# List of top-scoring protein chains for t2k-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 1pj5A 830 6.27e-47 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1nrkA 328 6.67e-27 unknown_sccs -4071 unknown_sccs -10176 1a7tA 232 2.50e-01 1a7tA d.157.1.1 42041 1g7rA 594 4.28e-01 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1jcfA 344 4.43e-01 c.55.1.1 62878 c.55.1.1 62879 1jceA 344 4.52e-01 c.55.1.1 62876 c.55.1.1 62877 1b1cA 181 4.99e-01 1amoA c.23.5.2 31212 1g7tA 594 7.21e-01 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1nbwA 607 8.19e-01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1hrhA 136 1.02e+00 1rthA c.55.3.1 33577 1ja1A 622 1.27e+00 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1g7sA 594 1.42e+00 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1j7nA 776 1.46e+00 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1smrA 335 1.52e+00 1smrA b.50.1.2 26878 2ebn 289 1.68e+00 2ebn c.1.8.5 28990 1mdwA 328 2.09e+00 d.3.1.3 84934 1m98A 317 2.23e+00 a.175.1.1 78866 d.17.4.6 78867 1fthA 122 2.27e+00 d.150.1.2 60028 1ko3A 230 2.48e+00 d.157.1.1 -11454 1io1A 398 2.74e+00 1io1A e.32.1.1 62611 1rz1A 161 2.75e+00 b.45.1.2 -4088 1j7nB 776 3.11e+00 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1dkgD 383 3.16e+00 1ba1 c.55.1.1 33427 c.55.1.1 33428 1kxrA 339 3.50e+00 d.3.1.3 73175 1c4zA 358 3.65e+00 1c4zA d.148.1.1 41766 1m2oA 768 4.38e+00 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1bob 320 4.53e+00 1bob d.108.1.1 40816 4matA 278 4.67e+00 1c24A d.127.1.1 41150 1obbA 480 4.79e+00 c.2.1.5 86760 d.162.1.2 86761 1q44A 326 4.85e+00 c.37.1.5 -7037 1kcqA 104 4.92e+00 d.109.1.1 68449 1m2xA 223 5.24e+00 d.157.1.1 84764 1eysH 259 5.24e+00 6prcH b.41.1.1 25484 f.23.10.1 43517 1j6wA 175 5.43e+00 1j98A d.185.1.2 62663 1li4A 432 5.57e+00 c.2.1.4 84616 c.23.12.3 84617 1efcA 393 5.97e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1mat 264 6.26e+00 1c24A d.127.1.1 41152 1giqA 413 6.35e+00 d.166.1.1 76224 d.166.1.1 76225 1e8gA 560 6.50e+00 1qltA d.58.32.1 39455 d.145.1.1 41718 2matA 264 6.55e+00 1c24A d.127.1.1 41146 1pz1A 333 6.93e+00 c.1.7.1 -5255 1v5sA 126 6.99e+00 1jmxA 494 7.10e+00 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1c24A 263 7.20e+00 1c24A d.127.1.1 41148 1qltA 560 7.71e+00 1qltA d.58.32.1 39457 d.145.1.1 41720 1ju2A 536 7.81e+00 c.3.1.2 77169 d.16.1.1 77170 2fcr 173 7.93e+00 1rcf c.23.5.1 31151 1vjqA 79 8.12e+00 unknown_sccs -13478 1amoA 615 8.32e+00 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1rlw 126 8.94e+00 1rlw b.7.1.1 23177 1vjtA 483 9.07e+00 c.2.1.5 -5941 d.162.1.2 -11508 1chmA 401 9.13e+00 1chmA c.55.2.1 33545 d.127.1.1 41142 1jjeA 222 9.43e+00 1a7tA d.157.1.1 63117 1qhqA 140 9.43e+00 1qhqA b.6.1.1 63326 1bxsA 501 9.44e+00 1bpwA c.82.1.1 35357 1b93A 152 9.66e+00 1b93A c.24.1.2 31507 1l8bA 190 9.83e+00 d.86.1.1 73683 1i50C 318 9.97e+00 d.74.3.1 61756 d.181.1.1 61757 1hdmB 193 1.01e+01 1hdmB b.1.1.2 21584 d.19.1.1 38158 1dxrH 258 1.04e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 1ecxA 384 1.04e+01 1ecxA c.67.1.3 34431 1k07A 263 1.04e+01 d.157.1.1 77218 1itwA 741 1.09e+01 c.77.1.2 76793 1uw4A 91 1.13e+01 unknown_sccs -10038 6prcH 258 1.15e+01 6prcH b.41.1.1 25457 f.23.10.1 43436 1nmtA 392 1.16e+01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1b93B 152 1.18e+01 1b93A c.24.1.2 31508 1ej1A 190 1.19e+01 1ejhA d.86.1.1 40144 1h6oA 204 1.21e+01 a.146.1.1 60689 1sxl 97 1.22e+01 1b7fA d.58.7.1 39180 1scuA 288 1.31e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1adt 356 1.32e+01 1anv a.54.1.1 17887 g.51.1.1 45362 g.51.1.1 45368 1p3jA 217 1.33e+01 c.37.1.1 -6996 g.41.2.1 -12769 1jjtA 228 1.35e+01 1a7tA d.157.1.1 63139 1fjmA 330 1.36e+01 1auiA d.159.1.3 42082 1fnmA 691 1.40e+01 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1ev7A 317 1.41e+01 1ev7B c.52.1.9 