# 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 1mumA 295 2.03e-27 c.1.12.7 85108 1xg4A 295 7.67e-27 1ujqA 305 6.40e-25 c.1.12.7 99463 1m3uA 264 1.06e-23 c.1.12.8 84784 1o66A 275 3.00e-22 c.1.12.8 92547 1pymA 295 4.95e-22 1pymA c.1.12.7 29308 1f61A 429 9.20e-22 1dquA c.1.12.7 29319 1f8mA 429 2.39e-21 1dquA c.1.12.7 29315 1igwA 434 3.79e-21 c.1.12.7 62370 1s2wA 295 1.81e-19 c.1.12.7 98407 1rvkA 382 3.16e-04 c.1.11.2,d.54.1.1 97928,97929 1ep3A 311 1.26e-03 2dorA c.1.4.1 28597 1rvgA 305 2.24e-03 c.1.10.2 97920 1vhnA 318 2.54e-03 c.1.4.1 100693 2gl5A 410 3.40e-03 c.1.11.2,d.54.1.1 135336,135337 1xm3A 264 3.52e-03 c.1.31.1 115461 1gvfA 286 6.29e-03 c.1.10.2 70599 1b4kA 337 7.95e-03 1b4kA c.1.10.3 29184 1w5nA 337 8.65e-03 1rzmA 338 8.98e-03 c.1.10.4 105137 1q7zA 566 9.23e-03 c.1.21.2,c.1.26.1 96090,96091 1hl2A 297 9.27e-03 c.1.10.1 83581 1gzgA 337 9.45e-03 c.1.10.3 70805 1vr6A 350 9.54e-03 c.1.10.4 120439 1w5qA 337 9.92e-03 1w8sA 263 1.14e-02 c.1.10.1 120744 1ojxA 263 1.25e-02 c.1.10.1 93164 1nal1 297 1.28e-02 1nal3 1o5kA 306 1.30e-02 c.1.10.1 92504 1xi3A 215 1.48e-02 c.1.3.1 109601 1ktbA 405 1.74e-02 b.71.1.1,c.1.8.1 72960,72961 2mnr 357 1.77e-02 2mnr 1xkyA 301 1.99e-02 c.1.10.1 122094 2fiqA 420 2.00e-02 c.1.10.7 133527 1mdl 359 2.04e-02 2mnr 1ub3A 220 2.07e-02 c.1.10.1 88395 1ypfA 336 2.60e-02 1aj2 282 2.69e-02 1aj2 1tx2A 297 3.54e-02 c.1.21.1 107420 1rd5A 262 4.00e-02 c.1.2.4 111772 1rhcA 330 4.12e-02 c.1.16.3 97468 1nvmA 345 4.77e-02 a.5.7.1,c.1.10.5 86249,86250 1zcoA 262 5.04e-02 1zfjA 491 6.93e-02 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1wv2A 265 9.20e-02 c.1.31.1 114910 1p0kA 349 9.64e-02 c.1.4.1 87648 1muwA 386 9.64e-02 c.1.15.3 79495 1gox 370 1.08e-01 1gox 1to3A 304 1.18e-01 c.1.10.1 107161 1rpxA 230 1.19e-01 1rpxA c.1.2.2 28536 1kfcA 268 1.24e-01 c.1.2.4 77371 2b81A 323 1.37e-01 3xis 387 1.37e-01 4xis 1mzhA 225 1.38e-01 c.1.10.1 79698 1o1zA 234 1.38e-01 c.1.18.3 86555 4xis 387 1.38e-01 4xis 1x1oA 286 1.51e-01 1o4uA 285 2.22e-01 c.1.17.1,d.41.2.1 86624,86625 2tysA 268 2.24e-01 2tysA c.1.2.4 28572 1qfeA 252 2.47e-01 1qfeA c.1.10.1 29167 1thfD 253 2.57e-01 1thfD c.1.2.1 28535 1a53 247 2.63e-01 1a53 2c3zA 222 3.04e-01 1vh7A 265 3.09e-01 c.1.2.1 100646 1igs 248 3.11e-01 1a53 1vc4A 254 3.13e-01 c.1.2.4 100557 1gqnA 252 3.21e-01 c.1.10.1 90514 1ps9A 671 3.68e-01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1qopA 268 3.75e-01 2tysA