# List of top-scoring protein chains for T0284.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 1mumA 295 1.00e-27 c.1.12.7 85108 1xg4A 295 2.10e-27 1ujqA 305 2.26e-27 c.1.12.7 99463 1zlpA 318 4.11e-25 1igwA 434 5.84e-25 c.1.12.7 62370 1f8mA 429 2.32e-24 1dquA c.1.12.7 29315 1f8iA 429 5.02e-24 1dquA c.1.12.7 29321 1s2wA 295 7.11e-24 c.1.12.7 98407 1s2uA 295 2.27e-23 c.1.12.7 98401 1dquA 538 1.00e-22 1dquA c.1.12.7 29314 1oy0A 281 1.13e-03 c.1.12.8 87543 1m3uA 264 1.02e-01 c.1.12.8 84784 1p0kA 349 3.56e-01 c.1.4.1 87648 1xm3A 264 9.33e-01 c.1.31.1 115461 1tygA 253 9.36e-01 c.1.31.1 107454 1qapA 296 1.95e+00 1qpoA c.1.17.1,d.41.2.1 29559,38595 1o66A 275 2.12e+00 c.1.12.8 92547 1qwgA 251 2.75e+00 c.1.27.1 96473 1rd5A 262 3.13e+00 c.1.2.4 111772 1t7lA 766 3.31e+00 1xdjA 766 3.34e+00 1xpgA 765 3.39e+00 1mnzA 388 3.91e+00 c.1.15.3 79328 1o1hA 387 3.91e+00 c.1.15.3 81044 1oadA 388 3.94e+00 c.1.15.3 81253 1jflA 228 4.50e+00 c.78.2.1,c.78.2.1 71656,71657 1o5iA 249 5.96e+00 c.2.1.2 92499 1v7wA 807 6.23e+00 a.102.1.4,b.30.5.3 108411,108412 1tjrA 261 6.42e+00 c.1.2.4 119292 1zfjA 491 6.46e+00 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1gw9A 388 6.48e+00 c.1.15.3 70658 2fn4A 181 6.78e+00 c.37.1.8 133806 1ps9A 671 7.24e+00 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1me8A 503 8.25e+00 c.1.5.1 79028 1phwA 284 8.57e+00 c.1.10.4 104155 1g7uA 284 8.61e+00 1d9eA c.1.10.4 60334 1ktbA 405 8.98e+00 b.71.1.1,c.1.8.1 72960,72961 1rzmA 338 9.40e+00 c.1.10.4 105137 1vr6A 350 9.46e+00 c.1.10.4 120439 1h5yA 253 9.95e+00 c.1.2.1 65638 1x1oA 286 1.00e+01 1rvkA 382 1.04e+01 c.1.11.2,d.54.1.1 97928,97929 1pvnA 376 1.07e+01 c.1.5.1 88312 1kpiA 302 1.11e+01 c.66.1.18 68743 2b7nA 273 1.11e+01 1lrtA 376 1.15e+01 c.1.5.1 84685 6xia 387 1.21e+01 4xis 1wv2A 265 1.31e+01 c.1.31.1 114910 1zq9A 285 1.49e+01 c.66.1.24 125505 2a0nA 265 1.63e+01 c.1.2.1 125961 2eryA 172 1.63e+01 c.37.1.8 132306 1ad1A 266 1.66e+01 1aj2 c.1.21.1 29668 2b94A 267 1.69e+01 1uoeA 366 1.72e+01 c.119.1.2 107972 1mra 359 1.77e+01 2mnr 1oi2A 366 1.88e+01 c.119.1.2 103802 1tkkA 366 1.97e+01 c.1.11.2,d.54.1.1 107089,107090 1clkA 387 1.98e+01 4xis c.1.15.3 29438 1dtn 359 1.99e+01 2mnr 1vkfA 188 2.00e+01 c.1.29.1 108656 2mnr 357 2.00e+01 2mnr 1mdr 359 2.01e+01 2mnr 1mdl 359 2.06e+01 2mnr 1dxiA 388 2.09e+01 4xis c.1.15.3 29407 1vl6A 388 2.10e+01 c.2.1.7,c.58.1.3 108724,108725 