33315 1dd6A 228 1.43e+01 1a7tA d.157.1.1 42054 2scuA 288 1.45e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1vaoA 560 1.46e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1anv 356 1.51e+01 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 1ivyA 452 1.52e+01 1ivyA c.69.1.5 34654 1cz4A 185 1.53e+01 1cz4A b.52.2.3 26934 d.31.1.1 38468 1fvuA 133 1.54e+01 1ixxB d.169.1.1 42345 1kfiA 572 1.58e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1bq3B 246 1.61e+01 1qhfA c.60.1.1 33979 1eagA 342 1.67e+01 1eagA b.50.1.2 26826 1a7aA 432 1.71e+01 1b3rA c.2.1.4 30104 c.23.12.3 31364 1b3rA 431 1.72e+01 1b3rA c.2.1.4 30106 c.23.12.3 31366 1nedA 183 1.73e+01 1nedA d.153.1.4 41974 1cknA 330 1.75e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1jnyA 435 1.82e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1mqoA 227 1.88e+01 1inp 400 1.89e+01 1inp e.7.1.1 42972 1k32A 1045 1.90e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1kriA 186 1.90e+01 b.29.1.14 72897 1ofgA 381 1.91e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1m5wA 243 1.91e+01 c.1.24.1 84836 1kqrA 179 2.00e+01 b.29.1.14 72886 1mdbA 539 2.06e+01 e.23.1.1 79008 1agdA 276 2.13e+01 1agdA b.1.1.2 20741 d.19.1.1 38260 1qs1A 462 2.14e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1tdj 514 2.15e+01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1euaA 213 2.16e+01 1fwrA c.1.10.1 29155 1fq0A 213 2.19e+01 1fwrA c.1.10.1 29161 1qs2A 401 2.23e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1dbxA 158 2.29e+01 1dbuA d.116.1.1 40928 1oc2A 348 2.33e+01 c.2.1.2 -5753 1g0oA 283 2.36e+01 1ybvA c.2.1.2 60181 1bu5A 147 2.39e+01 5nul c.23.5.1 31155 1df9A 191 2.40e+01 1befA b.47.1.3 26420 1pne 140 2.40e+01 1pne d.110.1.1 40866 1l2uA 245 2.42e+01 c.1.2.3 73516 1qk4A 233 2.42e+01 1qk3A c.61.1.1 34037 1d4fA 431 2.43e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1f06A 320 2.43e+01 1dapA c.2.1.3 59556 d.81.1.3 59557 1ckmA 330 2.43e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1kepA 348 2.50e+01 c.2.1.2 68536 1fmk 452 2.52e+01 1fmk b.34.2.1 24511 d.93.1.1 40436 d.144.1.7 41690 1eucA 311 2.54e+01 2scuA c.2.1.8 30311 c.23.4.1 31139 1eg5A 384 2.62e+01 1ecxA c.67.1.3 34429 1ho1A 242 2.66e+01 1ho1A c.1.24.1 61097 1nrhX 472 2.73e+01 c.2.1.5 -5944 d.162.1.2 -11511 1ea2A 131 2.73e+01 d.17.4.3 64860 1tuhA 156 2.74e+01 1fy7A 278 2.74e+01 1fy7A d.108.1.1 40817 1lci 550 2.83e+01 1lci e.23.1.1 43349 1cnzA 363 2.84e+01 1cnzA c.77.1.1 35061 1nktA 922 2.86e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1k68A 140 2.89e+01 c.23.1.1 -6403 1qysA 106 2.95e+01 unknown_sccs -13432 1ybvA 283 3.03e+01 1ybvA c.2.1.2 29948 1ej2A 181 3.08e+01 1f9aA c.26.1.3 59414 1r8oB 71 3.14e+01 1nu5A 370 3.16e+01 c.1.11.2 -5565 d.54.1.1 -9823 1pbtA 244 3.16e+01 unknown_sccs -6866 1dapA 320 3.22e+01 1dapA c.2.1.3 30053 d.81.1.3 39968 1ky9B 448 3.22e+01 b.36.1.4 73200 b.36.1.4 73201 b.47.1.1 73202 1f4pA 147 3.30e+01 5nul c.23.5.1 59651 1hybA 181 3.30e+01 1f9aA c.26.1.3 61399 1uch 230 3.30e+01 1uch d.3.1.6 37129 1fwrA 213 3.33e+01 1fwrA c.1.10.1 29164 1nmeA 146 3.33e+01 c.17.1.1 85874 1m93B 245 3.35e+01 1qhfA 240 3.36e+01 1qhfA c.60.1.1 33960 1nngA 153 3.41e+01 d.38.1.1 -9636 1jvnA 555 3.42e+01 c.1.2.1 67355 c.23.16.1 67356 1jk7A 323 3.46e+01 1auiA d.159.1.3 63144 2fx2 147 3.47e+01 1rcf c.23.5.1 31158 1q9uA 130 3.51e+01 unknown_sccs -11025 1vgvA 384 3.52e+01 c.87.1.3 -8575 1miwA 404 3.59e+01 a.173.1.1 79162 d.218.1.4 79163 1v04A 355 3.61e+01 unknown_sccs -4592 1uylA 236 3.64e+01 1qftA 175 3.68e+01 1qftA b.60.1.1 27151 1iy8A 267 3.72e+01 c.2.1.2 83774 1jl3A 139 3.72e+01 c.44.1.1 66826 1kwsA 261 3.75e+01 c.68.1.7 73083 1fggA 261 3.77e+01 1fggA c.68.1.7 34576 1l8rA 101 3.82e+01 a.6.1.4 73700 1k5nA 276 3.87e+01 b.1.1.2 77266 d.19.1.1 77267 1jf8A 131 3.97e+01 c.44.1.1 66621 1cnuA 137 3.98e+01 1cof d.109.1.2 40862