# List of top-scoring protein chains for t2k-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 1hg5A 289 2.13e-17 1hg5A a.118.10.1 19221 1hf8A 289 2.13e-17 1hg5A a.118.10.1 19219 1hx8B 299 1.04e-16 1hg5A a.118.10.1 19223 1i19A 561 2.01e-01 1i19A d.58.32.3 61522 d.145.1.1 61523 1k4wB 15 3.02e-01 1k7lB 21 4.22e-01 1fm6E 27 4.39e-01 2prgC 88 7.15e-01 2prgC a.137.6.1 19644 1qca 213 9.50e-01 3cla c.43.1.1 32616 1gk4A 84 1.68e+00 1e9xA 455 2.39e+00 1ea1A a.104.1.1 18969 1ea1A 455 2.39e+00 1ea1A a.104.1.1 18970 1gbnA 402 2.59e+00 2dkb c.67.1.4 34455 2oatA 439 2.88e+00 2dkb c.67.1.4 34452 1oatA 439 2.88e+00 2dkb c.67.1.4 34461 1cla 213 3.00e+00 3cla c.43.1.1 32612 1cia 213 3.15e+00 3cla c.43.1.1 32613 3cla 213 3.16e+00 3cla c.43.1.1 32610 2cla 213 3.25e+00 3cla c.43.1.1 32614 4cla 213 3.68e+00 3cla c.43.1.1 32611 1ew3A 159 4.06e+00 1mup b.60.1.1 27114 1eduA 149 4.25e+00 1eduA a.118.9.1 19215 1blxB 166 4.70e+00 1bd8 a.118.2.1 19160 1ap7 168 4.76e+00 1bd8 a.118.2.1 19170 1h6zA 913 4.99e+00 1jmrA 249 5.25e+00 1k3rA 268 5.54e+00 1rlr 761 5.71e+00 1rlr a.98.1.1 18753 c.7.1.2 30679 1f9mA 112 5.91e+00 1erv c.47.1.1 32736 1faaA 124 5.99e+00 1erv c.47.1.1 32738 1ig0A 319 6.23e+00 1ig0A b.82.6.1 62354 c.100.1.1 62355 1tis 286 6.64e+00 1bkpA d.117.1.1 41040 1bx1A 314 7.13e+00 1fnc b.43.4.2 25629 c.25.1.1 31519 1bx0A 314 7.13e+00 1fnc b.43.4.2 25630 c.25.1.1 31520 1frqA 314 7.13e+00 1fnc b.43.4.2 25632 c.25.1.1 31522 1fnc 314 7.14e+00 1fnc b.43.4.2 25627 c.25.1.1 31517 1fnd 314 7.14e+00 1fnc b.43.4.2 25626 c.25.1.1 31516 1frn 314 7.75e+00 1fnc b.43.4.2 25631 c.25.1.1 31521 1g2sA 71 9.04e+00 1kkoA 413 9.58e+00 c.1.11.2 68675 d.54.1.1 68676 1vid 221 9.72e+00 1vid c.66.1.1 34178 1hv8A 367 1.08e+01 1hv8A c.37.1.13 32405 c.37.1.13 32406 1bob 320 1.10e+01 1bob d.108.1.1 40816 1dxqA 273 1.13e+01 1d4aA c.23.5.3 31213 1jb9A 316 1.19e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1r1rA 761 1.20e+01 1rlr a.98.1.1 18754 c.7.1.2 30680 1b5l 172 1.22e+01 1b5l a.26.1.3 16900 1kz7A 353 1.27e+01 1irv 108 1.41e+01 1ycc a.3.1.1 15857 1f28A 297 1.43e+01 1bkpA d.117.1.1 59608 1l3wA 546 1.48e+01 1b93A 152 1.57e+01 1b93A c.24.1.2 31507 1b93B 152 1.57e+01 1b93A c.24.1.2 31508 1ef5A 103 1.60e+01 1lfdA d.15.1.5 37629 1ldm 329 1.60e+01 3ldh c.2.1.5 30160 d.162.1.1 42127 6ldh 330 1.60e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1mr8A 93 1.65e+01 1b4cA a.39.1.2 17186 1foeA 377 1.66e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1hjrA 