# 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 2.03e-23 1d9eA 284 1.15e-22 1d9eA c.1.10.4 29195 1g7uA 284 1.28e-22 1d9eA c.1.10.4 60334 1pe1A 267 1.16e-21 1lroA 267 3.64e-21 c.1.10.4 78161 1of8A 370 8.95e-11 1og0A 370 9.33e-11 1gg1A 350 1.42e-09 1qr7A c.1.10.4 29187 1n8fA 350 1.42e-09 c.1.10.4 85397 1rvgA 305 5.44e-02 1jf8A 131 8.78e-02 c.44.1.1 66621 1k2yX 463 1.15e-01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1ljuA 130 1.16e-01 c.44.1.1 73944 1rxiA 131 1.33e-01 1ljlA 131 1.39e-01 c.44.1.1 73939 1p5dX 463 1.72e-01 1lk0A 131 1.74e-01 c.44.1.1 73948 1p0kA 349 1.78e-01 c.1.4.1 87648 1q26A 277 4.13e-01 1e1dA 553 4.23e-01 1e1dA e.26.1.1 43363 1gntA 553 4.28e-01 e.26.1.1 70290 1aj2 282 7.28e-01 1aj2 c.1.21.1 29665 1a53 247 8.37e-01 1a53 c.1.2.4 28564 1jul 248 8.38e-01 1a53 c.1.2.4 28566 1qoxA 449 9.96e-01 c.1.8.4 28965 1me8A 503 1.41e+00 c.1.5.1 79028 1a6dB 543 1.41e+00 1a6dA a.129.1.2 19489 c.8.5.2 30820 d.56.1.2 38937 1pdz 434 1.50e+00 4enl c.1.11.1 29215 d.54.1.1 38859 1evjA 352 1.81e+00 1ofgA c.2.1.3 30070 d.81.1.5 39985 1ofgA 381 1.82e+00 1ofgA c.2.1.3 30064 d.81.1.5 39979 1h6dA 433 1.88e+00 c.2.1.3 65656 d.81.1.5 65657 1mzhA 225 1.98e+00 c.1.10.1 79698 1jcjA 260 2.01e+00 c.1.10.1 66499 1ypn 313 2.04e+00 1pda c.94.1.1 35754 d.50.2.1 38797 1gtkA 313 2.07e+00 c.94.1.1 76346 d.50.2.1 76347 1p1xA 260 2.09e+00 1hizA 379 2.21e+00 c.1.8.3 65841 1pvnA 376 2.26e+00 c.1.5.1 88312 1fp2A 352 2.27e+00 1fpxA a.4.5.29 59941 c.66.1.12 59942 1ub3A 220 2.30e+00 c.1.10.1 88395 1lrtA 376 2.50e+00 c.1.5.1 84685 1pda 313 2.50e+00 1pda c.94.1.1 35751 d.50.2.1 38794 1v03A 565 2.67e+00 1ktnA 250 2.90e+00 c.1.10.1 72988 1v02A 565 2.93e+00 1hruA 188 3.22e+00 1hruA d.115.1.1 40926 1v02E 565 3.49e+00 1c89A 134 3.53e+00 1msi b.85.1.1 28314 b.85.1.1 28315 1o5kA 305 3.56e+00 1j5tA 242 3.60e+00 c.1.2.4 71583 1nfvA 179 3.65e+00 a.25.1.1 85642 1k8yA 268 3.69e+00 c.1.2.4 72183 1e9iA 431 3.85e+00 c.1.11.1 64818 d.54.1.1 64819 1qopA 268 3.85e+00 2tysA c.1.2.4 28570 1beuA 268 3.96e+00 2tysA c.1.2.4 28574 1rrvA 416 4.01e+00 1i4nA 251 4.17e+00 c.1.2.4 71114 3nla 74 4.77e+00 1msi b.85.1.1 28316 1dv2A 452 5.22e+00 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1kfbA 268 5.28e+00 c.1.2.4 77369 1n8nA 212 5.34e+00 1kfcA 268 5.50e+00 c.1.2.4 77371 1mxsA 225 5.52e+00 1dv1A 449 5.55e+00 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1ks9A 291 6.10e+00 a.100.1.7 68857 c.2.1.6 68858 1hl9A 449 6.34e+00 1ixkA 315 6.38e+00 1p1mA 406 6.54e+00 b.92.1.4 87696 c.1.9.9 87697 1j6pA 418 6.95e+00 