# List of top-scoring protein chains for t04-100-30-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 1z41A 338 1.16e-01 1ur4A 399 2.41e-01 1mjhA 162 2.55e-01 1mjhA c.26.2.4 31639 1to3A 304 3.09e-01 c.1.10.1 107161 1ufoA 238 3.27e-01 c.69.1.27 99344 1eguA 731 4.10e-01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1ep3A 311 4.49e-01 2dorA c.1.4.1 28597 1n7oA 721 7.42e-01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1o60A 292 8.32e-01 c.1.10.4 92532 1ps9A 671 1.08e+00 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1xrsA 516 1.10e+00 1bu7A 455 1.27e+00 1bu7A a.104.1.1 18937 1ubeA 349 1.59e+00 c.37.1.11,d.48.1.1 88412,88413 1j6oA 268 1.72e+00 c.1.9.12 77088 1edg 380 1.73e+00 1edg c.1.8.3 28807 1vjgA 218 2.14e+00 c.23.10.6 100810 1zy9A 564 2.68e+00 1zbqA 327 2.68e+00 1gq6A 313 2.82e+00 c.42.1.1 70341 4pgaA 337 3.04e+00 4pgaA c.88.1.1 35565 1x1nA 524 3.24e+00 1uhvA 500 3.60e+00 b.71.1.2,c.1.8.3 99402,99403 1xzoA 174 3.61e+00 1ra6A 461 3.70e+00 e.8.1.4 104879 1i60A 278 3.82e+00 c.1.15.4 71118 1eswA 500 4.32e+00 1cwyA c.1.8.1 59500 1rztA 331 4.62e+00 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1w0mA 226 4.64e+00 c.1.1.1 109027 1u2zA 433 4.89e+00 c.66.1.31 107626 1vr6A 350 5.05e+00 1xjjA 644 5.12e+00 1c93A 265 5.32e+00 2ebn c.1.8.5 28998 1rcb 129 5.37e+00 1rcb a.26.1.2 16854 1d3gA 367 5.95e+00 1d3gA c.1.4.1 28600 1iuqA 367 5.98e+00 c.112.1.1 90703 1rtwA 220 6.22e+00 a.132.1.3 97823 1vplA 256 6.34e+00 1o20A 427 6.84e+00 c.82.1.1 86556 1xnaA 183 6.96e+00 1xnaA b.18.1.8 23773 1ezfA 340 7.05e+00 1ezfA a.128.1.2 19440 2akoA 251 7.17e+00 2fnaA 357 7.17e+00 2g8lA 299 7.36e+00 2cxxA 190 7.50e+00 1rzmA 338 7.61e+00 c.1.10.4 105137 2a19B 284 7.65e+00 2anuA 255 7.76e+00 2a33A 215 7.89e+00 1edt 271 8.02e+00 2ebn c.1.8.5 28993 1x42A 232 8.04e+00 1xjeA 644 8.35e+00 2fw2A 260 8.43e+00 1ceo 343 8.61e+00 1ceo c.1.8.3 28808 1fnsA 196 9.02e+00 1auq c.62.1.1 34136 1d0iA 156 9.67e+00 2dhqA c.23.13.1 31383 1xsnA 335 9.88e+00 2boqA 331 9.98e+00 1xfiA 367 1.04e+01 e.50.1.1 109584 1sfjA 238 1.05e+01 1gz6A 319 1.07e+01 c.2.1.2 76410 1ijbA 202 1.08e+01 c.62.1.1 71229 1khtA 192 1.09e+01 c.37.1.1 84401 1u0tA 307 1.09e+01 e.52.1.1 107567 1q6cA 495 1.13e+01 c.1.8.1 95970 2bcqA 335 1.16e+01 1pv9A 348 1.21e+01 c.55.2.1,d.127.1.1 95157,95158 1byb 495 1.22e+01 1byb c.1.8.1 28790 1w1kA 560 1.30e+01 d.58.32.1,d.145.1.1 109059,109060 1gcb 454 1.34e+01 3gcb d.3.1.1 37034 1xyzA 347 1.44e+01 1taxA c.1.8.3 28804 1uqrA 154 1.46e+01 c.23.13.1 99779 2cbiA 594 1.46e+01 1i0lA 