# 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 1h8lA 380 9.39e-31 b.3.2.1,c.56.5.1 65737,65738 2bcoA 350 2.53e-27 1yw4A 341 2.98e-27 1z5rA 306 3.27e-20 2bo9A 308 7.35e-20 1kwmA 402 1.69e-19 c.56.5.1,d.58.3.1 73079,73080 2c1cA 312 1.94e-19 1dtdA 303 8.64e-19 1aye c.56.5.1 33823 1jqgA 433 7.60e-18 c.56.5.1,d.58.3.1 71791,71792 1obr 326 1.26e-17 1aye c.56.5.2 33828 1m4lA 307 6.33e-17 c.56.5.1 78604 2ctc 307 1.11e-16 1aye c.56.5.1 33802 1xovA 326 3.28e-02 1jwqA 179 3.51e-02 c.56.5.6 90921 1eceA 358 5.21e-02 1eceA c.1.8.3 28813 1j1iA 296 5.81e-02 c.69.1.10 83977 1vjzA 341 2.49e-01 c.1.8.3 100838 1edg 380 2.85e-01 1edg c.1.8.3 28807 1ysjA 404 3.12e-01 1tvnA 293 3.98e-01 1fxqA 267 5.96e-01 1d9eA c.1.10.4 60108 1fwsA 267 6.18e-01 1d9eA c.1.10.4 60063 1ea5A 537 6.50e-01 2bce c.69.1.1 34592 1db3A 372 8.17e-01 1db3A c.2.1.2 29813 1m22A 503 8.27e-01 c.117.1.1 78464 1t8xA 267 9.95e-01 1fobA 334 1.04e+00 c.1.8.3 83255 1wraA 308 1.11e+00 1uteA 313 1.30e+00 1uteA d.159.1.1 42078 1pe1A 267 1.43e+00 c.1.10.4 94591 1wznA 252 1.46e+00 1zhaA 267 1.47e+00 1kewA 361 1.54e+00 c.2.1.2 68544 1bn7A 294 1.62e+00 1bn6A c.69.1.8 34677 1jcxA 267 1.86e+00 c.1.10.4 66510 1t0bA 252 2.10e+00 c.23.16.6 106199 1aop 497 2.20e+00 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1bqcA 302 2.63e+00 1bqcA c.1.8.3 28831 1amp 291 2.83e+00 1amp c.56.5.4 33837 1qhiA 366 2.91e+00 1qhiA c.37.1.1 31860 1o2dA 371 3.05e+00 e.22.1.2 86591 2az4A 429 3.12e+00 1o60A 292 3.16e+00 c.1.10.4 92532 1e4iA 447 3.33e+00 1e70M c.1.8.4 59225 1v73A 342 3.33e+00 2anpA 291 3.34e+00 2aqjA 538 3.36e+00 1miwA 404 3.41e+00 a.173.1.1,d.218.1.4 79162,79163 1hjsA 332 3.57e+00 c.1.8.3 83492 2b7oA 464 3.81e+00 4pah 308 3.82e+00 4pah d.178.1.1 42576 1e2kA 331 3.84e+00 1qhiA c.37.1.1 31854 1j8uA 325 3.99e+00 d.178.1.1 71611 1h7eA 245 4.09e+00 c.68.1.13 60717 1rtqA 299 4.52e+00 c.56.5.4 97819 2b69A 343 4.58e+00 1lwjA 441 4.77e+00 b.71.1.1,c.1.8.1 74303,74304 1rkxA 357 5.11e+00 c.2.1.2 97631 1lokA 291 5.18e+00 c.56.5.4 78122 1j6oA 268 5.33e+00 c.1.9.12 77088 1b5qA 472 5.48e+00 1b37B c.3.1.2,d.16.1.5 30404,37968 1g0cA 364 5.72e+00 7a3hA c.1.8.3 60165 1f6dA 376 5.78e+00 1f6dA c.87.1.3 35467 1x0vA 354 5.80e+00 1m70A 190 6.12e+00 a.3.1.4,a.3.1.4 91200,91201 1mlwA 301 6.29e+00 d.178.1.1 79289 1h1nA 305 6.31e+00 c.1.8.3 70855 1muwA 386 6.45e+00 c.1.15.3 79495 1kinA 366 6.63e+00 1pbgA 468 6.70e+00 1e70M c.1.8.4 28946 1ivnA 190 7.10e+00 c.23.10.5 83719 1gq6A 313 7.42e+00 c.42.1.1 70341 1n7hA 381 7.69e+00 c.2.1.2 80250 1yb0A 159 7.86e+00 2fiqA 420 8.03e+00 1mnaA 298 8.27e+00 c.69.1.22 79322 1u9yA 284 8.33e+00 1di6A 195 8.47e+00 1di6A c.57.1.1 33863 2feaA 236 8.50e+00 1nc5A 373 9.03e+00 a.102.1.6 85548 1vd5A 377 9.58e+00 