b.92.1.4 77089 c.1.9.9 77090 1i5gA 144 7.49e+00 1ewxA c.47.1.10 61784 1m3uA 264 7.50e+00 c.1.12.8 84784 1vk6A 269 7.58e+00 1brt 277 7.98e+00 1brt c.69.1.12 34699 1iirA 415 8.00e+00 1iirA c.87.1.5 62453 1ucsA 64 8.41e+00 b.85.1.1 88466 1oi7A 288 8.51e+00 c.2.1.8 87049 c.23.4.1 87050 2aaa 484 9.16e+00 7taa b.71.1.1 27777 c.1.8.1 28764 1jpdX 324 9.31e+00 c.1.11.2 67014 d.54.1.1 67015 1ulzA 451 9.44e+00 1fg4A 149 9.58e+00 1ewxA c.47.1.10 59814 1oc9A 152 9.62e+00 c.47.1.10 86797 1o6jA 150 9.65e+00 c.47.1.10 81089 1o81A 152 9.75e+00 c.47.1.10 81175 1b9iA 388 9.79e+00 1b9hA c.67.1.4 34489 1dceA 567 9.90e+00 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1rvkA 382 9.94e+00 1uasA 362 1.00e+01 b.71.1.1 88388 c.1.8.1 88389 1b9hA 388 1.03e+01 1b9hA c.67.1.4 34488 1thfD 253 1.03e+01 1thfD c.1.2.1 28535 1i2mB 402 1.06e+01 1a12A b.69.5.1 61569 1gpwA 253 1.06e+01 c.1.2.1 65460 1a12A 413 1.08e+01 1a12A b.69.5.1 27663 1a0dA 440 1.09e+01 1a0cA c.1.15.3 29533 2pbg 468 1.11e+01 1e70M c.1.8.4 28948 1g67A 225 1.11e+01 c.1.3.1 60311 1g4sA 226 1.11e+01 c.1.3.1 60247 1g6cA 227 1.11e+01 c.1.3.1 60315 1g69A 228 1.11e+01 c.1.3.1 60313 1tib 269 1.13e+01 3tgl c.69.1.17 34738 1g8mA 593 1.13e+01 1g8mA c.24.1.3 60371 c.97.2.1 60372 1broA 277 1.13e+01 1brt c.69.1.12 34700 1vh7A 265 1.15e+01 1uf3A 228 1.16e+01 9ameA 66 1.16e+01 1msi b.85.1.1 28294 1m9nA 613 1.19e+01 c.24.1.3 78870 c.97.2.1 78871 4pgaA 337 1.20e+01 4pgaA c.88.1.1 35565 1ecpA 238 1.21e+01 1ecpA c.56.2.1 33775 1pk9A 237 1.21e+01 1pw7A 239 1.22e+01 1ojxA 263 1.22e+01 2tpsA 227 1.23e+01 2tpsA c.1.3.1 28591 1eluA 390 1.23e+01 1elqA c.67.1.3 34434 1djpA 330 1.24e+01 4pgaA c.88.1.1 35567 1pbgA 468 1.25e+01 1e70M c.1.8.4 28946 1ovgA 238 1.27e+01 1f3tA 425 1.27e+01 7odcA b.49.2.3 26493 c.1.6.1 28655 1dtlA 161 1.28e+01 1ncx a.39.1.5 17229 1la0A 161 1.28e+01 a.39.1.5 77864 1j0dA 341 1.28e+01 c.79.1.1 83902 1njjA 425 1.28e+01 1j08A 226 1.29e+01 c.47.1.2 83855 c.47.1.2 83856 1oniA 138 1.30e+01 d.79.1.1 87144 1e4iA 447 1.30e+01 1e70M c.1.8.4 59225 1qvbA 481 1.31e+01 1qvbA c.1.8.4 28983 1fts 295 1.32e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1tr1A 447 1.32e+01 1e70M c.1.8.4 28957 4pbgA 468 1.33e+01 1e70M c.1.8.4 28949 1pii 452 1.34e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1bgaA 447 1.35e+01 1e70M c.1.8.4 28961 1bggA 448 1.35e+01 1e70M c.1.8.4 28953 1pjcA 361 1.36e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 3tgl 269 1.39e+01 3tgl c.69.1.17 34733 1ass 159 1.41e+01 1a6dA c.8.5.2 30818 1aj4 161 1.42e+01 1ncx a.39.1.5 