# List of top-scoring protein chains for t06-100-30-dssp-ehl2-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 1z5rA 306 9.36e-22 2bo9A 308 1.95e-21 1kwmA 402 1.45e-20 c.56.5.1,d.58.3.1 73079,73080 1dtdA 303 2.18e-20 1aye c.56.5.1 33823 1m4lA 307 2.07e-19 c.56.5.1 78604 1yw4A 341 1.89e-17 1h1nA 305 1.18e-01 c.1.8.3 70855 1vcoA 550 2.22e-01 c.23.16.1,c.37.1.10 108508,108509 1xb2B 291 4.54e-01 1zhaA 267 4.73e-01 1t5bA 201 4.93e-01 c.23.5.3 106433 2pia 321 4.94e-01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1pe1A 267 4.96e-01 c.1.10.4 94591 1eceA 358 5.33e-01 1eceA c.1.8.3 28813 1o60A 292 8.78e-01 c.1.10.4 92532 1w4xA 542 9.29e-01 c.3.1.5,c.3.1.5 109171,109172 1gqiA 708 9.57e-01 c.1.8.10,d.92.2.2 76279,76280 1b8oA 284 9.68e-01 1b8oA c.56.2.1 33762 1w8sA 263 9.72e-01 1t71A 281 1.23e+00 1pjr 724 1.31e+00 1pjr c.37.1.19,c.37.1.19 32391,32392 1vjzA 341 1.48e+00 c.1.8.3 100838 1tvnA 293 1.48e+00 2freA 200 1.50e+00 1ur4A 399 1.62e+00 1m22A 503 1.68e+00 c.117.1.1 78464 1im5A 180 1.69e+00 c.33.1.3 66211 1gqnA 252 1.76e+00 c.1.10.1 90514 1khtA 192 1.93e+00 c.37.1.1 84401 1cs0A 1073 2.29e+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 1wkyA 464 2.30e+00 1fecA 490 2.37e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1oe4A 247 2.42e+00 c.18.1.3 86895 1c3pA 375 2.48e+00 1c3pA c.42.1.2 32606 1vemA 516 2.88e+00 1x8dA 104 2.94e+00 1u24A 337 3.19e+00 1tcvA 287 3.27e+00 1t64A 377 3.32e+00 c.42.1.2 106543 1jwqA 179 3.43e+00 c.56.5.6 90921 1uuyA 167 3.59e+00 c.57.1.1 108059 1g0cA 364 3.62e+00 7a3hA c.1.8.3 60165 1vmaA 306 3.88e+00 a.24.13.1,c.37.1.10 108887,108888 1ht6A 405 4.09e+00 b.71.1.1,c.1.8.1 83629,83630 1ejdA 419 4.15e+00 1uae d.68.2.2 39576 1fp3A 402 4.26e+00 1fp3A a.102.1.3 18842 1bn7A 294 4.28e+00 1bn6A c.69.1.8 34677 1xwyA 264 4.35e+00 1wf3A 301 4.36e+00 1n7vA 555 4.45e+00 b.126.1.1 85377 1r3dA 264 4.53e+00 1j1iA 296 4.70e+00 c.69.1.10 83977 1zemA 262 4.97e+00 1pmmA 466 5.11e+00 c.67.1.6 94901 1tqyB 415 5.26e+00 c.95.1.1,c.95.1.1 107247,107248 1w4tA 299 5.46e+00 1h7eA 245 5.75e+00 c.68.1.13 60717 1yh1A 359 6.28e+00 1ta3B 303 6.34e+00 c.1.8.3 106732 1h4pA 408 6.52e+00 c.1.8.3 90617 1ysjA 404 6.54e+00 1jbkA 195 6.91e+00 c.37.1.20 71631 1fx2A 235 6.92e+00 1fx2A d.58.29.1 39430 1edg 380 6.99e+00 1edg c.1.8.3 28807 1qq9A 284 7.58e+00 1xjo c.56.5.4 33841 1tkjA 284 7.72e+00 1uuqA 440 7.72e+00 c.1.8.3 100015 1yzyA 413 7.75e+00 1tzzA 392 7.78e+00 1j7xA 302 8.04e+00 