# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1xel 338 4.50e-29 1xel c.2.1.2 29786 1udc 338 4.93e-29 1xel c.2.1.2 29785 1r6dA 337 2.62e-28 c.2.1.2 -5757 1kewA 361 7.43e-28 c.2.1.2 68544 1ek6A 348 1.50e-27 1xel c.2.1.2 29800 1bxkA 355 2.61e-27 1bxkA c.2.1.2 29803 1oc2A 348 2.24e-26 c.2.1.2 -5753 1kepA 348 2.41e-26 c.2.1.2 68536 1db3A 372 7.63e-26 1db3A c.2.1.2 29813 1sb8A 352 1.06e-25 1gy8A 397 1.99e-25 c.2.1.2 83376 1t2aA 375 2.34e-25 c.2.1.2 -5764 1n7hA 381 3.42e-25 c.2.1.2 80250 1rpnA 335 4.32e-25 c.2.1.2 -5759 1orrA 347 6.03e-25 c.2.1.2 -5776 1rkxA 357 1.36e-23 c.2.1.2 -5770 1e6uA 321 6.50e-23 1bsvA c.2.1.2 29805 1n2sA 299 3.90e-22 c.2.1.2 79857 1eq2A 310 1.62e-21 1eq2A c.2.1.2 29814 1qrrA 394 4.82e-20 1qrrA c.2.1.2 29824 1i24A 404 6.71e-20 c.2.1.2 83663 1qydA 313 2.86e-10 c.2.1.2 -5786 1cydA 244 1.15e-09 1cydA c.2.1.2 29825 1hdoA 206 4.17e-09 1he2A c.2.1.2 60965 1qycA 308 4.27e-09 c.2.1.2 -5782 1e6wA 260 1.53e-08 1e6wA c.2.1.2 59326 1uayA 242 2.14e-08 c.2.1.2 88390 1hdcA 253 3.97e-08 1e6wA c.2.1.2 29862 1h5qA 265 6.25e-08 1cydA c.2.1.2 60643 1jtvA 327 8.72e-08 c.2.1.2 84230 1fds 327 8.98e-08 1fds c.2.1.2 29838 1gegA 256 1.29e-07 1ybvA c.2.1.2 29888 2ae2A 260 1.43e-07 1bdb c.2.1.2 29945 1iy8A 267 1.50e-07 c.2.1.2 83774 1spxA 278 2.08e-07 c.2.1.2 -5870 1g0oA 283 2.19e-07 1ybvA c.2.1.2 60181 1geeA 261 2.80e-07 c.2.1.2 -5814 1bdb 277 2.95e-07 1bdb c.2.1.2 29874 1gcoA 261 3.24e-07 1ybvA c.2.1.2 29884 1gz6A 319 3.50e-07 c.2.1.2 76410 1q7bA 244 4.58e-07 c.2.1.2 -5826 1nffA 260 5.06e-07 c.2.1.2 80457 1nxqA 251 8.80e-07 c.2.1.2 86388 1ja9A 274 9.87e-07 c.2.1.2 62817 1fmcA 255 1.01e-06 1cydA c.2.1.2 29856 1k6xA 352 1.39e-06 c.2.1.2 68238 1hxhA 253 1.81e-06 c.2.1.2 76725 1o5iA 249 4.79e-06 c.2.1.2 -5833 1ooeA 236 7.87e-06 c.2.1.2 87196 1dhr 241 9.73e-06 1dhr c.2.1.2 29832 1hdr 244 1.19e-05 1dhr c.2.1.2 29837 1fjhA 257 2.02e-05 1fjhB c.2.1.2 29870 1n5dA 288 2.25e-05 c.2.1.2 80030 1hu4A 288 2.33e-05 1hu4A 1b16A 254 2.60e-05 1b16A c.2.1.2 29875 2pfkA 320 3.85e-05 3pfk c.89.1.1 35577 1oaa 259 9.84e-05 1oaa c.2.1.2 29829 1mldA 314 1.35e-04 2cmd c.2.1.5 30122 d.162.1.1 42089 1qsgA 265 1.84e-04 1eny c.2.1.2 29935 1pwxA 254 3.03e-04 c.2.1.2 -5858 1oi7A 288 7.70e-04 c.2.1.8 87049 c.23.4.1 87050 1nvmA 345 9.97e-04 a.5.7.1 86249 c.1.10.5 86250 1f0kA 364 1.91e-03 1f0kA c.87.1.2 35465 1e7wA 291 1.96e-03 c.2.1.2 59373 2cmd 312 1.99e-03 2cmd c.2.1.5 30135 d.162.1.1 42102 1mv8A 436 