221 1.49e+01 c.61.1.1 71096 1yxyA 234 1.50e+01 1k4nA 192 1.51e+01 d.32.1.5 72059 1zkdA 387 1.52e+01 1o9rA 162 1.53e+01 a.25.1.1 86706 1p0kA 349 1.63e+01 c.1.4.1 87648 2fbmA 291 1.63e+01 1v3hA 495 1.65e+01 c.1.8.1 108303 1k30A 368 1.66e+01 c.112.1.1 68067 1e8gA 560 1.66e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1t8qA 336 1.69e+01 c.1.18.3 106669 1gtzA 156 1.72e+01 c.23.13.1 70539 1uuyA 167 1.79e+01 c.57.1.1 108059 1sazA 381 1.82e+01 2bhuA 602 1.83e+01 2eu9A 355 1.91e+01 1o7jA 327 1.92e+01 c.88.1.1 81140 1xffA 240 2.01e+01 d.153.1.1 109580 1hf8A 289 2.14e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1gdoA 240 2.17e+01 1gdoA 1lh0A 213 2.19e+01 c.61.1.1 73896 1jetA 517 2.24e+01 1jevA c.94.1.1 35718 1icpA 376 2.25e+01 1oyc c.1.4.1 62270 1k32A 1045 2.27e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1wdpA 495 2.33e+01 1gteA 1025 2.52e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 2b0mA 393 2.52e+01 1kkoA 413 2.58e+01 c.1.11.2,d.54.1.1 68675,68676 1w1iE 357 2.61e+01 c.1.9.1 109051 1zu4A 320 2.65e+01 2fclA 169 2.65e+01 1j96A 323 2.76e+01 c.1.7.1 71616 1zzmA 259 2.79e+01 1hziA 129 2.83e+01 1rcb a.26.1.2 61449 1yarA 233 2.85e+01 1k1xA 659 2.87e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1qo2A 241 2.88e+01 1qo2A c.1.2.1 28533 1opr 213 2.89e+01 1opr c.61.1.1 34091 1vpqA 273 2.92e+01 1i6wA 181 2.97e+01 1i6wA c.69.1.18 61859 1tqgA 105 3.10e+01 a.24.10.3 107224 1deoA 233 3.12e+01 1deoA c.23.10.4 31345 1nc5A 373 3.12e+01 a.102.1.6 85548 1sjqA 105 3.13e+01 d.58.7.1 105660 3gcb 470 3.16e+01 3gcb d.3.1.1 37032 1ydnA 295 3.17e+01 2olbA 517 3.20e+01 1jevA c.94.1.1 35721 2f5gA 133 3.23e+01 1sflA 238 3.24e+01 1k7cA 233 3.27e+01 c.23.10.4 68267 1rcuA 195 3.27e+01 c.129.1.1 97295 1ispA 181 3.31e+01 c.69.1.18 76778 1ki9A 192 3.35e+01 c.37.1.1 84404 1u9yA 284 3.35e+01 1vflA 356 3.37e+01 2b4gA 317 3.40e+01 2bwfA 77 3.50e+01 1wcgA 464 3.55e+01 1erzA 303 3.58e+01 1erzA d.160.1.2 59498 1y6zA 263 3.63e+01 1bpyA 335 3.69e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1z82A 335 3.73e+01 1i36A 264 3.74e+01 a.100.1.8,c.2.1.6 71108,71109 1ydyA 356 3.76e+01 1thfD 253 3.78e+01 1thfD c.1.2.1 28535 1x38A 602 3.88e+01 1hnjA 317 3.95e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 2bs9A 503 3.98e+01 1gefA 123 3.99e+01 1gefA c.52.1.18 60465 1mup 166 4.03e+01 1mup b.60.1.1 27133 1sz7A 200 4.05e+01 1eq1A 166 4.06e+01 a.63.1.1 64910 1i06A 180 4.13e+01 1mup b.60.1.1 27131 1uf5A 303 4.15e+01 d.160.1.2 107808 1fl2A 310 