.10e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1qj2B 809 8.27e+00 1qj2B 1n62B 809 8.38e+00 d.41.1.1 80092 d.133.1.1 80093 1io7A 368 8.55e+00 1f4tA a.104.1.1 18971 1dd9A 338 8.58e+00 1dd9A e.13.1.1 43254 1gd0A 122 8.65e+00 1dptA d.80.1.3 39834 1a41 234 8.66e+00 1a41 d.163.1.2 42174 1lngA 87 8.67e+00 d.201.1.1 74045 1fdr 248 8.81e+00 1fdr b.43.4.2 25653 c.25.1.1 31543 1cxpA 104 9.06e+00 1d2vA a.93.1.2 18695 1d2vA 104 9.06e+00 1d2vA a.93.1.2 18697 1go3F 107 9.09e+00 a.60.8.2 65407 1cc1S 283 9.16e+00 2frvA e.19.1.1 43313 1mlwA 301 9.25e+00 d.178.1.1 79289 1gx1A 160 9.60e+00 d.79.5.1 70675 1szqA 483 9.60e+00 1t8hA 277 9.92e+00 1m3kA 392 9.98e+00 c.95.1.1 78565 c.95.1.1 78566 1m4tA 392 1.00e+01 c.95.1.1 78617 c.95.1.1 78618 1qlmA 316 1.02e+01 1qlmA d.147.1.1 41765 1p3wA 404 1.02e+01 c.67.1.3 87752 3kvt 115 1.04e+01 1t1dA d.42.1.2 38642 1qflA 389 1.05e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1dxrC 336 1.05e+01 6prcC a.138.1.2 19670 1hnjA 317 1.06e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1nqkA 381 1.12e+01 1a8i 842 1.13e+01 1a8i c.87.1.4 35490 1n3kA 130 1.14e+01 a.77.1.4 79965 1oeyA 83 1.15e+01 1h5wA 309 1.16e+01 e.27.1.1 65635 1oz9A 150 1.17e+01 1nbwA 607 1.18e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1f6yA 262 1.19e+01 1f6yA c.1.21.2 29673 1j6wA 175 1.21e+01 1j98A d.185.1.2 62663 1ebfA 358 1.22e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1lmb3 92 1.26e+01 1lmb3 1h5uA 842 1.26e+01 1a8i c.87.1.4 60655 1thfD 253 1.28e+01 1thfD c.1.2.1 28535 1ow4A 129 1.31e+01 1fiqB 350 1.33e+01 1fiqB d.87.2.1 40229 d.145.1.3 41760 1iomA 377 1.33e+01 a.103.1.1 83698 1khyA 148 1.39e+01 a.174.1.1 77410 1cvrA 435 1.39e+01 1cvrA b.1.18.12 21949 c.17.1.2 31006 1vh7A 265 1.41e+01 1r6uA 437 1.47e+01 1or0A 160 1.48e+01 1odfA 290 1.49e+01 1hyhA 309 1.49e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1srvA 145 1.51e+01 1derA c.8.5.1 30817 1tc5A 194 1.51e+01 1i0dA 332 1.53e+01 1pscA c.1.9.3 61487 1reoA 486 1.53e+01 1hzyA 332 1.54e+01 1pscA c.1.9.3 61468 1htjF 210 1.56e+01 1htjF a.91.1.1 61254 1ojaA 520 1.57e+01 1b4fA 82 1.59e+01 1b4fA a.60.1.2 17934 1s3eA 520 1.59e+01 1hn4A 131 1.63e+01 a.133.1.2 65893 1cyo 93 1.65e+01 1cyo d.120.1.1 41065 1oaoA 674 1.65e+01 e.26.1.2 86744 1fo4A 1332 1.66e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1su8A 636 1.69e+01 6paxA 133 1.70e+01 6paxA a.4.1.5 64758 a.4.1.5 64759 1r9lA 309 1.73e+01 1div 149 1.73e+01 1div d.99.1.1 40692 d.100.1.1 40693 1gu2A 124 1.80e+01 a.3.1.1 76348 1fecA 490 1.83e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1sra 151 1.84e+01 1sra a.39.1.3 17190 1bg6 359 1.85e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1ny6A 267 1.86e+01 1h8eD 482 1.86e+01 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1eudB 396 1.88e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1hzpA 335 1.89e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1ur1A 378 1.92e+01 1e79D 482 1.93e+01 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1ijgA 309 1.93e+01 1fouA e.27.1.1 62493 1oxkB 134 1.95e+01 1ofgA 381 1.97e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1lc5A 364 1.97e+01 c.67.1.1 73827 1e5xA 486 2.05e+01 c.79.1.1 59283 1o4sA 389 2.09e+01 c.67.1.1 86620 1o22A 170 2.10e+01 d.238.1.1 86557 1h6dA 433 2.12e+01 