2.98e-03 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1vjpA 394 3.27e-03 c.2.1.3 -5897 d.81.1.3 -10480 1vknA 351 3.90e-03 1jayA 212 5.03e-03 c.2.1.6 66478 1rvgA 305 5.25e-03 c.1.10.2 -5500 1d7oA 297 6.19e-03 1enp c.2.1.2 29907 1kjqA 391 6.45e-03 b.84.2.1 72616 c.30.1.1 72617 d.142.1.2 72618 1ff9A 450 6.46e-03 1ff9A c.2.1.3 30039 d.81.1.2 39954 1mb4A 370 7.27e-03 c.2.1.3 78908 d.81.1.1 78909 1drw 273 7.62e-03 1drw c.2.1.3 30057 d.81.1.3 39972 1lt8A 406 8.12e-03 c.1.26.1 78186 1hzyA 332 8.91e-03 1pscA c.1.9.3 61468 1fsz 372 9.50e-03 1fsz c.32.1.1 31750 d.79.2.1 39802 1i0dA 332 1.03e-02 1pscA c.1.9.3 61487 1eyzA 392 1.04e-02 1ez1A b.84.2.1 28246 c.30.1.1 31653 d.142.1.2 41498 1e0tA 470 1.16e-02 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1enp 312 1.16e-02 1enp c.2.1.2 29906 4pfk 319 1.36e-02 3pfk c.89.1.1 35582 1hyeA 313 1.45e-02 2cmd c.2.1.5 61400 d.162.1.1 61401 1eg7A 557 1.54e-02 1eg7A c.37.1.10 32241 1e19A 314 1.82e-02 1b7bA c.73.1.1 34967 1vjoA 393 2.05e-02 c.67.1.3 -8173 1eny 268 2.16e-02 1eny c.2.1.2 29910 1knwA 425 2.30e-02 b.49.2.3 -4274 c.1.6.1 -5229 1djnA 729 2.39e-02 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1bmdA 327 2.57e-02 1bmdA c.2.1.5 30139 d.162.1.1 42106 1ihoA 283 2.57e-02 1ihoA c.26.1.4 62390 7a3hA 303 3.01e-02 7a3hA c.1.8.3 28817 1pzgA 331 3.19e-02 c.2.1.5 -5931 d.162.1.1 -11498 2tmdA 729 3.32e-02 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1q7zA 566 3.42e-02 c.1.21.2 -5638 c.1.26.1 -5666 1a4mA 349 3.85e-02 1a4mA c.1.9.1 29014 1lssA 140 4.11e-02 c.2.1.9 74246 1ks9A 291 4.21e-02 a.100.1.7 68857 c.2.1.6 68858 1o98A 511 4.59e-02 c.105.1.1 86684 c.76.1.3 86685 1hl9A 449 4.95e-02 unknown_sccs -4694 unknown_sccs -5365 1o6zA 303 5.03e-02 c.2.1.5 81107 d.162.1.1 81108 1qhoA 686 5.07e-02 1cxlA b.1.18.2 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1s3iA 310 5.15e-02 b.46.1.1 -4111 c.65.1.1 -8042 1scuA 288 5.18e-02 2scuA c.2.1.8 30307 c.23.4.1 31135 1fkx 349 5.19e-02 1a4mA c.1.9.1 29018 1lwjA 441 5.40e-02 b.71.1.1 74303 c.1.8.1 74304 1sr9A 644 5.61e-02 1auk 489 6.09e-02 1auk c.76.1.2 35030 1jw9B 249 6.32e-02 c.111.1.1 67377 1o94A 729 6.64e-02 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1j8yF 297 7.92e-02 1ng1 a.24.13.1 62747 c.37.1.10 62748 1p3dA 475 8.01e-02 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1ro7A 259 8.21e-02 unknown_sccs -7322 1cf2O 337 8.46e-02 1b7gO c.2.1.3 29994 d.81.1.1 39909 1dv1A 449 