a.102.1.7 108518 2bibA 547 9.73e+00 1i7dA 659 9.88e+00 1d6mA e.10.1.1 61886 1wnaA 131 9.94e+00 1pl8A 356 1.03e+01 b.35.1.2,c.2.1.1 94878,94879 1sqsA 242 1.03e+01 c.23.5.5 98968 1cs0A 1073 1.04e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1j3bA 529 1.07e+01 c.91.1.1,c.109.1.1 77071,77072 1pb6A 212 1.09e+01 a.4.1.9,a.121.1.1 88017,88018 1yloA 348 1.11e+01 2cw5A 255 1.12e+01 2bv9A 290 1.12e+01 1vhnA 318 1.13e+01 c.1.4.1 100693 1ir6A 424 1.24e+01 c.107.1.2 71342 1lshA 1056 1.25e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1zbmA 280 1.25e+01 1ii2A 524 1.25e+01 c.91.1.1,c.109.1.1 66146,66147 1t71A 281 1.26e+01 1ii7A 333 1.27e+01 1ii7A d.159.1.4 62415 2bduA 297 1.29e+01 1gnxA 479 1.32e+01 c.1.8.4 76241 2cygA 312 1.33e+01 1zuwA 272 1.35e+01 1b6g 310 1.37e+01 1b6g c.69.1.8 34661 1yqeA 282 1.39e+01 1i9zA 347 1.42e+01 1i9yA d.151.1.2 62102 1gy8A 397 1.42e+01 c.2.1.2 83376 1xm3A 264 1.43e+01 1lhpA 312 1.49e+01 c.72.1.5 77960 2czdA 208 1.50e+01 1yqfA 203 1.51e+01 2an3A 289 1.52e+01 1z2cB 383 1.54e+01 1pii 452 1.55e+01 1pii c.1.2.4,c.1.2.4 28559,28563 1qw1A 121 1.61e+01 1xqwA 293 1.61e+01 1ceo 343 1.63e+01 1ceo c.1.8.3 28808 1tt0A 623 1.65e+01 1mtzA 293 1.66e+01 c.69.1.7 79467 1hbnC 248 1.67e+01 1mroC d.58.31.1 60902 1php 394 1.68e+01 16pk c.86.1.1 35452 1wrmA 165 1.68e+01 1lehA 364 1.68e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1o4tA 133 1.73e+01 b.82.1.9 86622 2b5dX 528 1.73e+01 1t0iA 191 1.74e+01 c.23.5.4 106209 2citA 282 1.75e+01 1mpp 361 1.76e+01 2rmpA b.50.1.2 26856 1r9jA 673 1.76e+01 1o63A 219 1.79e+01 c.94.1.1 92540 1tzlA 622 1.82e+01 1auiA 521 1.82e+01 1auiA d.159.1.3 42085 1k9sA 237 1.85e+01 c.56.2.1 68359 1mroC 247 1.86e+01 1mroC d.58.31.1 39437 1x3mA 415 1.87e+01 1d1nA 99 1.88e+01 1d1nA b.43.3.1 25718 1ycdA 243 1.88e+01 1eqcA 394 1.92e+01 1cz1A c.1.8.3 28811 1u02A 239 2.01e+01 c.108.1.15 107538 1uwsA 489 2.09e+01 c.1.8.4 108073 2givA 295 2.12e+01 1nmoA 247 2.15e+01 c.135.1.1 91980 1wzaA 488 2.23e+01 1r4xA 275 2.26e+01 b.1.10.3,d.105.1.2 97054,97055 1xyzA 347 2.28e+01 1taxA c.1.8.3 28804 1qwtA 255 2.32e+01 b.26.1.3 96501 1e0tA 470 2.35e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1v4vA 376 2.36e+01 c.87.1.3 100313 2c5uA 375 2.36e+01 1bxkA 355 2.39e+01 1bxkA c.2.1.2 29803 2btvA 901 2.43e+01 2btvA e.28.1.1 43376 1pbyB 337 2.44e+01 b.69.2.2 94422 1v2dA 381 2.45e+01 c.67.1.1 108281 1yhfA 115 2.52e+01 1vheA 373 2.52e+01 b.49.3.1,c.56.5.4 100669,100670 1yzxA 226 2.52e+01 1ede 310 2.53e+01 1b6g c.69.1.8 34662 1dkuA 317 2.57e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 2cwxA 430 2.60e+01 1uok 558 2.61e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1a9xA 1058 2.62e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1fy7A 