4.17e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1wznA 252 4.17e+01 1t9kA 347 4.18e+01 c.124.1.5 106721 1jpzA 473 4.19e+01 a.104.1.1 67069 2ewrA 170 4.21e+01 1c7qA 445 4.21e+01 2pgi c.80.1.2 35307 2d13A 227 4.26e+01 1jv4A 162 4.28e+01 b.60.1.1 67343 1w41A 101 4.31e+01 2f5xA 312 4.34e+01 1uumA 372 4.35e+01 c.1.4.1 100010 1wmxA 205 4.41e+01 b.18.1.24 109418 1im8A 244 4.46e+01 c.66.1.14 66212 2bijA 305 4.52e+01 1a8s 273 4.53e+01 1brt c.69.1.12 34710 1i05A 180 4.55e+01 1mup b.60.1.1 27130 1tzjA 338 4.60e+01 1xrtA 467 4.66e+01 1lw3A 657 4.68e+01 b.55.1.8,c.45.1.3 91152,91153 1nmmB 286 4.78e+01 c.68.1.2 80662 1zcoA 262 4.79e+01 1y0eA 223 4.80e+01 1hzdA 272 4.83e+01 c.14.1.3 65969 1ykjA 394 4.84e+01 1xszA 356 4.84e+01 1vlmA 219 4.91e+01 c.66.1.41 108836 1jayA 212 4.95e+01 c.2.1.6 66478 1jndA 420 5.00e+01 c.1.8.5,d.26.3.1 71757,71758 1yroB 286 5.01e+01 1dfaA 454 5.06e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28375,40575,40576 1e7wA 291 5.08e+01 c.2.1.2 59373 1qmgA 524 5.08e+01 1qmgA a.100.1.2,c.2.1.6 18785,30182 1sr8A 298 5.09e+01 e.54.1.1 105959 1j8yF 297 5.13e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1uh5A 329 5.17e+01 c.2.1.2 107840 1wc9A 169 5.24e+01 2fyxA 143 5.25e+01 1tdpA 111 5.30e+01 a.29.8.1 106781 1b78A 193 5.32e+01 1b78A c.51.4.1 33221 1ds1A 324 5.32e+01 1drtA b.82.2.2 28127 1tvnA 293 5.37e+01 1fiuA 286 5.41e+01 1fiuA c.52.1.10 33317 1tv9A 335 5.41e+01 2bogX 286 5.44e+01 1zynA 202 5.47e+01 2tpsA 227 5.49e+01 2tpsA c.1.3.1 28591 1f2dA 341 5.49e+01 1f2dA c.79.1.1 35298 2dfkA 402 5.50e+01 1ex1A 605 5.54e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1vh7A 265 5.60e+01 c.1.2.1 100646 1xv5A 401 5.68e+01 1sz9A 144 5.70e+01 a.118.9.4 106139 2a0b 125 5.79e+01 2a0b a.24.10.1 16630 1lvaA 258 5.85e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1o9iA 266 5.91e+01 a.25.1.3 92671 1k6wA 426 5.97e+01 b.92.1.2,c.1.9.5 68236,68237 1zndA 174 5.99e+01 1q45A 391 6.00e+01 c.1.4.1 95780 1zfjA 491 6.08e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1xg7A 250 6.09e+01 1o6vA 466 6.12e+01 b.1.18.15,c.10.2.1 81099,81100 1zhvA 134 6.20e+01 1h3nA 878 6.20e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1qy1A 174 6.20e+01 b.60.1.1 96568 1r85A 379 6.21e+01 c.1.8.3 104839 1aj8A 371 6.34e+01 1aj8A a.103.1.1 18900 1pa7A 130 6.34e+01 a.40.1.1 94410 1j0dA 341 6.35e+01 c.79.1.1 83902 1zrzA 364 6.37e+01 1xo7A 166 6.39e+01 1mdl 359 6.41e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1w8kA 447 6.48e+01 1b5tA 275 6.48e+01 1b5tA c.1.23.1 29676 7a3hA 303 