c.14.1.2 66425 1okgA 373 8.19e+00 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 1edqA 540 8.29e+00 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1a8s 273 8.43e+00 1brt c.69.1.12 34710 1dozA 309 8.57e+00 1ak1 c.92.1.1 35592 2an3A 289 8.78e+00 1sflA 238 8.89e+00 1w6gA 646 9.08e+00 1g94A 448 9.13e+00 b.71.1.1,c.1.8.1 65169,65170 2c6qA 351 9.14e+00 1ki9A 192 9.20e+00 c.37.1.1 84404 1hkhA 279 9.40e+00 c.69.1.12 90628 1yk3A 210 9.47e+00 1wlsA 328 9.84e+00 1zy7A 403 1.00e+01 2gl5A 410 1.05e+01 1shxA 138 1.05e+01 1sbyA 254 1.05e+01 1o5zA 442 1.07e+01 c.59.1.2,c.72.2.2 92530,92531 1v2dA 381 1.07e+01 c.67.1.1 108281 1wv2A 265 1.08e+01 2cybA 323 1.11e+01 1rjoA 646 1.12e+01 1gq6A 313 1.14e+01 c.42.1.1 70341 1r3sA 367 1.17e+01 c.1.22.1 96963 1zzmA 259 1.21e+01 2bkkA 264 1.22e+01 1y0kA 209 1.23e+01 1tbd 134 1.23e+01 2tbd d.89.1.1 40240 1i7dA 659 1.23e+01 1d6mA e.10.1.1 61886 1rtqA 299 1.26e+01 c.56.5.4 97819 1ni4B 341 1.29e+01 c.36.1.7,c.48.1.2 85729,85730 1z41A 338 1.30e+01 2ch4A 320 1.33e+01 1kolA 398 1.35e+01 b.35.1.2,c.2.1.1 77474,77475 1ynpA 317 1.35e+01 1vknA 351 1.36e+01 c.2.1.3,d.81.1.1 108676,108677 1wnaA 131 1.36e+01 1ji6A 589 1.38e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1mj5A 302 1.38e+01 c.69.1.8 91285 1s3rA 535 1.39e+01 1vefA 395 1.39e+01 1d7oA 297 1.39e+01 1enp c.2.1.2 29907 1a9xA 1058 1.40e+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 1xm3A 264 1.41e+01 1kkoA 413 1.41e+01 c.1.11.2,d.54.1.1 68675,68676 1xmbA 418 1.42e+01 1uwkA 557 1.45e+01 e.51.1.1 108065 1azsA 220 1.46e+01 1azsA d.58.29.1 39416 1je0A 236 1.47e+01 c.56.2.1 66581 1hd7A 318 1.49e+01 1bix d.151.1.1 41780 1xovA 326 1.49e+01 1zczA 464 1.50e+01 1rwzA 245 1.50e+01 d.131.1.2,d.131.1.2 98005,98006 2f7tA 227 1.57e+01 1xx1A 285 1.58e+01 1qd1A 325 1.59e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1xyzA 347 1.64e+01 1taxA c.1.8.3 28804 2bcgG 453 1.65e+01 1oihA 301 1.66e+01 b.82.2.5 93051 1rqpA 299 1.66e+01 b.141.1.1,c.132.1.1 97754,97755 1wzlA 585 1.68e+01 1nijA 318 1.72e+01 c.37.1.10,d.237.1.1 85741,85742 1toaA 313 1.73e+01 1toaA c.92.2.2 35598 1zedA 484 1.73e+01 2f6uA 234 1.74e+01 1c93A 265 1.74e+01 2ebn c.1.8.5 28998 2fo3A 125 1.74e+01 1nq6A 302 1.79e+01 c.1.8.3 92046 1n9eA 787 1.82e+01 b.30.2.1,d.17.2.1,d.17.2.1 91708,91709,91710 1of8A 370 1.83e+01 c.1.10.4 92819 1yvrA 538 1.86e+01 1w96A 554 1.88e+01 1nv8A 284 1.92e+01 c.66.1.30 86224 2axpA 173 1.93e+01 1brt 277 1.94e+01 