# List of top-scoring protein chains for T0222.t04-w0.5 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 1o60A 292 5.78e-25 c.1.10.4 -5549 1phwA 284 1.17e-24 1g7uA 284 1.19e-24 1d9eA c.1.10.4 60334 1pe1A 267 1.15e-22 c.1.10.4 -5553 1lroA 267 4.05e-22 c.1.10.4 78161 1of8A 370 9.49e-09 c.1.10.4 -5508 1og0A 370 9.81e-09 c.1.10.4 -5532 1n8fA 350 1.07e-07 c.1.10.4 85397 1gg1A 350 1.08e-07 1qr7A c.1.10.4 29187 1jf8A 131 3.29e-02 c.44.1.1 66621 1ljuA 131 3.86e-02 c.44.1.1 73944 1rxiA 131 4.84e-02 1ljlA 131 5.00e-02 c.44.1.1 73939 1lk0A 131 6.11e-02 c.44.1.1 73948 1aj2 282 7.77e-02 1aj2 c.1.21.1 29665 1rvgA 305 7.88e-02 c.1.10.2 -5500 1we3A 543 4.76e-01 1mzhA 225 5.74e-01 c.1.10.1 79698 1e1dA 553 6.53e-01 1e1dA e.26.1.1 43363 1gntA 553 6.54e-01 e.26.1.1 70290 1jul 248 1.07e+00 1a53 c.1.2.4 28566 1a53 247 1.07e+00 1a53 c.1.2.4 28564 1oi7A 288 1.60e+00 c.2.1.8 87049 c.23.4.1 87050 1hruA 188 2.26e+00 1hruA d.115.1.1 40926 1p4cA 380 3.02e+00 c.1.4.1 -5201 1ypn 313 3.56e+00 1pda c.94.1.1 35754 d.50.2.1 38797 1gtkA 313 3.58e+00 c.94.1.1 76346 d.50.2.1 76347 1m1zA 513 3.65e+00 c.26.2.1 78457 d.153.1.1 78458 1pda 313 3.70e+00 1pda c.94.1.1 35751 d.50.2.1 38794 1j5tA 242 3.89e+00 c.1.2.4 71583 1va4A 279 4.13e+00 1i4nA 251 4.14e+00 c.1.2.4 71114 1pdo 135 4.37e+00 1pdo c.54.1.1 33376 1a3wA 500 4.49e+00 1a49A b.58.1.1 27060 c.1.12.1 29288 c.49.1.1 33142 1rvkA 382 4.62e+00 c.1.11.2 -5568 d.54.1.1 -9826 1i2mB 402 4.66e+00 1a12A b.69.5.1 61569 1a12A 413 4.69e+00 1a12A b.69.5.1 27663 1rrvA 416 4.91e+00 1j2yA 167 5.27e+00 c.23.13.1 84047 1ixkA 315 5.80e+00 unknown_sccs -8099 1eepA 404 5.93e+00 1ak5 c.1.5.1 28636 1jndA 420 6.07e+00 c.1.8.5 71757 d.26.3.1 71758 1ojxA 263 6.41e+00 c.1.10.1 -5445 1n8nA 212 6.52e+00 unknown_sccs -6830 1iqaA 160 7.85e+00 b.22.1.1 71274 1r85A 379 7.88e+00 1qvbA 481 7.94e+00 1qvbA c.1.8.4 28983 1ton 235 8.04e+00 5ptp b.47.1.2 26307 1jtzX 171 8.06e+00 b.22.1.1 63286 1iyxA 432 8.31e+00 c.1.11.1 83815 d.54.1.1 83816 1nsj 205 8.81e+00 1nsj c.1.2.4 28560 3tgl 269 9.20e+00 3tgl c.69.1.17 34733 1pg5A 299 9.38e+00 1fc4A 401 1.02e+01 1bs0A c.67.1.4 59760 1jcmP 259 1.04e+01 c.1.2.4 71633 1e9iA 431 1.06e+01 c.1.11.1 64818 d.54.1.1 64819 1pbtA 244 1.09e+01 unknown_sccs -6866 