# 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 1cnzA 363 4.37e-43 1cnzA c.77.1.1 35061 1a05A 358 1.83e-42 1cnzA c.77.1.1 35059 1iso 416 2.05e-38 1iso c.77.1.1 35065 1hqsA 423 2.42e-37 1iso c.77.1.1 61154 1lwdA 413 2.47e-33 c.77.1.1 78265 1pb1A 416 8.08e-32 c.77.1.1 88014 1itwA 741 1.06e-05 c.77.1.2 76793 1ptmA 329 7.36e-03 unknown_sccs -8456 1ohlA 342 1.68e-01 c.1.10.3 87035 1kyqA 274 2.50e-01 c.2.1.11 73281 e.37.1.1 73282 1h7nA 342 2.57e-01 1b4kA c.1.10.3 60726 1np7A 489 3.39e-01 a.99.1.1 80677 c.28.1.1 80678 1obbA 480 4.85e-01 c.2.1.5 86760 d.162.1.2 86761 1vjoA 393 6.92e-01 c.67.1.3 -8173 1ex1A 605 1.08e+00 1ex1A c.1.8.7 29013 c.23.11.1 31347 1t3lA 337 1.12e+00 1dar 691 1.25e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1i9sA 210 1.27e+00 1i9sA c.45.1.1 62099 1kl7A 514 1.29e+00 c.79.1.1 72678 1lc5A 364 1.33e+00 c.67.1.1 73827 1jykA 254 1.67e+00 c.68.1.13 67458 1hlrA 907 2.14e+00 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1alo 907 2.14e+00 1alo 1l2lA 457 2.73e+00 c.72.1.3 77656 1fxjA 331 2.76e+00 1fwyA b.81.1.4 28062 c.68.1.5 34520 1b66A 140 3.24e+00 1b66A d.96.1.2 40657 1pz1A 333 3.47e+00 c.1.7.1 -5255 7a3hA 303 3.58e+00 7a3hA c.1.8.3 28817 1t0hB 224 3.81e+00 1eyeA 280 3.88e+00 1aj2 c.1.21.1 29672 1qz9A 416 3.94e+00 c.67.1.3 -8180 1ursA 402 4.35e+00 c.94.1.1 -8651 1p3wA 404 4.68e+00 c.67.1.3 87752 1kwgA 645 4.99e+00 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1hzyA 332 5.18e+00 1pscA c.1.9.3 61468 1hv9A 456 5.41e+00 1fwyA b.81.1.4 28060 c.68.1.5 34518 1eg5A 384 5.47e+00 1ecxA c.67.1.3 34429 1i0dA 332 5.72e+00 1pscA c.1.9.3 61487 1rthA 560 6.23e+00 1rthA c.55.3.1 33576 e.8.1.2 43028 1evyA 366 6.59e+00 1evyA a.100.1.6 18811 c.2.1.6 30215 1po5A 476 7.02e+00 a.104.1.1 -1467 1earA 147 7.12e+00 b.107.1.1 64875 d.58.38.1 64876 1jx6A 342 7.16e+00 c.93.1.1 67406 1j9yA 385 7.22e+00 1j9yA c.1.8.3 62791 2plc 274 7.45e+00 2plc c.1.18.2 29614 1odzA 386 7.55e+00 c.1.8.3 86889 1j2rA 199 8.65e+00 unknown_sccs -6799 3mag 307 8.70e+00 3mag c.66.1.25 34205 1hrhA 136 8.79e+00 1rthA c.55.3.1 33577 1vrtA 560 9.77e+00 1rthA c.55.3.1 33574 e.8.1.2 43023 1qxyA 252 9.86e+00 d.127.1.1 -10993 2shpA 525 1.03e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1s7hA 200 1.07e+01 1nhs 447 1.19e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1qv9A 283 1.22e+01 unknown_sccs -6888 1rie 129 1.23e+01 1rie b.33.1.1 24427 1cb0A 283 1.23e+01 1cb0A c.56.2.1 33790 1ky3A 182 1.26e+01 c.37.1.8 73193 1oxkB 134 1.26e+01 c.23.1.1 -6411 1vsd 152 1.29e+01 1cxqA c.55.3.2 33625 1j5pA 253 1.29e+01 c.2.1.3 83092 d.81.1.3 71577 1k6xA 352 1.30e+01 c.2.1.2 68238 1j7nA 776 1.41e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1f6dA 376 1.44e+01 1f6dA c.87.1.3 35467 1cg2A 393 1.46e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1hl2A 297 1.46e+01 c.1.10.1 83581 1dqwA 267 1.48e+01 1dqwA c.1.2.3 28551 1im5A 180 1.51e+01 unknown_sccs 66211 1clxA 347 1.54e+01 1taxA c.1.8.3 28899 1jf9A 408 1.54e+01 1c0nA c.67.1.3 62931 1nhp 447 1.56e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1d1qA 161 1.61e+01 1dg9A c.44.1.1 32642 1vizA 240 1.64e+01 c.1.4.1 -5212 1p2xA 159 1.65e+01 1k6wA 426 1.68e+01 b.92.1.2 68236 c.1.9.5 68237 1pszA 303 1.72e+01 1toaA c.92.2.2 35600 1rhs 296 1.74e+01 1rhs c.46.1.2 32703 c.46.1.2 32704 1g63A 181 1.79e+01 1g5qA c.34.1.1 60299 1icpA 376 1.81e+01 1oyc c.1.4.1 62270 1enp 312 1.86e+01 1enp c.2.1.2 29906 1ituA 369 1.91e+01 c.1.9.7 71423 1j0aA 325 1.96e+01 c.79.1.1 83871 1a4yA 460 1.98e+01 1a4yA c.10.1.1 30852 1auvA 