c.1.2.4 28570 2tpsA 227 3.91e-01 2tpsA c.1.3.1 28591 2a6nA 292 4.05e-01 c.1.10.1 126289 1dhpA 292 4.14e-01 1dhpA c.1.10.1 29097 1ykwA 435 4.33e-01 c.1.14.1,d.58.9.1 123565,123566 1l6sA 323 4.64e-01 c.1.10.3 73627 1i8jA 323 4.66e-01 1b4kA c.1.10.3 61968 1yxyA 234 4.68e-01 c.1.2.5 124203 1jflA 228 5.12e-01 c.78.2.1,c.78.2.1 71656,71657 2a6lA 292 5.19e-01 c.1.10.1 126285 1nqkA 381 5.27e-01 c.1.16.4 92050 1twdA 256 5.38e-01 c.1.30.1 107397 1ad1A 266 5.84e-01 1aj2 c.1.21.1 29668 1yxcA 292 6.78e-01 c.1.10.1 124183 1wbhA 214 6.84e-01 c.1.10.1 120845 2c0aA 214 6.84e-01 c.1.10.1 129579 1euaA 213 6.95e-01 1fwrA c.1.10.1 29155 1gd1O 334 7.18e-01 1dssG c.2.1.3,d.81.1.1 29962,39877 1reqA 727 8.35e-01 1reqA c.1.19.1,c.23.6.1 29620,31247 1z41A 338 8.72e-01 c.1.4.1 124421 2czdA 208 8.79e-01 c.1.2.3 131045 1h61A 364 9.68e-01 1oyc c.1.4.1 60657 1w3iA 293 9.76e-01 c.1.10.1 109152 1me8A 503 1.04e+00 c.1.5.1 79028 1f74A 293 1.09e+00 1nal3 c.1.10.1 29079 1vyrA 364 1.12e+00 c.1.4.1 108906 1eyeA 280 1.12e+00 1aj2 c.1.21.1 29672 1t8xA 267 1.27e+00 1gvoA 364 1.28e+00 c.1.4.1 76357 1g2oA 268 1.28e+00 1b8oA c.56.2.1 60228 1ujpA 271 1.29e+00 c.1.2.4 99462 1ak5 503 1.30e+00 1ak5 1vlwA 217 1.31e+00 c.1.10.1 108868 1bmtA 246 1.35e+00 1bmtA a.46.1.1,c.23.6.1 17757,31235 1wa3A 205 1.47e+00 c.1.10.1 120802 1v93A 296 1.50e+00 c.1.23.1 100532 1izcA 339 1.51e+00 c.1.12.5 83838 1lt8A 406 1.56e+00 c.1.26.1 78186 1xuuA 349 1.56e+00 b.85.1.1,c.1.10.6 116067,116068 1zhaA 267 1.57e+00 1m6jA 261 1.61e+00 c.1.1.1 78693 1ho1A 242 1.65e+00 1ho1A c.1.24.1 61097 1m5wA 243 1.72e+00 c.1.24.1 84836 1vliA 385 1.82e+00 b.85.1.1,c.1.10.6 108830,108831 1yyaA 250 1.84e+00 1jcxA 267 1.88e+00 c.1.10.4 66510 1vk3A 615 1.91e+00 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 2b7nA 273 1.96e+00 1vypX 364 1.97e+00 c.1.4.1 108905 1uasA 362 1.97e+00 b.71.1.1,c.1.8.1 88388,88389 1fxqA 267 2.00e+00 1d9eA c.1.10.4 60108 1y0eA 223 2.09e+00 c.1.2.5 116297 1oi2A 366 2.10e+00 c.119.1.2 103802 1ad4A 266 2.15e+00 1aj2 c.1.21.1 29670 1pfkA 320 2.16e+00 3pfk c.89.1.1 35575 2abbA 364 2.26e+00 c.1.4.1 126517 1n7kA 234 2.32e+00 c.1.10.1 85374 1pe1A 267 2.35e+00 c.1.10.4 94591 1fwsA 267 2.52e+00 1d9eA c.1.10.4 60063 1x1zA 252 2.62e+00 c.1.2.3 121613 1dvjA 246 2.86e+00 1dvjA c.1.2.3 28546 1q45A 391 2.86e+00 c.1.4.1 95780 1cs0A 1073 2.94e+00 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 1w0mA 226 2.95e+00 c.1.1.1 109027 1o0yA 