1pdz 434 1.09e+01 4enl c.1.11.1 29215 d.54.1.1 38859 5tgl 269 1.12e+01 3tgl c.69.1.17 34736 1tgl 269 1.12e+01 3tgl c.69.1.17 34734 4tgl 269 1.12e+01 3tgl c.69.1.17 34735 1jf6A 585 1.15e+01 b.1.18.2 71650 b.71.1.1 71651 c.1.8.1 71652 1j0aA 325 1.18e+01 c.79.1.1 83871 1ks9A 291 1.19e+01 a.100.1.7 68857 c.2.1.6 68858 3lck 271 1.19e+01 1fmk d.144.1.7 41686 1qpcA 279 1.20e+01 1fgkA d.144.1.7 41685 1v8aA 265 1.21e+01 c.72.1.2 -8379 1ad1A 266 1.27e+01 1aj2 c.1.21.1 29668 1dceA 567 1.28e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1rcuA 195 1.29e+01 unknown_sccs -7279 1vpe 398 1.34e+01 16pk c.86.1.1 35453 1qi1A 475 1.36e+01 1euhA c.82.1.1 35381 1dv2A 452 1.37e+01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1qpdA 279 1.38e+01 1fmk d.144.1.7 41687 1dv1A 449 1.43e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1njjA 425 1.47e+01 b.49.2.3 -4269 c.1.6.1 -5224 1f3tA 425 1.48e+01 7odcA b.49.2.3 26493 c.1.6.1 28655 1al8 359 1.50e+01 1gox c.1.4.1 28608 1gylA 369 1.53e+01 1gox c.1.4.1 28610 1gox 370 1.55e+01 1gox c.1.4.1 28607 2aaa 484 1.59e+01 7taa b.71.1.1 27777 c.1.8.1 28764 1fg4A 149 1.60e+01 1ewxA c.47.1.10 59814 1gcuA 295 1.61e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1o6jA 150 1.61e+01 c.47.1.10 81089 1o5kA 306 1.62e+01 c.1.10.1 -5482 1o81A 152 1.62e+01 c.47.1.10 81175 1a6dB 543 1.62e+01 1a6dA a.129.1.2 19489 c.8.5.2 30820 d.56.1.2 38937 1iirA 415 1.62e+01 1iirA c.87.1.5 62453 1lc0A 294 1.63e+01 c.2.1.3 73823 d.81.1.4 73824 1i5gA 144 1.64e+01 1ewxA c.47.1.10 61784 1v02A 565 1.67e+01 1nyrA 645 1.68e+01 c.51.1.1 -7543 d.15.10.1 -9186 d.67.1.1 -10244 d.104.1.1 -10765 1v02E 565 1.73e+01 2todA 425 1.74e+01 7odcA b.49.2.3 26489 c.1.6.1 28651 1v03A 565 1.76e+01 1oc9A 152 1.81e+01 c.47.1.10 86797 1vk6A 269 1.82e+01 unknown_sccs -10923 unknown_sccs -10924 1kp8A 547 1.84e+01 a.129.1.1 84414 c.8.5.1 84415 d.56.1.1 84416 1ji2A 585 1.86e+01 b.1.18.2 71672 b.71.1.1 71673 c.1.8.1 71674 1pcqA 524 1.87e+01 a.129.1.1 -1802 c.8.5.1 -6102 d.56.1.1 -9847 1b9iA 388 1.87e+01 1b9hA c.67.1.4 34489 1mnfA 547 1.87e+01 a.129.1.1 -1788 c.8.5.1 -6088 d.56.1.1 -9833 1gr5A 547 1.88e+01 i.16.1.1 65478 1jm7A 112 1.89e+01 g.44.1.1 66880 1k8yA 268 1.90e+01 c.1.2.4 72183 1ub3A 220 