9.51e-02 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1qo2A 241 9.53e-02 1qo2A c.1.2.1 28533 1umdB 324 1.05e-01 c.36.1.7 -6929 c.48.1.2 -7539 1eqjA 511 1.11e-01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1bdmA 327 1.19e-01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1ojxA 263 1.30e-01 c.1.10.1 -5445 1rxyA 253 1.30e-01 c.56.2.1 -7834 1lx7A 253 1.37e-01 c.56.2.1 74329 1muwA 386 1.39e-01 c.1.15.3 79495 1fobA 334 1.42e-01 c.1.8.3 83255 1px5A 349 1.43e-01 unknown_sccs -1139 unknown_sccs -9793 4xis 387 1.44e-01 4xis c.1.15.3 29421 1fcjA 322 1.44e-01 1oasA c.79.1.1 35289 1r6xA 395 1.44e-01 b.122.1.3 -5125 c.26.1.5 -6620 1ur1A 378 1.52e-01 c.1.8.3 -5311 1yacA 208 1.57e-01 1yacA unknown_sccs 31757 1g8fA 511 1.59e-01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1lsuA 147 1.62e-01 c.2.1.9 74250 1f2dA 341 1.66e-01 1f2dA c.79.1.1 35298 1eyeA 280 1.68e-01 1aj2 c.1.21.1 29672 1f0yA 302 1.75e-01 2hdhA a.100.1.3 18793 c.2.1.6 30197 3xis 387 1.81e-01 4xis c.1.15.3 29423 1uuqA 440 1.85e-01 c.1.8.3 -5321 1a9xA 1058 1.93e-01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1ur5A 309 2.00e-01 c.2.1.5 -5910 d.162.1.1 -11477 1ec7A 446 2.04e-01 1bqg c.1.11.2 29218 d.54.1.1 38862 1vhnA 318 2.05e-01 c.1.4.1 -5209 1b74A 254 2.10e-01 1b74A c.78.2.1 35264 c.78.2.1 35265 1j1uA 306 2.14e-01 c.26.1.1 83980 1ktbA 405 2.15e-01 b.71.1.1 72960 c.1.8.1 72961 1q1gA 276 2.21e-01 c.56.2.1 -7846 1j0hA 588 2.25e-01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1j8mF 297 2.27e-01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1lldA 319 2.27e-01 3ldh c.2.1.5 30177 d.162.1.1 42144 1hyhA 309 2.39e-01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1t2dA 322 2.40e-01 c.2.1.5 -5920 d.162.1.1 -11487 2hvm 273 2.47e-01 1cnv c.1.8.5 28985 1ad4A 266 2.47e-01 1aj2 c.1.21.1 29670 1dxy 333 2.52e-01 1dxy c.2.1.4 30094 c.23.12.1 31354 1i8jA 323 2.62e-01 1b4kA c.1.10.3 61968 1mdl 359 2.63e-01 2mnr c.1.11.2 29247 d.54.1.1 38891 1ofuA 320 2.76e-01 c.32.1.1 86972 d.79.2.1 86973 1l6sA 323 2.77e-01 c.1.10.3 73627 1c0pA 363 2.85e-01 1an9A c.4.1.2 30647 d.16.1.3 37934 1kqzA 273 2.88e-01 c.1.8.5 68844 4uagA 437 2.97e-01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1j6oA 268 2.98e-01 c.1.9.12 77088 1hkhA 279 3.14e-01 c.69.1.12 -8342 1onxA 390 3.22e-01 b.92.1.7 87176 c.1.9.13 87177 1fmtA 314 3.31e-01 1fmtA b.46.1.1 25758 c.65.1.1 34174 1n3lA 372 3.37e-01 c.26.1.1 79966 1jilA 420 