278 2.65e+01 1fy7A d.108.1.1 40817 1ro0A 216 2.68e+01 d.264.1.2 97664 1wnfA 328 2.71e+01 1ho8A 480 2.72e+01 1ho8A a.118.1.9 61107 4xis 387 2.72e+01 4xis c.1.15.3 29421 2a7mA 250 2.73e+01 1to3A 304 2.73e+01 c.1.10.1 107161 1ituA 369 2.74e+01 c.1.9.7 71423 1hc7A 477 2.75e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 2g09A 297 2.81e+01 1dp0A 1023 2.84e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22073,22074,23722,24346,28845 2c0hA 353 2.88e+01 1mj5A 302 2.89e+01 c.69.1.8 91285 1jjeA 222 2.92e+01 1a7tA d.157.1.1 63117 1qhtA 775 2.95e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1f2tB 148 2.98e+01 1f2tB 1wc3A 219 3.02e+01 1qwrA 319 3.05e+01 b.82.1.3 96491 1iscA 192 3.17e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1uirA 314 3.22e+01 c.66.1.17 99429 1xm7A 195 3.25e+01 1ro2A 216 3.27e+01 d.264.1.2 97665 3xis 387 3.28e+01 4xis c.1.15.3 29423 2g5cA 281 3.40e+01 1wy2A 351 3.55e+01 1jjtA 228 3.57e+01 1a7tA d.157.1.1 63139 1drw 273 3.59e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1ad4A 266 3.59e+01 1aj2 c.1.21.1 29670 1wddA 477 3.66e+01 1hnnA 282 3.70e+01 c.66.1.15 65895 1wkyA 464 3.75e+01 1mtyB 384 3.86e+01 1mtyB a.25.1.2 16740 2b30A 301 3.94e+01 1ecpA 238 3.95e+01 1ecpA c.56.2.1 33775 1vggA 161 3.95e+01 1p80A 753 3.95e+01 c.23.16.3,e.5.1.1 94337,94338 2cx9A 387 3.99e+01 1bywA 110 4.01e+01 1bywA d.110.3.6 40912 1zzmA 259 4.13e+01 1h4pA 408 4.14e+01 c.1.8.3 90617 2etgA 296 4.17e+01 1cf9A 753 4.19e+01 1cf9A c.23.16.3,e.5.1.1 31441,42815 1fp3A 402 4.25e+01 1fp3A a.102.1.3 18842 1rlhA 173 4.26e+01 d.256.1.1 97646 1s8nA 205 4.37e+01 c.23.1.1 105374 1ohvA 472 4.38e+01 c.67.1.4 93031 1ad1A 266 4.38e+01 1aj2 c.1.21.1 29668 1u14A 172 4.41e+01 c.51.4.3 107579 1fxoA 293 4.43e+01 1g0rA c.68.1.6 34524 1zbqA 327 4.49e+01 1ib8A 164 4.49e+01 b.38.2.1,d.52.4.1 71168,71169 1qnrA 344 4.60e+01 1qnoA c.1.8.3 28834 1zud1 251 4.62e+01 1wlsA 328 4.76e+01 1yixA 265 4.78e+01 2arkA 188 4.83e+01 1t1uA 639 4.89e+01 1jqeA 292 4.89e+01 c.66.1.19 71789 1smlA 269 4.96e+01 1smlA d.157.1.1 42053 1vhwA 253 4.98e+01 c.56.2.1 100706 1m3uA 264 4.99e+01 c.1.12.8 84784 1w0mA 226 5.07e+01 c.1.1.1 109027 1k77A 260 5.10e+01 c.1.15.5 72096 2gk3A 256 5.14e+01 2b8tA 223 5.15e+01 1fmjA 351 5.22e+01 c.37.1.5 59879 2gcuA 245 5.24e+01 1qqcA 773 5.28e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1ve3A 227 5.29e+01 1ur4A 399 5.32e+01 1yt3A 375 5.40e+01 1az9 457 5.40e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 1jf3A 147 5.41e+01 a.1.1.2 71642 1ufaA 520 5.42e+01 a.8.3.3,c.6.2.4 99329,99330 1jz8A 1023 5.52e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1w3jA 468 5.53e+01 c.1.8.4 109156 1r3dA 264 5.55e+01 1h49A 512 5.58e+01 c.1.8.4 83477 1cv2A 