17244 1mioB 458 1.42e+01 1qguB c.92.2.3 35602 1n2tA 386 1.43e+01 c.67.1.3 79858 1v08A 512 1.44e+01 1h49A 512 1.44e+01 c.1.8.4 83477 1hxjA 507 1.44e+01 c.1.8.4 76729 1ko7A 314 1.46e+01 c.98.2.1 72797 c.91.1.2 72798 1e1eA 512 1.46e+01 1e70M c.1.8.4 28944 1ops 64 1.58e+01 1msi b.85.1.1 28302 1a3p 43 1.60e+01 1egf g.3.11.1 44284 2todA 425 1.64e+01 7odcA b.49.2.3 26489 c.1.6.1 28651 1ktbA 405 1.64e+01 b.71.1.1 72960 c.1.8.1 72961 1l8qA 324 1.65e+01 a.4.12.2 77809 c.37.1.20 77810 1j2yA 167 1.65e+01 c.23.13.1 84047 1b23P 405 1.68e+01 1efcA b.43.3.1 25689 b.44.1.1 25729 c.37.1.8 32124 1korA 400 1.68e+01 c.26.2.1 72824 d.210.1.1 72825 5tgl 269 1.68e+01 3tgl c.69.1.17 34736 1tgl 269 1.69e+01 3tgl c.69.1.17 34734 4tgl 269 1.69e+01 3tgl c.69.1.17 34735 1ujqA 305 1.75e+01 1eft 405 1.79e+01 1efcA b.43.3.1 25688 b.44.1.1 25728 c.37.1.8 32123 1j0eA 341 1.83e+01 c.79.1.1 83906 1c30B 382 1.86e+01 c.8.3.1 30736 c.23.16.1 31413 1pdo 135 1.86e+01 1pdo c.54.1.1 33376 1f2dA 341 1.87e+01 1f2dA c.79.1.1 35298 1gvfA 286 1.87e+01 c.1.10.2 70599 1r66A 337 1.90e+01 1ovmA 552 1.91e+01 c.31.1.3 87461 c.36.1.5 87462 c.36.1.9 87463 1lwjA 441 1.92e+01 b.71.1.1 74303 c.1.8.1 74304 1s9hA 268 1.92e+01 1jxkA 491 1.94e+01 b.71.1.1 63316 c.1.8.1 63317 1gt6A 269 1.95e+01 c.69.1.17 76342 1jcmP 259 1.95e+01 c.1.2.4 71633 1fcdA 401 1.99e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1a3wA 500 2.01e+01 1a49A b.58.1.1 27060 c.1.12.1 29288 c.49.1.1 33142 1jztA 246 2.03e+01 c.104.1.1 63319 1j49A 333 2.09e+01 c.2.1.4 71498 c.23.12.1 71499 1j4aA 333 2.09e+01 c.2.1.4 71502 c.23.12.1 71503 1mb4A 370 2.11e+01 c.2.1.3 78908 d.81.1.1 78909 1qpcA 278 2.14e+01 1fgkA d.144.1.7 41685 3lck 270 2.15e+01 1fmk d.144.1.7 41686 1e0rB 159 2.18e+01 1a6dA c.8.5.2 30824 1rj9A 304 2.19e+01 1cr6A 554 2.22e+01 1cr6B c.108.1.2 43337 c.69.1.11 34687 1keeB 381 2.25e+01 c.8.3.1 68498 c.23.16.1 68499 1r6dA 337 2.25e+01 1ea9C 583 2.33e+01 b.1.18.2 70087 b.71.1.1 70088 c.1.8.1 70089 1cs0B 382 2.38e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1cec 343 2.39e+01 1ceo c.1.8.3 28809 3pga1 337 2.40e+01 4pgaA 1o02A 500 2.41e+01 c.82.1.1 86499 1cw3A 494 2.41e+01 1bpwA c.82.1.1 35349 1od0A 468 2.44e+01 c.1.8.4 86818 1b1yA 500 2.45e+01 1byb c.1.8.1 28796 1vjrA 271 2.49e+01 1euhA 475 2.51e+01 1euhA c.82.1.1 35369 1ad1A 266 2.53e+01 1aj2 c.1.21.1 29668 1qi1A 475 2.57e+01 1euhA c.82.1.1 35381 1nsj 205 2.58e+01 1nsj c.1.2.4 28560 1ceo 343 2.59e+01 1ceo c.1.8.3 28808 1ho1A 242 2.64e+01 1ho1A c.1.24.1 61097 1m1zA 513 2.65e+01 c.26.2.1 78457 