3.40e-01 c.26.1.1 66745 1p1jA 533 3.51e-01 c.2.1.3 87687 d.81.1.3 87688 1k32A 1045 3.57e-01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1bg4 302 3.60e-01 1taxA c.1.8.3 28806 1guzA 310 3.82e-01 c.2.1.5 65586 d.162.1.1 65587 1o5kA 306 3.85e-01 c.1.10.1 -5482 1h3gA 601 4.07e-01 b.1.18.2 -2725 b.71.1.1 -4653 c.1.8.1 -5277 2mnr 357 4.22e-01 2mnr c.1.11.2 29245 d.54.1.1 38889 1ldg 316 4.23e-01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1m3uA 264 4.25e-01 c.1.12.8 84784 1j9lA 247 4.27e-01 c.106.1.1 62762 1ad1A 266 4.38e-01 1aj2 c.1.21.1 29668 1onwA 390 4.39e-01 b.92.1.7 87172 c.1.9.13 87173 1brmA 367 4.44e-01 1brmA c.2.1.3 30030 d.81.1.1 39945 1itcA 516 4.46e-01 b.3.1.1 83705 c.1.8.1 83706 1jhdA 396 4.56e-01 b.122.1.3 66712 c.26.1.5 66713 1egaA 301 4.62e-01 1egaA c.37.1.8 32150 d.52.3.1 38836 1rkqA 282 4.86e-01 c.108.1.10 -6847 2his 312 5.15e-01 1taxA c.1.8.3 28918 1o6dA 163 5.23e-01 c.116.1.3 -6689 1p3wA 404 5.31e-01 c.67.1.3 87752 1eudA 311 5.33e-01 2scuA c.2.1.8 30312 c.23.4.1 31140 1ej2A 181 5.41e-01 1f9aA c.26.1.3 59414 1vimA 200 5.47e-01 c.80.1.3 -8532 1nbaA 264 5.67e-01 1nbaA unknown_sccs 31753 1kamA 194 5.76e-01 c.26.1.3 72254 1sviA 195 5.87e-01 1i1wA 303 5.87e-01 c.1.8.3 76732 1j6pA 418 5.91e-01 b.92.1.4 77089 c.1.9.9 77090 1qs0B 338 5.92e-01 1qs0B c.36.1.7 31830 c.48.1.2 33103 1dljA 402 5.95e-01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1fxmA 302 6.05e-01 1taxA 1jvbA 347 6.25e-01 b.35.1.2 77181 c.2.1.1 77182 1mx3A 347 6.27e-01 c.2.1.4 79638 c.23.12.1 79639 1lhpA 312 6.28e-01 c.72.1.5 77960 1obfO 335 6.29e-01 c.2.1.3 86768 d.81.1.1 86769 1jjiA 311 6.36e-01 c.69.1.2 66766 1k3tA 359 6.45e-01 c.2.1.3 72022 d.81.1.1 72023 1gypA 358 6.48e-01 1dssG c.2.1.3 30004 d.81.1.1 39919 1js1X 324 6.52e-01 c.78.1.1 71834 c.78.1.1 71835 1q7eA 428 6.61e-01 c.123.1.1 -8768 1l5xA 280 7.07e-01 c.106.1.1 77718 1rvkA 382 7.07e-01 c.1.11.2 -5568 d.54.1.1 -9826 1g0cA 364 7.16e-01 7a3hA c.1.8.3 60165 1v93A 296 7.26e-01 c.1.23.1 -5654 1b7gO 340 7.47e-01 1b7gO c.2.1.3 29992 d.81.1.1 39907 1ih8A 271 7.63e-01 2nsyA c.26.2.1 62377 1pz1A 333 7.70e-01 c.1.7.1 -5255 1hl2A 297 7.79e-01 c.1.10.1 83581 1n7kA 234 7.84e-01 c.1.10.1 85374 1p9oA 313 7.85e-01 unknown_sccs -8423 1qlaA 656 7.89e-01 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1pt7A 437 7.98e-01 c.123.1.1 -8762 1q45A 391 8.18e-01 c.1.4.1 -5199 1id1A 153 8.31e-01 1id1A c.2.1.9 62286 1fgs 428 8.39e-01 1fgs c.59.1.2 