260 3.13e+00 c.1.10.1 80756 1o60A 292 3.16e+00 c.1.10.4 92532 1mucA 373 3.27e+00 1mucA c.1.11.2,d.54.1.1 29236,38880 1e5kA 201 3.37e+00 1fr9A c.68.1.8 34578 1g3qA 237 3.45e+00 1hyqA c.37.1.10 60237 1kv8A 216 3.53e+00 c.1.2.3 73054 1ex1A 605 3.65e+00 1ex1A c.1.8.7,c.23.11.1 29013,31347 5reqA 727 3.71e+00 1reqA c.1.19.1,c.23.6.1 29632,31259 1b74A 254 3.76e+00 1b74A c.78.2.1,c.78.2.1 35264,35265 1km4A 247 3.92e+00 c.1.2.3 72740 1b25A 619 3.96e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1v6sA 390 4.06e+00 c.86.1.1 100424 1u2eA 289 4.08e+00 1ituA 369 4.13e+00 c.1.9.7 71423 1uouA 474 4.33e+00 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1jpmA 366 4.34e+00 c.1.11.2,d.54.1.1 67031,67032 4ubpC 570 4.37e+00 1ubpC b.92.1.1,c.1.9.2 28431,29053 1x38A 602 4.40e+00 c.1.8.7,c.23.11.1 121655,121656 2cunA 410 4.51e+00 1vizA 240 4.72e+00 c.1.4.1 100784 7aatA 401 5.07e+00 1ajsA c.67.1.1 34250 2pfkA 320 5.09e+00 3pfk c.89.1.1 35577 1gdhA 320 5.21e+00 1gdhA c.2.1.4,c.23.12.1 30095,31355 1vhcA 224 5.50e+00 c.1.10.1 100661 1sgjA 284 5.51e+00 c.1.12.5 105535 1w6kA 732 5.55e+00 a.102.4.2,a.102.4.2 114271,114272 2f6uA 234 5.70e+00 c.1.4.1 133061 1f8fA 371 5.91e+00 b.35.1.2,c.2.1.1 83246,83247 1tqjA 230 5.92e+00 c.1.2.2 107228 1oyc 400 6.15e+00 1oyc 1q6oA 216 6.19e+00 c.1.2.3 95986 1uwkA 557 6.22e+00 e.51.1.1 108065 1f6yA 262 6.75e+00 1f6yA c.1.21.2 29673 1jvnA 555 7.63e+00 c.1.2.1,c.23.16.1 67355,67356 1epxA 370 7.65e+00 1fbaA c.1.10.1 29150 1t64A 377 7.79e+00 c.42.1.2 106543 1un7A 400 8.68e+00 b.92.1.5,c.1.9.10 99657,99658 1inlA 296 8.76e+00 c.66.1.17 66220 1fc4A 401 8.93e+00 1bs0A c.67.1.4 59760 1nu5A 370 8.94e+00 c.1.11.2,d.54.1.1 92183,92184 1bd0A 388 9.04e+00 1bd0A b.49.2.2,c.1.6.1 26480,28642 2dorA 311 9.19e+00 2dorA c.1.4.1 28593 1y37A 304 9.41e+00 1zz1A 369 9.58e+00 1a49A 530 9.90e+00 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1vflA 356 1.00e+01 c.1.9.1 120041 1nsj 205 1.00e+01 1nsj 1tkkA 366 1.05e+01 c.1.11.2,d.54.1.1 107089,107090 1dorA 311 1.05e+01 2dorA c.1.4.1 28595 1pgjA 478 1.09e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 1v10A 521 1.09e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1icpA 376 1.11e+01 1oyc c.1.4.1 62270 1p9bA 442 1.11e+01 c.37.1.10 94385 1vd6A 224 1.14e+01 c.1.18.3 119991 1j93A 353 1.16e+01 c.1.22.1 66454 1ofuA 320 1.16e+01 c.32.1.1,d.79.2.1 86972,86973 1b5tA 275 1.17e+01 1b5tA c.1.23.1 29676 1vhqA 232 1.19e+01 