# List of top-scoring protein chains for t2k-100-30-alpha 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 1d5wC 126 1.30e-02 1dbwA c.23.1.1 31101 1dbwA 126 2.04e-02 1dbwA c.23.1.1 31095 1dckA 126 2.83e-02 1dbwA c.23.1.1 31097 1bouB 302 2.07e-01 1bouB c.56.6.1 33859 1pcfA 66 1.07e+00 1pcfA d.18.1.1 38142 1kwsA 261 1.19e+00 1fggA 261 1.25e+00 1fggA c.68.1.7 34576 1jjfA 268 1.29e+00 c.69.1.2 66765 1i3kA 348 1.91e+00 1xel c.2.1.2 61595 1ek6A 348 1.95e+00 1xel c.2.1.2 29800 1d3yA 301 2.12e+00 1d3yA e.12.1.1 43252 6pfkA 319 2.32e+00 3pfk c.89.1.1 35583 1k78A 149 2.85e+00 a.4.1.5 68255 a.4.1.5 68256 1cqmA 101 3.06e+00 1ris d.58.14.1 39321 1hf2A 210 3.23e+00 1hf2A b.80.3.1 60992 c.102.1.1 60993 3pfk 319 3.30e+00 3pfk c.89.1.1 35581 4pfk 319 3.46e+00 3pfk c.89.1.1 35582 1dz3A 130 4.60e+00 1dz3A c.23.1.1 31105 1ef8A 261 4.82e+00 1ef8A c.14.1.3 30921 1auq 208 4.93e+00 1auq c.62.1.1 34137 4pgaA 337 5.40e+00 4pgaA c.88.1.1 35565 1ewkA 490 5.56e+00 1ewkA c.93.1.1 35712 1jscA 630 5.85e+00 c.31.1.3 67224 c.36.1.1 67225 c.36.1.1 67226 1pfkA 320 5.90e+00 3pfk c.89.1.1 35575 1pdnC 128 6.09e+00 6paxA a.4.1.5 16047 2aaa 484 6.45e+00 7taa b.71.1.1 27777 c.1.8.1 28764 1fcjA 322 6.57e+00 1oasA c.79.1.1 35289 1kgsA 225 6.75e+00 a.4.6.1 68596 c.23.1.1 68597 1gmxA 108 6.98e+00 c.46.1.3 65355 1a6q 382 6.99e+00 1a6q d.158.1.1 42063 1oasA 322 7.06e+00 1oasA c.79.1.1 35293 1gn0A 108 7.17e+00 c.46.1.3 65358 6paxA 133 7.36e+00 6paxA a.4.1.5 64758 a.4.1.5 64759 1qmpA 130 7.52e+00 1dz3A c.23.1.1 31106 1af3 196 7.56e+00 1maz f.1.4.1 43397 2dkb 433 7.69e+00 2dkb c.67.1.4 34438 1fo8A 343 8.20e+00 1foaA c.68.1.10 59927 1thm 279 8.50e+00 1gci c.41.1.1 32544 1d7uA 433 8.57e+00 2dkb c.67.1.4 34439 1ijbA 202 9.18e+00 1oakA 196 9.43e+00 1auq c.62.1.1 34138 1l6sA 323 9.47e+00 1ntr 124 1.02e+01 1dbwA c.23.1.1 31092 3pga1 337 1.02e+01 4pgaA 1c96A 753 1.04e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1pne 140 1.07e+01 1pne d.110.1.1 40866 1i8jA 323 1.08e+01 1b4kA c.1.10.3 61968 1b4eA 323 1.09e+01 1b4kA c.1.10.3 29186 1amj 754 1.12e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1jr2A 286 1.14e+01 c.113.1.1 67111 1foaA 348 1.16e+01 1foaA c.68.1.10 59929 1mldA 314 1.24e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1j5eK 129 1.28e+01 1fnsA 196 1.29e+01 1auq c.62.1.1 34136 1l0oA 150 1.33e+01 2pfkA 320 1.33e+01 3pfk c.89.1.1 35577 1gklA 297 1.34e+01 c.69.1.2 65250 1kzuB 41 1.34e+01 1kzuB f.3.1.1 43728 1a1s 314 1.38e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1dmlA 319 1.39e+01 1dmlA d.131.1.2 41380 d.131.1.2 41381 1kzhA 555 1.49e+01 1louA 101 1.50e+01 1ris d.58.14.1 39323 1tgoA 773 1.53e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 2rveA 244 1.54e+01 1rvaA c.52.1.2 33283 6acn 754 1.57e+01 1amj c.8.2.1 30721 c.83.1.1 35397 1maz 221 1.65e+01 1maz f.1.4.1 43393 1dekA 241 1.66e+01 1dekA c.37.1.1 31842 1agx 331 1.67e+01 4pgaA