d.153.1.1 78458 1m5wA 243 2.66e+01 c.1.24.1 84836 1a8y 367 2.66e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1a8uA 277 2.68e+01 1brt c.69.1.12 34703 1j7hA 130 2.76e+01 d.79.1.1 77097 1qpdA 278 2.77e+01 1fmk d.144.1.7 41687 1ax0 239 2.77e+01 1led b.29.1.1 24042 1h5yA 253 2.78e+01 c.1.2.1 65638 1pw5A 253 2.84e+01 1m6vB 382 2.96e+01 c.8.3.1 74542 c.23.16.1 74543 1smaA 588 2.97e+01 1bvzA b.1.18.2 21854 b.71.1.1 27781 c.1.8.1 28768 1m54A 363 2.99e+01 c.79.1.1 74463 1o0yA 260 3.02e+01 c.1.10.1 80756 1ehaA 558 3.05e+01 1ehaA b.1.18.2 21859 b.71.1.1 27786 c.1.8.1 28773 1jbqA 435 3.06e+01 1oasA c.79.1.1 62850 1gqnA 252 3.15e+01 1o04A 500 3.16e+01 c.82.1.1 86508 1a9xB 379 3.16e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1pfxL 146 3.16e+01 1cfi g.3.11.1 44207 g.3.11.1 44208 g.32.1.1 44973 1zfjA 491 3.19e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1fc4A 401 3.23e+01 1bs0A c.67.1.4 59760 1jsqA 582 3.25e+01 i.13.1.1 63270 1byb 495 3.27e+01 1byb c.1.8.1 28790 1ca1 370 3.28e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1hl2A 297 3.29e+01 c.1.10.1 83581 2pviA 157 3.33e+01 3pviA c.52.1.6 33302 1jchA 551 3.39e+01 b.101.1.1 66491 b.110.1.1 66492 h.4.9.1 66493 1ox6A 555 3.43e+01 c.1.2.1 87505 c.23.16.1 87506 7odcA 424 3.45e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1btc 491 3.46e+01 1byb c.1.8.1 28791 1jbaA 204 3.47e+01 1rec a.39.1.5 17330 1eh9A 558 3.49e+01 1ehaA b.1.18.2 21858 b.71.1.1 27785 c.1.8.1 28772 1jdbC 382 3.50e+01 c.8.3.1 30756 c.23.16.1 31433 1f9aA 168 3.52e+01 1f9aA c.26.1.3 31602 1uaaA 673 3.62e+01 1pjr c.37.1.19 32401 c.37.1.19 32402 1smd 496 3.63e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1vpe 398 3.63e+01 16pk c.86.1.1 35453 1jvnA 554 3.64e+01 c.1.2.1 67355 c.23.16.1 67356 1k0zA 156 3.70e+01 c.52.1.6 84273 1eyuA 157 3.73e+01 3pviA c.52.1.6 33304 1exmA 405 3.75e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1fyuA 255 3.76e+01 1led b.29.1.1 24048 1o4wA 147 3.76e+01 c.120.1.1 86629 1jcnA 514 3.79e+01 c.1.5.1 84160 d.37.1.1 84161 d.37.1.1 84162 1uzxA 168 3.82e+01 1p4cA 380 3.85e+01 1gviA 588 3.87e+01 b.1.18.2 70604 b.71.1.1 70605 c.1.8.1 70606 1aipA 405 3.88e+01 1efcA b.43.3.1 25697 b.44.1.1 25737 c.37.1.8 32132 1q4nX 496 3.89e+01 1f1xA 322 3.89e+01 d.32.1.3 83208 d.32.1.3 83209 1nal1 297 3.89e+01 1nal3 1fdyA 297 3.91e+01 1nal3 c.1.10.1 29071 1uyrA 737 3.93e+01 1od2A 805 3.95e+01 c.14.1.4 86821 c.14.1.4 86822 3tatA 397 3.96e+01 1ajsA c.67.1.1 34379 2fokA 579 3.97e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323