# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-scores 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 1sjdA 368 4.35e-01 c.1.11.2,d.54.1.1 105632,105633 1z7yA 322 6.27e-01 1yeyA 444 8.42e-01 1z7wA 322 9.18e-01 1mucA 373 1.18e+00 1mucA c.1.11.2,d.54.1.1 29236,38880 2aa4A 289 1.38e+00 1a12A 413 1.43e+00 1a12A b.69.5.1 27663 1g99A 408 1.93e+00 1g99A c.55.1.2,c.55.1.2 33457,33458 1r0mA 375 2.12e+00 c.1.11.2,d.54.1.1 104747,104748 1jtdB 273 2.40e+00 b.69.5.2 67265 1ac5 483 3.06e+00 1ac5 c.69.1.5 34653 1c4xA 285 3.51e+00 1c4xA c.69.1.10 34684 2a6hA 315 3.70e+00 1x3mA 415 4.91e+00 1ng0A 253 5.78e+00 b.121.4.7 80475 1xqoA 256 6.13e+00 1azwA 313 6.68e+00 1qtrA c.69.1.7 34658 1i7qB 193 7.25e+00 1qdlB c.23.16.1 61902 1ehiA 377 7.44e+00 1iow c.30.1.2,d.142.1.1 31716,41484 1mn1 357 8.19e+00 1arv a.93.1.1 18667 1qo7A 394 8.41e+00 1qo7A c.69.1.11 34697 1yydA 357 1.02e+01 1twiA 434 1.05e+01 b.49.2.3,c.1.6.1 107399,107400 1wm1A 317 1.11e+01 c.69.1.7 109405 1rvkA 382 1.12e+01 c.1.11.2,d.54.1.1 97928,97929 1eudA 311 1.13e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1r6wA 322 1.15e+01 c.1.11.2,d.54.1.1 97165,97166 1ve2A 235 1.18e+01 1llp 343 1.19e+01 1arv a.93.1.1 18578 2gdqA 382 1.19e+01 1to6A 371 1.27e+01 c.141.1.1 107170 2f4nA 273 1.32e+01 1m5yA 408 1.34e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1fiqC 763 1.36e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1fhuA 320 1.38e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1tufA 434 1.38e+01 b.49.2.3,c.1.6.1 107335,107336 1tkkA 366 1.39e+01 c.1.11.2,d.54.1.1 107089,107090 1qtrA 317 1.49e+01 1qtrA c.69.1.7 34660 2bzpA 226 1.50e+01 1apyB 141 1.52e+01 1apyB 1jetA 517 1.56e+01 1jevA c.94.1.1 35718 1ec7A 446 1.60e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1lfkA 398 1.78e+01 a.104.1.1 77926 1jpmA 366 1.79e+01 c.1.11.2,d.54.1.1 67031,67032 1eyqA 222 1.84e+01 1eypA d.36.1.1 38534 1t1uA 639 1.85e+01 1mgtA 174 1.91e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 2olbA 517 1.93e+01 1jevA c.94.1.1 35721 1t0bA 252 1.98e+01 c.23.16.6 106199 1t3tA 1303 2.07e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1xm9A 457 2.08e+01 1udh 244 2.11e+01 3eugA c.18.1.1 31015 1y7lA 316 2.11e+01 1nm8A 616 2.14e+01 c.43.1.3,c.43.1.3 85872,85873 1th0A 226 2.19e+01 d.3.1.7 106903 1cyw 205 2.20e+01 1cyx b.6.1.2 23024 1nnwA 252 2.21e+01 d.159.1.5 80674 1zkiA 133 2.24e+01 1p2xA 159 2.27e+01 a.40.1.1 104062 1nu5A 370 2.28e+01 c.1.11.2,d.54.1.1 92183,92184 1ffa 214 2.28e+01 1cex c.69.1.30 31289 1mgpA 313 2.38e+01 c.119.1.1 79098 1jjeA 222 2.41e+01 1a7tA d.157.1.1 63117 2gcuA 245 2.50e+01 1jykA 254 2.50e+01 c.68.1.13 