158 1.74e+01 1hjrA c.55.3.6 33727 1qrdA 273 1.74e+01 1d4aA c.23.5.3 31217 1f8yA 157 1.76e+01 1f8xA c.23.14.1 31395 1f8xA 157 1.76e+01 1f8xA c.23.14.1 31397 1i7hA 111 1.79e+01 1iab 200 1.81e+01 1iae d.92.1.8 40312 1ast 200 1.81e+01 1iae d.92.1.8 40310 1iae 200 1.81e+01 1iae d.92.1.8 40311 1qjjA 200 1.82e+01 1iae d.92.1.8 40313 1rfbA 119 2.02e+01 1d9cA a.26.1.3 16905 1d9cA 121 2.06e+01 1d9cA a.26.1.3 16901 1e92A 288 2.14e+01 c.2.1.2 64798 1e7wA 291 2.16e+01 c.2.1.2 59373 1gpl 432 2.18e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 1jk0B 345 2.28e+01 a.25.1.2 63143 3pte 349 2.49e+01 3pte e.3.1.1 42687 1hvbA 349 2.49e+01 3pte e.3.1.1 42686 4r1rA 761 2.51e+01 1rlr a.98.1.1 18772 c.7.1.2 30698 2r1rA 761 2.54e+01 1rlr a.98.1.1 18769 c.7.1.2 30695 6r1rA 761 2.55e+01 1rlr a.98.1.1 18760 c.7.1.2 30686 7r1rA 761 2.56e+01 1rlr a.98.1.1 18763 c.7.1.2 30689 5r1rA 761 2.57e+01 1rlr a.98.1.1 18757 c.7.1.2 30683 1lgyA 269 2.81e+01 3tgl c.69.1.17 34758 1h2rS 267 2.96e+01 2frvA e.19.1.1 43310 1f3tB 425 3.06e+01 7odcA b.49.2.1 26494 c.1.6.1 28656 1inzA 148 3.12e+01 1eduA a.118.9.1 62610 2todA 425 3.12e+01 7odcA b.49.2.1 26489 c.1.6.1 28651 1ebvA 551 3.13e+01 1cqeA a.93.1.2 18709 g.3.11.1 44252 1ht8A 551 3.22e+01 1cqeA a.93.1.2 61248 g.3.11.1 61249 1diyA 553 3.23e+01 1cqeA a.93.1.2 18706 g.3.11.1 44249 1prhA 554 3.24e+01 1cqeA a.93.1.2 18710 g.3.11.1 44253 1qlsA 99 3.26e+01 1psrA a.39.1.2 17185 1gw5A 621 3.33e+01 1qgaA 308 3.40e+01 1fnc b.43.4.2 25637 c.25.1.1 31527 1qfzA 308 3.40e+01 1fnc b.43.4.2 25633 c.25.1.1 31523 1qg0A 308 3.40e+01 1fnc b.43.4.2 25639 c.25.1.1 31529 1glm 470 3.45e+01 1ayx a.102.1.1 18821 1gah 471 3.45e+01 1ayx a.102.1.1 18820 1pmaP 211 3.45e+01 1pmaP d.153.1.4 41863 1pgeA 576 3.45e+01 1cqeA a.93.1.2 18707 g.3.11.1 44250 1gai 472 3.45e+01 1ayx a.102.1.1 18819 1cqeA 580 3.46e+01 1cqeA a.93.1.2 18703 g.3.11.1 44246 1kyoW 108 3.60e+01 155c 135 3.61e+01 1ycc a.3.1.1 15900 1yic 108 3.62e+01 1ycc a.3.1.1 15863 1yfc 108 3.62e+01 1ycc a.3.1.1 15864 1a9v 129 3.67e+01 1a9v b.1.1.5 21946 1ktjA 129 3.67e+01 1h2aS 317 3.72e+01 2frvA e.19.1.1 43311 1keyA 235 3.73e+01 1cjbA 231 3.74e+01 1qk3A c.61.1.1 34079 1cyg 680 3.77e+01 1cxlA b.1.1.5 21843 b.3.1.1 22512 b.71.1.1 27750 c.1.8.1 28737 1ibyA 112 3.85e+01 1ibzA b.6.1.4 62233 1ibzA 112 3.85e+01 1ibzA b.6.1.4 62237 1qleB 252 3.86e+01 2occB b.6.1.2 23038 f.2.1.3 43621 1irw 108 3.90e+01 1ycc a.3.1.1 15855 1lb1A 353 3.93e+01