1ujpA 271 2.13e+01 c.1.2.4 99462 1vh7A 265 2.17e+01 c.1.2.1 100646 1vqqA 646 2.18e+01 d.17.4.5,d.175.1.1,e.3.1.1 114009,114010,114011 1mwsA 646 2.18e+01 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 1o4uA 285 2.22e+01 c.1.17.1,d.41.2.1 86624,86625 1zcoA 262 2.27e+01 16pk 415 2.30e+01 16pk 1vrdA 494 2.46e+01 1to0A 167 2.59e+01 c.116.1.3 107153 1o60A 292 2.61e+01 c.1.10.4 92532 1ugpA 203 2.69e+01 d.149.1.1 107831 1ireA 204 2.71e+01 d.149.1.1 76769 1thfD 253 2.80e+01 1thfD c.1.2.1 28535 1o5kA 306 2.84e+01 c.1.10.1 92504 1zc3A 175 2.86e+01 c.37.1.8 124880 1zvvA 332 2.95e+01 a.35.1.5,c.93.1.1 125727,125728 1tx2A 297 2.99e+01 c.1.21.1 107420 1mdwA 328 3.04e+01 d.3.1.3 84934 1wzkA 585 3.06e+01 b.1.18.2,b.71.1.1,c.1.8.1 121507,121508,121509 2c3zA 222 3.07e+01 1vfoA 585 3.08e+01 b.1.18.2,b.71.1.1,c.1.8.1 120048,120049,120050 1vb9A 585 3.09e+01 b.1.18.2,b.71.1.1,c.1.8.1 119945,119946,119947 1ji2A 585 3.11e+01 b.1.18.2,b.71.1.1,c.1.8.1 71672,71673,71674 1bxbA 387 3.12e+01 4xis c.1.15.3 29543 1g1yA 585 3.13e+01 1bvzA b.1.18.2,b.71.1.1,c.1.8.1 60210,60211,60212 1ugrA 203 3.16e+01 d.149.1.1 107835 1a53 247 3.18e+01 1a53 1jf6A 585 3.19e+01 b.1.18.2,b.71.1.1,c.1.8.1 71650,71651,71652 1jul 248 3.19e+01 1a53 1k9oI 378 3.19e+01 e.1.1.1 68356 1jf5A 585 3.22e+01 b.1.18.2,b.71.1.1,c.1.8.1 71644,71645,71646 2sas 185 3.26e+01 2sas 1wzmA 585 3.29e+01 b.1.18.2,b.71.1.1,c.1.8.1 121519,121520,121521 1xi3A 215 3.31e+01 c.1.3.1 109601 1ugsA 203 3.37e+01 d.149.1.1 107837 1nf7A 514 3.38e+01 c.1.5.1,d.37.1.1,d.37.1.1 91852,91853,91854 1znnA 325 3.40e+01 c.1.2.6 125386 1wzlA 585 3.44e+01 b.1.18.2,b.71.1.1,c.1.8.1 121513,121514,121515 1muwA 386 3.48e+01 c.1.15.3 79495 1qt1A 387 3.55e+01 4xis c.1.15.3 29436 1gpwA 253 3.56e+01 c.1.2.1 65460 1ni4A 365 3.59e+01 c.36.1.11 85728 2cdh0 226 3.69e+01 1pc5A 107 3.72e+01 d.58.1.2 94429 1xylA 386 3.83e+01 4xis c.1.15.3 29413 1tqjA 230 3.89e+01 c.1.2.2 107228 2gyiA 386 3.91e+01 4xis c.1.15.3 29409 1fv3A 472 3.95e+01 b.29.1.6,b.42.4.2 60038,60039 1sek 378 3.95e+01 1sek 1zp3A 304 4.02e+01 1zp4A 304 4.02e+01 1b5tA 275 4.03e+01 1b5tA c.1.23.1 29676 1rzrA 332 4.05e+01 a.35.1.5,c.93.1.1 111989,111990 1d7kA 421 4.23e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 2cz1A 206 4.40e+01 d.149.1.1 131033 1ahjA 207 4.42e+01 2ahjA d.149.1.1 41774 2fmnA 304 4.45e+01 1o1zA 234 4.52e+01 c.1.18.3 86555 1x1nA 524 4.64e+01 