c.88.1.1 35564 7acn 754 1.67e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1ba1 386 1.73e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1fsz 372 1.73e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1gkkA 297 1.79e+01 c.69.1.2 65248 1hzpA 335 1.80e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1fjgK 129 1.86e+01 1fjfK c.55.4.1 33733 1iirA 415 1.86e+01 1iirA c.87.1.5 62453 1kq4A 232 1.89e+01 d.207.1.1 68791 1bupA 386 1.89e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1kay 381 1.96e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 8acn 754 2.03e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1icyA 37 2.05e+01 1iufA 144 2.06e+01 1jsrA 327 2.31e+01 c.88.1.1 67237 1d0cA 444 2.34e+01 d.174.1.1 64769 1liiA 363 2.34e+01 1nseA 444 2.39e+01 1nseA d.174.1.1 42534 1ble 163 2.40e+01 1ble c.38.1.1 32475 1ekeA 230 2.46e+01 1ekeA c.55.3.1 33572 1gt91 357 2.49e+01 1fil 139 2.50e+01 1pne d.110.1.1 40869 1fgjA 546 2.53e+01 1fgjA a.138.1.3 19679 1skyB 502 2.58e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1b0jA 754 2.59e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1ris 101 2.59e+01 1ris d.58.14.1 39314 1azwA 313 2.61e+01 1qtrA c.69.1.7 34658 1ermA 263 2.66e+01 1btl e.3.1.1 42690 1ig3A 263 2.67e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1d1vA 444 2.73e+01 1nseA d.174.1.1 59101 2dln 306 2.74e+01 1iow c.30.1.2 31715 d.142.1.1 41483 1delA 241 2.78e+01 1dekA c.37.1.1 31844 1hv9A 456 2.80e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1ax0 239 2.81e+01 1led b.29.1.1 24042 1ed5A 444 2.82e+01 1nseA d.174.1.1 42530 1otfA 62 2.88e+01 1otfA d.80.1.1 39820 1dsxA 87 2.90e+01 1t1dA d.42.1.2 38644 1dtdA 303 2.93e+01 1aye c.56.5.1 33823 1jmkC 230 2.95e+01 1itm 130 2.96e+01 1rcb a.26.1.2 16858 1jztA 246 2.99e+01 c.104.1.1 63319 7taa 478 3.00e+01 7taa b.71.1.1 27778 c.1.8.1 28765 1a3gA 308 3.01e+01 1daaA e.17.1.1 43286 1f8xA 157 3.04e+01 1f8xA c.23.14.1 31397 1dbiA 280 3.07e+01 1gci c.41.1.1 32543 1g8qA 90 3.08e+01 1g8qA a.135.1.1 19621 1yasA 257 3.12e+01 1qj4A c.69.1.20 34801 1gp2G 71 3.22e+01 1tbgE a.137.3.1 19635 1qj4A 257 3.23e+01 1qj4A c.69.1.20 34796 1mml 265 3.30e+01 1mml e.8.1.2 43015 1f8yA 157 3.32e+01 1f8xA c.23.14.1 31395 1a4uA 254 3.37e+01 1b16A c.2.1.2 29878 1ev0A 58 3.46e+01 1ev0A d.71.1.1 39594 1i1kA 309 3.55e+01 1daaA e.17.1.1 61533 1a81A 254 3.58e+01 1a81A d.93.1.1 40507 d.93.1.1 40508 1qczA 169 3.59e+01 1qczA c.23.8.1 31276 1fqgA 263 3.61e+01 1btl e.3.1.1 42699 1fxjA 331 3.65e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1b93A 152 3.70e+01 1b93A c.24.1.2 31507 1fwyA 331 3.73e+01 1fwyA b.81.1.4 28064 c.68.1.5 34522 1tnrA 144 3.91e+01 2tnfA b.22.1.1 23867 1l7uA 263 3.93e+01 1m40A 263 3.93e+01 1shcA 195 3.94e+01 1shcA b.55.1.2 26992 1fzqA 181 3.94e+01 1hurA c.37.1.8 32060 1poxA 585 3.96e+01 1poxA c.31.1.3 31731 c.36.1.1 31793 c.36.1.1 31794 1gzcA 239 3.97e+01