c.2.1.3 65656 d.81.1.5 65657 1jc4A 148 2.13e+01 1jc4A d.32.1.4 62863 1b0xA 94 2.22e+01 1b4fA a.60.1.2 17933 1jhfA 202 2.24e+01 a.4.5.2 63057 b.87.1.1 63058 1j3mA 129 2.27e+01 3cla 213 2.33e+01 3cla c.43.1.1 32610 1so2A 420 2.35e+01 1l2tA 235 2.35e+01 c.37.1.12 73514 1nnsA 326 2.35e+01 c.88.1.1 85910 1gntA 553 2.37e+01 e.26.1.1 70290 1mzjA 339 2.39e+01 c.95.1.1 79700 c.95.1.1 79701 1dqeA 137 2.39e+01 1dqeA a.39.2.1 17388 1orrA 347 2.40e+01 1p4wA 99 2.40e+01 a.4.6.2 87783 1ji0A 240 2.42e+01 c.37.1.12 71665 1bolA 222 2.43e+01 1bolA d.124.1.1 41120 1gd1O 334 2.44e+01 1dssG c.2.1.3 29962 d.81.1.1 39877 1iro 54 2.47e+01 1rb9 g.41.5.1 45223 1e2uA 553 2.48e+01 1e1dA e.26.1.1 43362 1cqxA 403 2.49e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1p3jA 217 2.50e+01 1v02A 565 2.50e+01 1pi1A 185 2.50e+01 1npyA 271 2.50e+01 c.2.1.7 85995 c.58.1.5 85996 1o7jA 327 2.50e+01 c.88.1.1 81140 1h5qA 265 2.56e+01 1cydA c.2.1.2 60643 1rb9 53 2.57e+01 1rb9 g.41.5.1 45214 1e4iA 447 2.66e+01 1e70M c.1.8.4 59225 1v5xA 203 2.70e+01 1bl0A 129 2.79e+01 1d5yA a.4.1.8 16053 a.4.1.8 16054 1qgiA 259 2.79e+01 1qgiA d.2.1.7 37001 1nbwB 117 2.82e+01 c.51.3.2 80396 1pujA 282 2.84e+01 c.37.1.8 88294 1f08A 148 2.84e+01 1f08A d.89.1.2 59564 1dlwA 116 2.87e+01 1dlyA a.1.1.1 14982 1v7nV 163 2.90e+01 1j7lA 264 2.93e+01 d.144.1.6 62697 1nar 290 2.95e+01 1nar c.1.8.5 28988 1js3A 486 2.96e+01 c.67.1.6 67215 1dp4A 435 2.97e+01 1dp4A c.93.1.1 35710 1fm2A 169 2.98e+01 1fm2A d.153.1.2 59877 1xyzA 347 3.02e+01 1taxA c.1.8.3 28804 1dd3C 32 3.03e+01 1dd3C a.108.1.1 19033 1alo 907 3.05e+01 1alo 1d0qA 103 3.06e+01 1d0qA g.41.3.2 45208 1b5tA 275 3.13e+01 1b5tA c.1.23.1 29676 1mqiA 263 3.15e+01 1g99A 408 3.15e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 2vsgA 358 3.17e+01 2vsgA h.4.1.1 45780 1jjyA 636 3.20e+01 1jjyA e.26.1.2 63141 1gpl 432 3.22e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 1ek6A 348 3.24e+01 1xel c.2.1.2 29800 1a99A 344 3.25e+01 1pot c.94.1.1 35812 1ubkL 534 3.28e+01 e.18.1.1 88422 1h2rL 534 3.30e+01 1h2rL e.18.1.1 43298 1rdg 53 3.31e+01 1rb9 g.41.5.1 45221 1hq0A 295 3.34e+01 1hzgA d.194.1.1 61122 1mwwA 128 3.37e+01 1ryoA 327 3.38e+01 1np6A 174 3.42e+01 c.37.1.10 85954 1omrA 201 3.47e+01 1dbxA 158 3.52e+01 1dbuA d.116.1.1 40928 1j79A 347 3.54e+01 1j79A c.1.9.4 62675 1mswD 883 3.55e+01 e.8.1.3 79427 1qhfA 240 3.57e+01 1qhfA c.60.1.1 33960 1elqA 390 3.61e+01 1elqA c.67.1.3 34436 1eluA 390 3.62e+01 1elqA c.67.1.3 34434 1t5jA 313 3.65e+01 1j6oA 268 3.65e+01 c.1.9.12 77088 1dw0A 112 3.65e+01 1dw0A a.3.1.1 15911 1e4yA 214 3.65e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1f83A 425 3.66e+01 1f82A d.92.1.7 40306 1pq4A 291 3.68e+01 1hlrA 907 3.68e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1lucA 355 3.72e+01 1lucA c.1.16.1 29547 1h99A 224 3.77e+01 a.142.1.1 60814 a.142.1.1 60815 1gx3A 284 3.79e+01 d.3.1.5 70678 1eueA 86 3.79e+01 1cyo d.120.1.1 59504 1aqm 453 3.83e+01 1smd b.71.1.1 27717 c.1.8.1 28704 1nw3A 416 3.83e+01 c.66.1.31 86288 1v2xA 194 3.85e+01 1hfoA 113 3.87e+01 d.80.1.3 61006 1n2zA 245 3.88e+01 c.92.2.2 79865 1p5sA 203 3.88e+01 5reqA 727 3.92e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 1pyaB 228 3.93e+01 1pyaB 1cex 214 3.94e+01 1cex c.23.9.1 31285 1a8e 329 3.99e+01 1cb6A c.94.1.2 35888