67458 1vkwA 218 2.52e+01 d.90.1.2 108695 2fuvA 549 2.57e+01 2gshA 414 2.66e+01 1uk8A 282 2.75e+01 c.69.1.10 107907 1iupA 282 2.79e+01 c.69.1.10 76815 2b7nA 273 2.89e+01 1m1nB 522 2.90e+01 c.92.2.3 78418 1i1qB 192 2.94e+01 1qdlB c.23.16.1 61544 1tzzA 392 2.95e+01 1eceA 358 2.96e+01 1eceA c.1.8.3 28813 1fcjA 322 3.04e+01 1oasA c.79.1.1 35289 1t06A 235 3.13e+01 a.118.1.17 106194 2a8mA 420 3.17e+01 1zdzA 302 3.27e+01 2cwcA 303 3.29e+01 2abwA 227 3.32e+01 1cex 214 3.34e+01 1cex c.69.1.30 31285 1dljA 402 3.39e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1mv8A 436 3.43e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1p5sA 203 3.46e+01 a.40.1.1 94147 1uwkA 557 3.49e+01 e.51.1.1 108065 1jfuA 186 3.50e+01 c.47.1.10 62940 1w2lA 99 3.54e+01 1ptmA 329 3.59e+01 c.77.1.3 95104 1jjtA 228 3.59e+01 1a7tA d.157.1.1 63139 1a7tA 232 3.67e+01 1a7tA d.157.1.1 42041 1f1uA 323 3.70e+01 d.32.1.3,d.32.1.3 83200,83201 1qmeA 702 3.72e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1o17A 345 3.72e+01 a.46.2.1,c.27.1.1 80765,80766 1guqA 348 3.74e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 1pmmA 466 3.77e+01 c.67.1.6 94901 1uteA 313 3.77e+01 1uteA d.159.1.1 42078 1mdl 359 3.85e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 2fr1A 486 3.86e+01 1th8A 145 3.88e+01 d.122.1.3 106908 1cyx 205 3.91e+01 1cyx b.6.1.2 23023 1uv0A 149 3.95e+01 d.169.1.1 100028 1xhkA 187 3.97e+01 1pfzA 380 4.09e+01 1smrA b.50.1.2 26881 1yxmA 303 4.10e+01 1u08A 386 4.13e+01 c.67.1.1 107543 1womA 271 4.14e+01 2mnr 357 4.16e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 2pth 193 4.20e+01 2pth c.56.3.1 33793 1qpaA 345 4.31e+01 1arv a.93.1.1 18585 1s5dA 240 4.35e+01 d.166.1.1 98541 1hyuA 521 4.38e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1fa0A 537 4.45e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1jovA 270 4.45e+01 b.30.5.7 84192 1es9A 232 4.50e+01 1wab c.23.10.3 31340 1h49A 512 4.64e+01 c.1.8.4 83477 1azsB 212 4.72e+01 1azsA d.58.29.1 39423 1urrA 102 4.90e+01 d.58.10.1 107998 1lycA 343 4.91e+01 a.93.1.1 74344 1vflA 356 4.92e+01 1c25 161 4.95e+01 1c25 c.46.1.1 32698 1w2fA 276 4.95e+01 d.143.1.3 109125 1akz 223 4.96e+01 3eugA c.18.1.1 31007 1qkmA 255 4.97e+01 3erdA a.123.1.1 19309 1vgjA 184 4.97e+01 1v93A 296 4.98e+01 c.1.23.1 100532 2azpA 318 5.07e+01 2apjA 260 5.08e+01 1o58A 303 5.09e+01 c.79.1.1 92491 1ef8A 261 5.09e+01 1ef8A c.14.1.3 30921 2bbhA 269 5.10e+01 1nswA 105 5.12e+01 c.47.1.1 92097 1xzzA 246 5.13e+01 1h65A 270 5.16e+01 c.37.1.8 65640 1wkrA 340 5.18e+01 b.50.1.2 109395 1ko6A 187 5.21e+01 b.119.1.1 77471 1qqp2 218 5.27e+01 1qqp2 1a4mA 349 5.29e+01 1a4mA c.1.9.1 29014 