1.90e+01 c.1.10.1 88395 1b9hA 388 1.91e+01 1b9hA c.67.1.4 34488 1grlA 548 1.92e+01 1q3rA 548 1.92e+01 a.129.1.2 -1868 c.8.5.2 -6168 d.56.1.2 -9913 1a0dA 440 1.92e+01 1a0cA c.1.15.3 29533 1q3qA 548 1.93e+01 a.129.1.2 -1864 c.8.5.2 -6164 d.56.1.2 -9909 1q3sA 548 1.93e+01 a.129.1.2 -1872 c.8.5.2 -6172 d.56.1.2 -9917 1oelA 547 1.94e+01 1derA a.129.1.1 19452 c.8.5.1 30781 d.56.1.1 38900 1wer 334 2.01e+01 1wer a.116.1.2 19108 1qopA 268 2.04e+01 2tysA c.1.2.4 28570 1ss4A 153 2.04e+01 1uj2A 252 2.05e+01 c.37.1.6 -7061 1thfD 253 2.05e+01 1thfD c.1.2.1 28535 1gpwA 253 2.06e+01 c.1.2.1 65460 1pzgA 331 2.07e+01 c.2.1.5 -5931 d.162.1.1 -11498 1fqjA 325 2.09e+01 1cipA a.66.1.1 18215 c.37.1.8 32098 1jf5A 585 2.10e+01 b.1.18.2 71644 b.71.1.1 71645 c.1.8.1 71646 1jcjA 260 2.12e+01 c.1.10.1 66499 1gotA 350 2.12e+01 1cipA a.66.1.1 18213 c.37.1.8 32096 1beuA 268 2.15e+01 2tysA c.1.2.4 28574 4pgaA 337 2.21e+01 4pgaA c.88.1.1 35565 1euhA 475 2.22e+01 1euhA c.82.1.1 35369 1jg1A 235 2.25e+01 c.66.1.7 66661 1vhcA 224 2.30e+01 c.1.10.1 -5488 1kzgA 353 2.31e+01 a.87.1.1 73355 b.55.1.1 73356 1mxsA 225 2.32e+01 c.1.10.1 -5485 1djpA 330 2.32e+01 4pgaA c.88.1.1 35567 1vh7A 265 2.36e+01 c.1.2.1 -5159 1izcA 339 2.36e+01 c.1.12.5 83838 2liv 344 2.38e+01 2liv c.93.1.1 35708 1kz7A 353 2.40e+01 a.87.1.1 73333 b.55.1.1 73334 1rj2A 353 2.40e+01 1lb1A 353 2.40e+01 a.87.1.1 73784 b.55.1.1 73785 1jflA 228 2.43e+01 c.78.2.1 71656 c.78.2.1 71657 1coo 98 2.46e+01 1coo a.60.3.1 17967 1lb2B 84 2.46e+01 a.60.3.1 77871 1g1yA 585 2.47e+01 1bvzA b.1.18.2 60210 b.71.1.1 60211 c.1.8.1 60212 1pfxL 146 2.49e+01 1cfi g.3.11.1 44207 g.3.11.1 44208 g.32.1.1 44973 1bizA 166 2.55e+01 1b9dA c.55.3.2 33652 1ul3A 112 2.57e+01 d.58.5.1 -9972 1a8q 274 2.58e+01 1brt c.69.1.12 34702 1kfbA 268 2.59e+01 c.1.2.4 77369 1j4zA 547 2.60e+01 a.129.1.1 -1830 c.8.5.1 -6130 d.56.1.1 -9875 1oqjA 97 2.60e+01 d.217.1.1 -9412 1hyvA 166 2.64e+01 1b9dA c.55.3.2 61424 1dl3A 203 2.65e+01 1nsj c.1.2.4 28561 1gvfA 286 2.66e+01 c.1.10.2 70599 1hg3A 225 2.69e+01 1hg3A c.1.1.1 61025 1o6sB 105 2.73e+01 b.1.6.1 81096 1mjfA 281 2.74e+01 c.66.1.17 79198 2tpsA 227 2.76e+01 2tpsA c.1.3.1 28591 1uzxA 169 2.77e+01 d.20.1.2 -9409 1kfcA 268 2.77e+01 c.1.2.4 77371 1itg 