c.23.16.2 100696 1ra0A 430 1.20e+01 b.92.1.2,c.1.9.5 111756,111757 1un8A 552 1.21e+01 c.119.1.2,a.208.1.1 103806,99661 1sftA 388 1.25e+01 1bd0A b.49.2.2,c.1.6.1 26482,28644 1ohlA 342 1.27e+01 c.1.10.3 87035 1wl4A 397 1.28e+01 1ox6A 555 1.29e+01 c.1.2.1,c.23.16.1 87505,87506 1zdzA 302 1.30e+01 1vzwA 244 1.30e+01 c.1.2.1 120553 1fcqA 350 1.31e+01 c.1.8.9 65006 1dp4A 435 1.33e+01 1dp4A c.93.1.1 35710 1u1hA 765 1.36e+01 c.1.22.2,c.1.22.2 107580,107581 1jubA 311 1.37e+01 c.1.4.1 90908 1htqA 477 1.37e+01 d.15.9.1,d.128.1.1 71035,71036 1geqA 248 1.37e+01 2tysA c.1.2.4 28589 1f5vA 240 1.39e+01 1bkjA d.90.1.1 40255 1p4cA 380 1.41e+01 c.1.4.1 94100 1yadA 221 1.42e+01 1w1iE 357 1.45e+01 c.1.9.1 109051 1h7nA 342 1.45e+01 1b4kA c.1.10.3 60726 1qwgA 251 1.52e+01 c.1.27.1 96473 1x0rA 249 1.54e+01 c.47.1.10 121562 1e79D 482 1.54e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1uozA 315 1.57e+01 c.6.1.1 113354 1knyA 253 1.58e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1ez0A 510 1.58e+01 1eyyA c.82.1.1 35385 1ynpA 317 1.60e+01 1o04A 500 1.62e+01 c.82.1.1 86508 1wlsA 328 1.64e+01 1u1jA 765 1.64e+01 c.1.22.2,c.1.22.2 107590,107591 1tr9A 341 1.64e+01 c.1.8.7 112617 1vfsA 386 1.65e+01 b.49.2.2,c.1.6.1 108584,108585 1pud 386 1.66e+01 1pud 1dosA 358 1.66e+01 1dosA c.1.10.2 29175 1ehyA 294 1.68e+01 1ehyA c.69.1.11 34693 1fobA 334 1.70e+01 c.1.8.3 83255 1pfvA 551 1.70e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1svdA 473 1.73e+01 c.1.14.1,d.58.9.1 119057,119058 1kpgA 287 1.75e+01 c.66.1.18 68735 1f4lA 551 1.77e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1oqvA 192 1.80e+01 d.24.1.2 87320 1h1yA 228 1.84e+01 c.1.2.2 76506 1wddA 477 1.84e+01 c.1.14.1,d.58.9.1 114528,114529 1h8eD 482 1.85e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1mo0A 275 1.88e+01 c.1.1.1 79329 1shuX 182 1.89e+01 c.62.1.1 98882 1v5xA 203 1.89e+01 c.1.2.4 100377 1nekA 588 1.90e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1mnaA 298 1.94e+01 c.69.1.22 79322 1xfcA 384 2.02e+01 1h5zA 455 2.02e+01 a.104.1.1 90622 1rq2A 382 2.05e+01 c.32.1.1,d.79.2.1 105048,105049 1uumA 372 2.10e+01 c.1.4.1 100010 1fcjA 322 2.13e+01 1oasA c.79.1.1 35289 1g8mA 593 2.16e+01 1g8mA c.24.1.3,c.97.1.4 60371,60372 1rxyA 253 2.19e+01 c.56.2.1 98065 1vcvA 226 2.19e+01 c.1.10.1 119988 2bleA 367 2.20e+01 1m65A 245 2.22e+01 c.6.3.1 84847 1f0xA 571 2.23e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1zr6A 