1brt c.69.1.12 34699 1ijbA 202 1.96e+01 c.62.1.1 71229 1ylhA 560 1.96e+01 1zz1A 369 1.98e+01 1y8qB 640 2.02e+01 1hw6A 278 2.04e+01 1frb c.1.7.1 61296 1oaoA 674 2.04e+01 e.26.1.2 86744 2bjiA 277 2.07e+01 1iirA 415 2.08e+01 1iirA c.87.1.5 62453 1k0fA 277 2.09e+01 c.92.2.2 71974 1rv9A 259 2.10e+01 d.194.1.2 105105 1npeA 267 2.12e+01 b.68.5.1 92032 2cygA 312 2.13e+01 1el5A 389 2.13e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 2f46A 156 2.18e+01 1ohtA 215 2.19e+01 d.118.1.1 87036 1rvkA 382 2.20e+01 c.1.11.2,d.54.1.1 97928,97929 1z7aA 308 2.24e+01 1io0A 185 2.24e+01 c.10.1.1 76753 1vf8A 377 2.32e+01 1rwhA 757 2.34e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1f6yA 262 2.36e+01 1f6yA c.1.21.2 29673 1vmfA 145 2.40e+01 1vraB 215 2.42e+01 1l6rA 227 2.42e+01 c.108.1.10 77768 1fjgE 162 2.43e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1o7jA 327 2.47e+01 c.88.1.1 81140 2c2aA 258 2.48e+01 2gm3A 175 2.49e+01 1ub0A 258 2.52e+01 c.72.1.2 88394 2asbA 251 2.55e+01 1q0rA 298 2.59e+01 c.69.1.28 95508 1wz9A 375 2.65e+01 1gen 218 2.67e+01 1gen b.66.1.1 27536 2czdA 208 2.67e+01 1wpnA 188 2.68e+01 1mdl 359 2.70e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1vheA 373 2.71e+01 b.49.3.1,c.56.5.4 100669,100670 1fobA 334 2.71e+01 c.1.8.3 83255 1wcgA 464 2.73e+01 1zrn 232 2.76e+01 1qq5A c.108.1.1 43323 2gfoA 396 2.79e+01 1j8mF 297 2.82e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1wrmA 165 2.88e+01 1qe5A 266 2.89e+01 1b8oA c.56.2.1 33784 1ufkA 254 2.91e+01 c.66.1.39 99340 1x7oA 287 2.92e+01 1w5qA 337 2.92e+01 1r9jA 673 2.95e+01 1xqwA 293 2.95e+01 1xcrA 316 2.97e+01 1yq2A 1024 2.99e+01 1p5dX 463 2.99e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1zxxA 319 3.00e+01 2g39A 497 3.01e+01 1aky 221 3.05e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1x7vA 99 3.06e+01 d.58.4.11 109501 1vd5A 377 3.09e+01 a.102.1.7 108518 1ti6A 875 3.11e+01 b.52.2.2,c.81.1.1 106974,106975 1kcfA 258 3.15e+01 a.140.2.1,c.55.3.7 68434,68435 1x1zA 252 3.15e+01 1p6xA 334 3.16e+01 c.37.1.1 94195 1wloA 136 3.18e+01 1iuqA 367 3.28e+01 c.112.1.1 90703 1vkpA 383 3.29e+01 d.126.1.6 108686 1twiA 434 3.30e+01 b.49.2.3,c.1.6.1 107399,107400 1ad2 228 3.34e+01 1ad2 e.24.1.1 43353 2gshA 414 3.37e+01 1aop 497 3.38e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1xknA 355 3.39e+01 1hdcA 253 3.40e+01 1e6wA c.2.1.2 29862 1cojA 212 3.40e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 