6.49e+01 7a3hA c.1.8.3 28817 1tz9A 367 6.54e+01 c.1.15.6 107466 1pbe 394 6.54e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 2frnA 278 6.61e+01 1g0cA 364 6.64e+01 7a3hA c.1.8.3 60165 1pnsC 206 6.71e+01 i.1.1.1 88170 1f4pA 147 6.73e+01 5nul c.23.5.1 59651 1fjgC 239 6.74e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 1ur5A 309 6.74e+01 c.2.1.5,d.162.1.1 99807,99808 2b5dX 528 6.77e+01 1zowA 313 6.90e+01 1fobA 334 6.90e+01 c.1.8.3 83255 1r6xA 395 6.93e+01 b.122.1.3,c.26.1.5 97167,97168 1elkA 157 7.01e+01 1dvpA a.118.9.2 19217 1kcxA 518 7.03e+01 b.92.1.3,c.1.9.6 90953,90954 2agdA 287 7.08e+01 1v1rB 342 7.10e+01 c.36.1.7,c.48.1.2 108273,108274 2ad9A 119 7.25e+01 1kn1B 161 7.27e+01 a.1.1.3 77456 2mnr 357 7.29e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 1xbbA 291 7.29e+01 2fmpA 335 7.32e+01 1o50A 157 7.36e+01 d.37.1.1,d.37.1.1 92478,92479 1vypX 364 7.41e+01 c.1.4.1 108905 1uxjA 309 7.41e+01 c.2.1.5,d.162.1.1 108112,108113 1vixA 420 7.54e+01 c.56.5.4,d.58.19.1 100777,100778 1t4gA 322 7.55e+01 a.60.4.1,c.37.1.11 106418,106419 1h5qA 265 7.58e+01 1cydA c.2.1.2 60643 1uxy 340 7.63e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1vjtA 483 7.65e+01 c.2.1.5,d.162.1.2 100833,100834 1qh8A 478 7.66e+01 1qguA c.92.2.3 35633 1tv8A 340 7.67e+01 c.1.28.3 107352 1fnoA 417 7.68e+01 d.58.19.1,c.56.5.4 70145,75841 1xp3A 307 7.68e+01 1anf 370 7.72e+01 4mbp c.94.1.1 35776 1of8A 370 7.72e+01 c.1.10.4 92819 1qnxA 209 7.74e+01 1qnxA d.111.1.1 40914 1n1fA 159 7.77e+01 a.26.1.3 79803 1ytvA 366 7.79e+01 1mugA 168 7.79e+01 1mugA c.18.1.2 31030 1jkvA 266 7.86e+01 a.25.1.3 71719 1pdo 135 7.91e+01 1pdo c.54.1.1 33376 1u6mA 199 7.92e+01 1tml 286 7.99e+01 1tml c.6.1.1 30656 1a48 306 8.01e+01 1a48 d.143.1.1 41590 1hyuA 521 8.04e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1yzgA 179 8.14e+01 2bodX 286 8.18e+01 1up8A 598 8.20e+01 a.111.1.2 99710 1yzfA 195 8.28e+01 1r7aA 504 8.31e+01 b.71.1.1,c.1.8.1 97192,97193 2b4lA 268 8.32e+01 1x6vA 630 8.38e+01 1fgxA 288 8.49e+01 1fgxA c.68.1.2 34508 1pztA 286 8.54e+01 c.68.1.2 95470 1vdwA 254 8.60e+01 e.7.1.1 100569 1k47A 337 8.62e+01 d.14.1.5,d.58.26.4 72040,72041 1g8fA 511 8.64e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 2cc0A 195 8.69e+01 1k0wA 231 8.71e+01 c.74.1.1 77220 1knwA 425 8.75e+01 b.49.2.3,c.1.6.1 90969,90970 1tf4A 605 8.76e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1k0iA 394 8.76e+01 c.3.1.2,d.16.1.2 67942,67943 1dozA 309 8.80e+01 1ak1 c.92.1.1 35592 1f9vA 347 8.90e+01 1bg2 c.37.1.9 59745