33959 c.72.2.2 34962 1fts 295 8.52e-01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1jz8A 1023 8.62e-01 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1j5pA 253 8.67e-01 c.2.1.3 83092 d.81.1.3 71577 1iukA 140 8.68e-01 c.2.1.8 83712 1heiA 451 8.88e-01 1heiA c.37.1.14 32463 c.37.1.14 32464 1pjcA 361 8.94e-01 1sayA c.2.1.4 30101 c.23.12.2 31361 1nrwA 288 9.01e-01 c.108.1.10 86128 1p1mA 406 9.23e-01 b.92.1.4 87696 c.1.9.9 87697 1reoA 486 9.39e-01 c.3.1.2 -5997 d.16.1.5 -9217 1vk3A 615 9.54e-01 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1ko7A 314 9.57e-01 c.98.2.1 72797 c.91.1.2 72798 1l5oA 356 1.03e+00 c.39.1.1 77711 1s3eA 520 1.04e+00 c.3.1.2 -6022 d.16.1.5 -9242 1dp0A 1023 1.04e+00 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 1lrzA 426 1.06e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1gr0A 367 1.07e+00 c.2.1.3 70379 d.81.1.3 70380 2nacA 393 1.08e+00 2nadA c.2.1.4 30088 c.23.12.1 31348 1eqcA 394 1.08e+00 1cz1A c.1.8.3 28811 1m6iA 493 1.09e+00 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1j33A 335 1.09e+00 c.39.1.1 77069 1d0vA 356 1.09e+00 1d0vA c.39.1.1 32476 1gd1O 334 1.10e+00 1dssG c.2.1.3 29962 d.81.1.1 39877 1cp2A 269 1.11e+00 1cp2A c.37.1.10 32269 7taa 478 1.11e+00 7taa b.71.1.1 27778 c.1.8.1 28765 1edqA 540 1.14e+00 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 7odcA 424 1.15e+00 7odcA b.49.2.3 26488 c.1.6.1 28650 1poxA 585 1.18e+00 1poxA c.31.1.3 31731 c.36.1.5 31793 c.36.1.9 31794 1kbjA 412 1.20e+00 c.1.4.1 72280 1gjwA 637 1.22e+00 b.71.1.1 60582 c.1.8.1 60583 1eceA 358 1.22e+00 1eceA c.1.8.3 28813 1o1yA 239 1.22e+00 c.23.16.1 86554 1f7uA 607 1.25e+00 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1q1rA 431 1.26e+00 c.3.1.5 -6048 c.3.1.5 -6049 d.87.1.1 -10502 1exbA 332 1.26e+00 1qrqA c.1.7.1 28666 1uhvA 500 1.26e+00 b.71.1.2 -4683 c.1.8.3 -5354 1yasA 257 1.27e+00 1qj4A c.69.1.20 34801 1ur3M 319 1.27e+00 c.1.7.1 -5248 1ceo 343 1.28e+00 1ceo c.1.8.3 28808 1e3dA 266 1.31e+00 2frvA e.19.1.1 59188 1pwhA 327 1.31e+00 c.79.1.1 -8524 1g2oA 268 1.35e+00 1b8oA c.56.2.1 60228 1m65A 245 1.36e+00 c.6.3.1 84847 1vhwA 253 1.38e+00 c.56.2.1 -7765 1gdhA 320 1.38e+00 1gdhA c.2.1.4 30095 c.23.12.1 31355 1dvjA 246 1.39e+00 1dvjA c.1.2.3 28546 1usgA 346 1.40e+00 c.93.1.1 -8635 1ll7A 392 1.40e+00 c.1.8.5 78085 d.26.3.1 78086 1e2uA 553 1.41e+00 1e1dA e.26.1.1 43362 1j2rA 199 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