503 2.26e+01 1xhlA 297 2.32e+01 c.2.1.2 109591 1wvfA 520 2.38e+01 d.58.32.1,d.145.1.1 121337,121338 1vjnA 220 2.39e+01 d.157.1.4 100825 2cfuA 658 2.43e+01 1tzbA 302 2.44e+01 c.80.1.1 107470 1a9xA 1058 2.47e+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 1xzwA 426 2.59e+01 b.1.12.1,d.159.1.1 116270,116271 1x8vA 455 2.60e+01 a.104.1.1 114968 1lw7A 365 2.62e+01 c.26.1.3,c.37.1.1 74295,74296 2f96A 224 2.62e+01 c.55.3.5 133153 1o4sA 389 2.67e+01 c.67.1.1 86620 1rm4A 337 2.69e+01 c.2.1.3,d.81.1.1 105000,105001 1u13A 455 2.70e+01 a.104.1.1 107578 1v8eA 224 2.71e+01 c.1.18.3 119869 1fm0E 150 2.74e+01 1fmaE d.41.5.1 38629 2bvcA 486 2.85e+01 d.15.9.1,d.128.1.1 129243,129244 1pwxA 254 2.87e+01 c.2.1.2 95262 1lx7A 253 2.91e+01 c.56.2.1 74329 1x7oA 287 2.93e+01 1rlr 761 2.95e+01 1rlr 1w07A 659 3.03e+01 a.29.3.2,a.29.3.2,e.6.1.2 114046,114047,114048 1r5yA 386 3.09e+01 c.1.20.1 97134 1e9xA 455 3.10e+01 1ea1A a.104.1.1 18969 1edzA 320 3.12e+01 1ee9A c.2.1.7,c.58.1.2 30287,33935 1xeaA 323 3.12e+01 c.2.1.3,d.81.1.5 109572,109573 1r0mA 375 3.18e+01 c.1.11.2,d.54.1.1 104747,104748 2bgkA 278 3.23e+01 c.2.1.2 128480 1srvA 145 3.26e+01 1derA c.8.5.1 30817 1umdB 324 3.27e+01 c.36.1.7,c.48.1.2 99600,99601 1dxeA 256 3.28e+01 1dxeA c.1.12.5 29310 1f52A 468 3.46e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1uroA 367 3.53e+01 1uroA c.1.22.1 29675 1x9iA 302 3.57e+01 c.80.1.1 114997 1gc5A 467 3.61e+01 1gc5A c.72.1.3 60429 1e8cA 498 3.62e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1m1nA 491 3.63e+01 c.92.2.3 78417 2erxA 172 3.65e+01 c.37.1.8 132304 1bueA 265 3.75e+01 1btl e.3.1.1 42727 1k0wA 231 3.79e+01 c.74.1.1 77220 1k20A 310 3.83e+01 c.107.1.1 68027 1ydyA 356 3.89e+01 c.1.18.3 123006 1vmaA 306 3.91e+01 a.24.13.1,c.37.1.10 108887,108888 1r3sA 367 3.96e+01 c.1.22.1 96963 2frnA 278 4.00e+01 c.66.1.47 133993 1y6vA 449 4.07e+01 c.76.1.1 122674 1hkhA 279 4.10e+01 c.69.1.12 90628 1zmtA 254 4.19e+01 c.2.1.2 125363 1tvnA 293 4.20e+01 c.1.8.3 119360 1vkfA 188 4.23e+01 c.1.29.1 108656 1qf5A 431 4.24e+01 1adeA c.37.1.10 32212 2blnA 305 4.24e+01 b.46.1.1,c.65.1.1 128734,128735 1ezwA 349 4.25e+01 1ezwA c.1.16.3 29558 1amy 403 4.30e+01 1jdc 1d8wA 426 4.31e+01 1de5A c.1.15.2 29394 1k6wA 426 4.32e+01 b.92.1.2,c.1.9.5 68236,68237 2fv7A 331 4.36e+01 c.72.1.1 134197 1e5xA 486 4.37e+01 c.79.1.1 59283 1rzuA 485 4.41e+01 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