296 5.60e+01 1bn6A c.69.1.8 34680 8acn 754 5.61e+01 1amj c.8.2.1,c.83.1.1 30724,35400 2fhxA 246 5.65e+01 1ohtA 215 5.65e+01 d.118.1.1 87036 1m7vA 363 5.71e+01 d.174.1.1 78748 1my6A 199 5.74e+01 a.2.11.1,d.44.1.1 85232,85233 1v6sA 390 5.75e+01 c.86.1.1 100424 1o97C 264 5.76e+01 c.26.2.3 81232 1o1xA 155 5.76e+01 c.121.1.1 86553 1wcgA 464 5.81e+01 1gz6A 319 5.85e+01 c.2.1.2 76410 1ag9A 175 5.89e+01 1rcf c.23.5.1 31178 1k8kF 168 5.91e+01 d.198.2.1 68312 2cvzA 289 5.91e+01 1q6zA 528 5.93e+01 1rq2A 382 5.93e+01 c.32.1.1,d.79.2.1 105048,105049 2d29A 387 5.96e+01 2axoA 270 6.12e+01 1bfd 528 6.15e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1l0lB 439 6.23e+01 d.185.1.1,d.185.1.1 84484,84485 1krhA 338 6.26e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1te5A 257 6.32e+01 d.153.1.1 106795 2aioA 269 6.44e+01 1s95A 333 6.56e+01 d.159.1.3 105375 1u2xA 474 6.57e+01 c.72.1.3 107622 2mnr 357 6.60e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 1lt8A 406 6.64e+01 c.1.26.1 78186 1ws6A 171 6.64e+01 1kgnA 329 6.71e+01 a.25.1.2 68584 1c96A 753 6.73e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1vkhA 273 6.74e+01 c.69.1.32 108662 1uqtA 482 6.78e+01 c.87.1.6 99794 1hdhA 536 6.85e+01 c.76.1.2 65805 1yyaA 250 6.86e+01 2c9aA 259 6.94e+01 2hbg 147 6.95e+01 2hbg a.1.1.2 15014 1heiA 451 6.96e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1wl9A 440 7.13e+01 1mdl 359 7.30e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1h09A 338 7.30e+01 b.109.1.1,c.1.8.8 83420,83421 1vlgA 176 7.33e+01 a.25.1.1 108816 1ws9A 387 7.39e+01 2f6kA 307 7.43e+01 2bb3A 221 7.49e+01 1pvvA 315 7.59e+01 c.78.1.1,c.78.1.1 95190,95191 1mhqA 148 7.63e+01 a.118.9.2 84973 1hi9A 274 7.65e+01 1hi9A c.99.1.1 61063 2gl5A 410 7.71e+01 1lqsR 214 7.82e+01 b.1.2.1,b.1.2.1 74194,74195 1htwA 158 7.90e+01 c.37.1.18 71083 1wvgA 359 7.92e+01 2bwvA 440 7.97e+01 1hl9A 449 7.98e+01 b.71.1.3,c.1.8.11 90650,90651 2fokA 579 8.04e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1zrzA 364 8.06e+01 1ta0A 197 8.17e+01 c.108.1.16 106729 1u32A 293 8.17e+01 d.159.1.3 107631 2g62A 325 8.18e+01 1udc 338 8.23e+01 1xel c.2.1.2 29785 1nv8A 284 8.24e+01 c.66.1.30 86224 1alu 186 8.28e+01 1alu a.26.1.1 16826 1j9lA 247 8.33e+01 c.106.1.1 62762 1rmwA 212 8.35e+01 1eyeA 280 8.44e+01 1aj2 c.1.21.1 29672 1guxA 218 8.44e+01 1guxA a.74.1.3 18388 1nytA 271 8.46e+01 c.2.1.7,c.58.1.5 86417,86418 1bif 469 8.46e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1vcoA 550 8.50e+01 c.23.16.1,c.37.1.10 108508,108509 2b82A 211 8.51e+01 1gowA 489 8.58e+01 1qvbA c.1.8.4 28981 1wwpA 119 8.74e+01 1ppjB 439 8.79e+01 d.185.1.1,d.185.1.1 104254,104255 1x74A 360 8.92e+01 1wy5A 317 8.94e+01 1vhmA 195 8.95e+01 d.110.2.1 100691