c.1.8.1 121593 1xkyA 301 4.66e+01 c.1.10.1 122094 1ezwA 349 4.80e+01 1ezwA c.1.16.3 29558 1sxgA 280 4.89e+01 c.93.1.1 112141 1v8fA 276 5.09e+01 c.26.1.4 100503 1ufvA 276 5.10e+01 c.26.1.4 88487 1m65A 245 5.10e+01 c.6.3.1 84847 1bxcA 387 5.12e+01 4xis c.1.15.3 29539 1ht6A 405 5.23e+01 b.71.1.1,c.1.8.1 83629,83630 1u8zA 168 5.43e+01 c.37.1.8 113212 1uf2A 1019 5.44e+01 e.28.1.2 99289 1uadA 175 5.50e+01 c.37.1.8 88377 2a9kA 187 5.58e+01 c.37.1.8 126442 1jr1A 514 5.59e+01 c.1.5.1,d.37.1.1,d.37.1.1 63241,63242,63243 1q1gA 276 5.72e+01 c.56.2.1 95574 1an9A 340 5.73e+01 1an9A c.4.1.2,d.16.1.3 30617,37904 1ve9A 347 5.76e+01 c.4.1.2,d.16.1.3 100571,100572 2bsxA 253 5.77e+01 c.56.2.1 129128 1ypfA 336 5.81e+01 1icpA 376 5.82e+01 1oyc c.1.4.1 62270 1etu 394 5.85e+01 1efcA 1x5cA 121 5.89e+01 1sq6A 253 5.94e+01 c.56.2.1 98964 1rpxA 230 5.95e+01 1rpxA c.1.2.2 28536 1jcnA 514 5.96e+01 c.1.5.1,d.37.1.1,d.37.1.1 84160,84161,84162 1e3jA 352 5.98e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1o8oA 167 6.27e+01 c.57.1.1 92646 1df0A 700 6.37e+01 1dkvA a.39.1.8,b.14.1.1,d.3.1.3 17375,23674,37106 1u5iA 700 6.37e+01 a.39.1.8,b.14.1.1,d.3.1.3 119547,119548,119549 2bovA 206 6.46e+01 1n4kA 381 6.48e+01 a.118.22.1,b.42.6.1 79992,79993 1al8 359 6.62e+01 1gox 1gylA 369 6.63e+01 1gox c.1.4.1 28610 1gox 370 6.64e+01 1gox 2colA 356 6.71e+01 1rp9A 405 6.72e+01 b.71.1.1,c.1.8.1 118785,118786 1zotA 358 6.79e+01 1yrtA 364 6.82e+01 2gqdA 437 6.92e+01 1gmvA 143 6.98e+01 b.107.1.1,d.58.38.1 65343,65344 1dkuA 317 6.99e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1yd7A 395 7.00e+01 1v93A 296 7.10e+01 c.1.23.1 100532 1vp4A 425 7.14e+01 c.67.1.1 113935 1efm 393 7.17e+01 1efcA 1eah1 301 7.26e+01 1pov1 2a9fA 398 7.33e+01 1yueA 427 7.49e+01 1f76A 336 7.55e+01 c.1.4.1 76160 1avaA 403 7.63e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1f2jA 370 7.69e+01 1fbaA c.1.10.1 29154 1q14A 361 7.81e+01 c.31.1.5 95537 1mo0A 275 8.25e+01 c.1.1.1 79329 1t1tA 63 8.31e+01 1n55A 251 8.41e+01 c.1.1.1 80007 1amk 251 8.53e+01 1amk 2bjiA 277 8.53e+01 1nvvQ 166 8.59e+01 c.37.1.8 86277 1x04A 230 8.65e+01 a.238.1.1 121542 1pklA 499 8.68e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27052,29280,33134 1to3A 304 8.84e+01 c.1.10.1 107161 2g8yA 385 8.86e+01 1n0rA 126 8.90e+01 k.37.1.1 79756 1vliA 385 8.94e+01 b.85.1.1,c.1.10.6 108830,108831 1okcA 297 8.96e+01 f.42.1.1 93248