1wab 232 5.37e+01 1wab c.23.10.3 31341 1r6dA 337 5.43e+01 c.2.1.2 97148 1j1iA 296 5.49e+01 c.69.1.10 83977 1jug 125 5.64e+01 3lzt d.2.1.2 36587 1aru 344 5.68e+01 1arv a.93.1.1 18589 1fkx 349 5.69e+01 1a4mA c.1.9.1 29018 1w1iE 357 5.71e+01 c.1.9.1 109051 1vhxA 150 5.73e+01 c.55.3.8 100712 1tjyA 316 5.73e+01 c.93.1.1 107062 1aoeA 192 5.75e+01 1aoeA c.71.1.1 34923 1nb9A 147 5.78e+01 b.43.5.1 85515 1suuA 312 5.80e+01 b.68.10.1 99006 2ceyA 306 5.84e+01 2a8jA 420 5.90e+01 1rx0A 393 6.12e+01 a.29.3.1,e.6.1.1 98007,98008 1zvtA 256 6.14e+01 1e55A 512 6.19e+01 1e70M c.1.8.4 28934 1vybA 238 6.24e+01 d.151.1.1 108897 2trxA 108 6.33e+01 1thx c.47.1.1 32719 1r9gA 216 6.38e+01 c.23.16.1 97258 2cxaA 256 6.39e+01 1qgjA 300 6.46e+01 1bgp a.93.1.1 18691 1v97A 1332 6.48e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1h5zA 455 6.49e+01 a.104.1.1 90622 1qw9A 502 6.60e+01 b.71.1.2,c.1.8.3 96466,96467 2ew8A 249 6.67e+01 1b65A 375 6.69e+01 1b65A d.154.1.1 42020 1bkrA 109 6.79e+01 1bkrA a.40.1.1 17394 1ei1A 391 6.82e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1ufbA 127 6.85e+01 a.24.16.3 99331 1xx6A 191 6.88e+01 2gl5A 410 6.99e+01 1w0mA 226 7.01e+01 c.1.1.1 109027 1a44 185 7.09e+01 1a44 b.17.1.1 23704 2bo4A 397 7.27e+01 1gc5A 467 7.29e+01 1gc5A c.72.1.3 60429 1tt7A 330 7.35e+01 1fo4A 1332 7.38e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1vgyA 393 7.39e+01 c.56.5.4,d.58.19.1 100620,100621 1uedA 406 7.43e+01 a.104.1.1 99256 1iow 306 7.44e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1ve1A 304 7.45e+01 2b1xA 470 7.47e+01 1p5zB 263 7.52e+01 c.37.1.1 87815 1ab8A 220 7.65e+01 1azsA d.58.29.1 39414 1u2xA 474 7.72e+01 c.72.1.3 107622 2boqA 331 7.75e+01 1ae9A 179 7.77e+01 1ae9A d.163.1.1 42153 2bjuA 453 7.85e+01 1rpa 342 7.93e+01 1cviA c.60.1.2 33983 1xdnA 277 7.97e+01 1hf2A 210 8.02e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 2anuA 255 8.02e+01 1px5A 349 8.06e+01 a.160.1.2,d.218.1.6 95277,95278 1ehyA 294 8.07e+01 1ehyA c.69.1.11 34693 1gwiA 411 8.11e+01 a.104.1.1 76364 1hr6A 475 8.13e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1zuwA 272 8.14e+01 1odfA 290 8.20e+01 c.37.1.6 92782 1eh6A 207 8.22e+01 1sfe a.4.2.1,c.55.7.1 16076,33751 1mml 265 8.26e+01 1mml e.8.1.2 43015 1e4fT 419 8.31e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1jidA 128 8.39e+01 d.201.1.1 66735 1u9yA 284 8.42e+01 2coiA 386 8.49e+01 1jc9A 269 8.58e+01 d.171.1.1 66490 1vmiA 355 8.65e+01 1xocA 520 8.67e+01 1wa5B 530 8.70e+01 1wkoA 180 8.70e+01 2g7zA 282 8.73e+01 1bhdA 118 8.78e+01 1bkrA a.40.1.1 17398 1vhwA 253 8.79e+01 c.56.2.1 100706 1m4jA 142 8.95e+01 d.109.1.2 78602 2blnA 305 8.96e+01