166 2.80e+01 1b9dA c.55.3.2 33661 1g69A 228 2.81e+01 c.1.3.1 60313 1p0kA 349 2.81e+01 c.1.4.1 87648 1g6cA 227 2.85e+01 c.1.3.1 60315 1p1xA 260 2.88e+01 1g4sA 226 2.88e+01 c.1.3.1 60247 2cevA 299 2.91e+01 1d3vA c.42.1.1 32576 1g67A 225 2.92e+01 c.1.3.1 60311 1me8A 503 2.93e+01 c.1.5.1 79028 1b9dA 163 2.96e+01 1b9dA c.55.3.2 33649 1brt 277 3.02e+01 1brt c.69.1.12 34699 1prcH 259 3.04e+01 6prcH b.41.1.1 25460 f.23.10.1 43445 1pvnA 376 3.05e+01 c.1.5.1 88312 1viqA 220 3.06e+01 d.113.1.1 -10878 1dxrH 258 3.07e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 1bi4B 160 3.10e+01 1b9dA c.55.3.2 33667 1p3jA 217 3.13e+01 c.37.1.1 -6996 g.41.2.1 -12769 1j08A 226 3.14e+01 c.47.1.2 83855 c.47.1.2 83856 1vhnA 318 3.14e+01 c.1.4.1 -5209 1p5dX 463 3.15e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1nfvA 179 3.20e+01 a.25.1.1 85642 1mra 359 3.28e+01 2mnr c.1.11.2 29250 d.54.1.1 38894 3pga1 337 3.29e+01 4pgaA 1szfA 511 3.34e+01 1srvA 145 3.35e+01 1derA c.8.5.1 30817 1ko7A 314 3.37e+01 c.98.2.1 72797 c.91.1.2 72798 1kq1A 77 3.39e+01 b.38.1.2 72848 1lrtA 376 3.45e+01 c.1.5.1 84685 1tib 269 3.46e+01 3tgl c.69.1.17 34738 2mnr 357 3.48e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1tadA 324 3.48e+01 1cipA a.66.1.1 18194 c.37.1.8 32077 1dtn 359 3.49e+01 2mnr c.1.11.2 29249 d.54.1.1 38893 1mdr 359 3.51e+01 2mnr c.1.11.2 29248 d.54.1.1 38892 1k2yX 463 3.53e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1elrA 131 3.54e+01 1a17 a.118.8.1 19209 1ovmA 552 3.55e+01 c.31.1.3 87461 c.36.1.5 87462 c.36.1.9 87463 1ml4A 308 3.64e+01 c.78.1.1 79255 c.78.1.1 79256 1uf2C 421 3.68e+01 unknown_sccs -1522 b.19.1.1 -3155 1pii 452 3.72e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1b92A 163 3.74e+01 1b9dA c.55.3.2 33654 1ik6A 369 3.76e+01 c.36.1.7 66174 c.48.1.2 66175 1nf2A 268 3.76e+01 c.108.1.10 -6842 1d6nA 214 3.77e+01 1qk3A c.61.1.1 34077 1h1dA 221 3.78e+01 c.66.1.1 83452 1zbdA 203 3.82e+01 1ctqA c.37.1.8 32019 1itvA 195 3.83e+01 b.66.1.1 76791 1ku1A 230 3.90e+01 a.118.3.1 72996 1rfmA 344 3.91e+01 c.122.1.1 -8032 1rj9A 304 3.92e+01 a.24.13.1 -631 c.37.1.10 -7129 1broA 277 3.93e+01 1brt c.69.1.12 34700 1moxA 501 3.99e+01 c.10.2.5 -6193 c.10.2.5 -6194 g.3.9.1 -12472 g.3.9.1 -12473