2c2nA 339 3.41e+01 1yixA 265 3.43e+01 1xfkA 336 3.43e+01 1pjhA 280 3.47e+01 c.14.1.3 94761 1v1aA 309 3.49e+01 c.72.1.1 100249 2d1yA 256 3.53e+01 1rybA 212 3.55e+01 c.56.3.1 98098 1x9iA 302 3.57e+01 1zhxA 438 3.59e+01 1p35A 299 3.61e+01 1p35A b.28.1.1 23925 1te5A 257 3.62e+01 d.153.1.1 106795 1w5rA 278 3.66e+01 1e0cA 271 3.72e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 1vhoA 346 3.72e+01 b.49.3.1,c.56.5.4 100694,100695 2fokA 579 3.76e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 2g7uA 257 3.81e+01 1km4A 247 3.88e+01 c.1.2.3 72740 1jbeA 128 3.88e+01 3chy c.23.1.1 62845 1t0hB 224 3.89e+01 c.37.1.1 106208 1zh2A 121 3.90e+01 1bf5A 545 3.91e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1vddA 228 3.91e+01 e.49.1.1 108519 1w4vA 119 3.93e+01 1gx3A 284 3.93e+01 d.3.1.5 70678 1hjsA 332 3.93e+01 c.1.8.3 83492 1l8nA 679 3.96e+01 c.1.8.10,d.92.2.2 84564,84565 1j2rA 199 3.96e+01 c.33.1.3 90788 1qnrA 344 4.01e+01 1qnoA c.1.8.3 28834 1uf2A 1019 4.01e+01 e.28.1.2 99289 1uteA 313 4.02e+01 1uteA d.159.1.1 42078 1gpmA 525 4.03e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1yb0A 159 4.04e+01 1u9yA 284 4.07e+01 1hrkA 359 4.07e+01 1hrkA c.92.1.1 61228 1vp8A 201 4.07e+01 1gvfA 286 4.16e+01 c.1.10.2 70599 1r8sE 203 4.17e+01 a.118.3.1 97248 1wwjA 105 4.24e+01 1s58A 554 4.26e+01 b.121.5.2 105262 2aqjA 538 4.31e+01 2fp4B 395 4.31e+01 1mtzA 293 4.34e+01 c.69.1.7 79467 1vp4A 425 4.39e+01 2dpmA 284 4.40e+01 2dpmA c.66.1.28 34246 1mi3A 322 4.41e+01 c.1.7.1 91274 1ufoA 238 4.41e+01 c.69.1.27 99344 2ebn 289 4.44e+01 2ebn c.1.8.5 28990 1xjvA 294 4.48e+01 1g2iA 166 4.51e+01 1g2iA c.23.16.2 31438 3gcb 470 4.53e+01 3gcb d.3.1.1 37032 1udc 338 4.56e+01 1xel c.2.1.2 29785 1yh3A 256 4.60e+01 1ceo 343 4.61e+01 1ceo c.1.8.3 28808 1umdB 324 4.62e+01 c.36.1.7,c.48.1.2 99600,99601 1u7iA 136 4.65e+01 d.32.1.7 107724 1a6q 382 4.65e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1ii7A 333 4.67e+01 1ii7A d.159.1.4 62415 1vkcA 158 4.72e+01 1ccwB 483 4.83e+01 1cb7B c.1.19.2 29646 1ayl 541 4.86e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1w4rA 195 4.87e+01 1wraA 308 4.88e+01 1jyaA 130 4.92e+01 d.198.1.1 67453 1kicA 339 4.92e+01 c.70.1.1 72510 1b7yA 350 4.92e+01 1pysA d.104.1.1 40776 1q1aA 289 4.94e+01 c.31.1.5 95561 2a9sA 171 4.94e+01 1vbuA 328 5.05e+01 1yz4A 160 5.13e+01 1f89A 291 5.14e+01 d.160.1.1 64988 1hc7A 477 5.17e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1cb8A 678 5.18e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1tz9A 367 5.18e+01 c.1.15.6 107466 1qmeA 702 5.20e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2b3yA 888 5.21e+01 1g57A 217 5.24e+01 1g57A d.115.1.2 60253 1epwA 1290 5.27e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 2ddrA 306 5.28e+01 1ivnA 190 5.31e+01 c.23.10.5 83719 1lucA 355 5.34e+01 1lucA c.1.16.1 29547 1vjlA 164 5.36e+01 d.257.1.1 100822 1yloA 348 5.42e+01 1w0mA 226 5.47e+01 c.1.1.1 109027 1j8uA 325 5.47e+01 d.178.1.1 71611 1jjtA 228 5.50e+01 1a7tA d.157.1.1 63139 1dbxA 158 5.55e+01 1dbuA d.116.1.1 40928 2bpqA 373 5.57e+01 1chmA 401 5.57e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1wqaA 455 5.60e+01 1ycdA 243 5.63e+01 1auk 489 5.64e+01 1auk c.76.1.2 35030 1o6dA 163 5.70e+01 c.116.1.3 92567 1uwsA 489 5.70e+01 c.1.8.4 108073 1odmA 331 5.72e+01 b.82.2.1 86875 1ehiA 377 5.74e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1ug6A 431 5.76e+01 c.1.8.4 88490 2ew8A 249 5.80e+01 1vquA 374 5.84e+01 1hw7A 255 5.84e+01 1i7fA d.193.1.1 61297 1n97A 389 5.86e+01 a.104.1.1 80335 1c8uA 285 5.86e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1j8fA 323 5.89e+01 1j8fA c.31.1.5 62738 1snyA 267 5.91e+01 c.2.1.2 105833 1yz1A 174 5.93e+01 1ls1A 295 5.99e+01 a.24.13.1,c.37.1.10 78170,78171 2aioA 269 6.09e+01 1y8tA 324 6.11e+01 1s95A 333 6.25e+01 d.159.1.3 105375 1i24A 404 6.26e+01 c.2.1.2 83663 1x1rA 178 6.26e+01 1y0yA 353 6.28e+01 1fiuA 286 6.29e+01 1fiuA c.52.1.10 33317 1whsA 255 6.30e+01 1ivyA c.69.1.5 34649 1jb9A 316 6.31e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 2b0cA 206 6.37e+01 1jg5A 83 6.39e+01 d.205.1.1 66666 1u0kA 288 6.40e+01 d.21.1.2,d.21.1.2 107547,107548 1o97C 264 6.41e+01 c.26.2.3 81232 1uthA 315 6.41e+01 c.94.1.1 108032 2bsfA 176 6.44e+01 1otjA 283 6.47e+01 b.82.2.5 93517 1uzxA 169 6.51e+01 d.20.1.2 100238 1oygA 447 6.55e+01 b.67.2.2 93726 1qopA 268 6.59e+01 2tysA c.1.2.4 28570 1dbwA 126 6.60e+01 1dbwA c.23.1.1 31095 1vpbA 451 6.67e+01 1qo2A 241 6.67e+01 1qo2A c.1.2.1 28533 1jl2A 156 6.70e+01 c.55.3.1 66822 1jrrA 382 6.72e+01 e.1.1.1 63256 1sdjA 310 6.73e+01 d.21.1.2,d.21.1.2 98807,98808 1pbyA 489 6.81e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1r8mE 203 6.84e+01 a.118.3.1 97242 1s2dA 167 6.85e+01 c.23.14.1 98377 1jdw 423 6.91e+01 1jdw d.126.1.2 41129 1qwoA 442 6.92e+01 c.60.1.2 104620 1r7aA 504 6.94e+01 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