311 1.99e+01 1auvA c.30.1.5 31723 d.142.1.3 41558 1igs 248 1.99e+01 1a53 c.1.2.4 28565 1cxqA 162 2.00e+01 1cxqA c.55.3.2 33621 1n2sA 299 2.01e+01 c.2.1.2 79857 1qsgA 265 2.02e+01 1eny c.2.1.2 29935 1pii 452 2.04e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1fl2A 310 2.04e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1oc2A 348 2.07e+01 c.2.1.2 -5753 1kepA 348 2.07e+01 c.2.1.2 68536 1rm8A 169 2.09e+01 d.92.1.11 -10584 1j0hA 588 2.12e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1rpxA 230 2.17e+01 1rpxA c.1.2.2 28536 1em8B 112 2.19e+01 unknown_sccs -6364 1r5jA 337 2.21e+01 unknown_sccs -8471 1v3hA 495 2.23e+01 1gc5A 467 2.24e+01 1gc5A c.72.1.3 60429 1li5A 461 2.28e+01 a.27.1.1 73912 c.26.1.1 73913 1opjA 293 2.34e+01 d.144.1.7 87230 1fehA 574 2.40e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1d7oA 297 2.41e+01 1enp c.2.1.2 29907 1cs1A 386 2.44e+01 1ibjA c.67.1.3 34399 1cl1A 395 2.47e+01 1cl2A c.67.1.3 34395 1jilA 420 2.54e+01 c.26.1.1 66745 1ogsA 497 2.54e+01 b.71.1.2 86997 c.1.8.3 86998 1c4xA 285 2.54e+01 1c4xA c.69.1.10 34684 1jyoA 130 2.61e+01 d.198.1.1 67483 1q6cA 495 2.66e+01 c.1.8.1 -5300 1fds 327 2.70e+01 1fds c.2.1.2 29838 1alvA 173 2.71e+01 1alvA a.39.1.8 17370 1dbiA 280 2.73e+01 1gci c.41.1.1 32543 1o4vA 183 2.74e+01 c.23.8.1 86628 1lt8A 406 2.74e+01 c.1.26.1 78186 1wdnA 226 2.77e+01 1lst c.94.1.1 35816 1m6eX 359 2.82e+01 unknown_sccs -8071 1jtvA 327 2.84e+01 c.2.1.2 84230 1gr0A 367 2.84e+01 c.2.1.3 70379 d.81.1.3 70380 1g6sA 427 2.85e+01 1eps d.68.2.2 39584 1k3rA 268 2.86e+01 b.40.4.10 72018 c.116.1.2 72019 1ftrA 296 2.88e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1p5sA 203 2.93e+01 a.40.1.1 -900 1k77A 260 2.93e+01 c.1.15.5 72096 12asA 330 2.93e+01 12asA d.104.1.1 40783 1su8A 636 2.93e+01 e.26.1.2 -12015 1ewkA 490 2.94e+01 1ewkA c.93.1.1 35712 1mkeA 152 2.94e+01 b.55.1.4 79231 1rj9A 304 2.98e+01 a.24.13.1 -631 c.37.1.10 -7129 1ockA 412 2.99e+01 c.117.1.1 86802 1ayaA 101 3.00e+01 1qadA d.93.1.1 40460 1j79A 347 3.06e+01 1j79A c.1.9.4 62675 1a53 247 3.08e+01 1a53 c.1.2.4 28564 1h1nA 305 3.10e+01 c.1.8.3 70855 1vpt 348 3.15e+01 3mag c.66.1.25 34207 1v39 322 3.16e+01 3mag c.66.1.25 34206 1eqfA 280 3.16e+01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1sczA 233 3.22e+01 c.43.1.1 -7326 1umdB 324 3.23e+01 c.36.1.7 -6929 c.48.1.2 -7539 1di0A 158 3.24e+01 1di0A c.16.1.1 30957 1r9cA 139 3.25e+01 d.32.1.2 -9557 1ojqA 212 3.27e+01 d.166.1.1 -11568 4eugA 229 3.28e+01 3eugA c.18.1.1 31019 1f60A 458 3.30e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1rkd 309 3.33e+01 1rkd c.72.1.1 34928 1q45A 391 3.34e+01 c.1.4.1 -5199 1e1oA 504 3.36e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1qydA 313 3.36e+01 c.2.1.2 -5786 5reqA 727 3.38e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 1qqfA 277 3.39e+01 1c3d a.102.4.4 18875 1vsrA 136 3.42e+01 1vsrA c.52.1.15 33332 1v7zA 260 3.42e+01 unknown_sccs -6353 1oi7A 288 3.45e+01 c.2.1.8 87049 c.23.4.1 87050 1gnxA 479 3.56e+01 c.1.8.4 76241 1brwA 433 3.60e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1j3gA 187 3.60e+01 d.118.1.1 77075 1jx2B 315 3.61e+01 c.37.1.8 67404 1pa1A 310 3.66e+01 c.45.1.2 -7332 1d0iA 156 3.69e+01 2dhqA c.23.13.1 31383 1e5eA 404 3.71e+01 1ibjA c.67.1.3 59265 1nmoA 247 3.72e+01 unknown_sccs -8746 1ekeA 230 3.73e+01 1ekeA c.55.3.1 33572 1jjyA 636 3.77e+01 1jjyA 1ctt 294 3.81e+01 1ctt c.97.1.1 36022 c.97.1.1 36023 1b5qA 472 3.82e+01 1b37B c.3.1.2 30404 d.16.1.5 37968 1h8lA 380 3.85e+01 b.3.2.1 65737 c.56.5.1 65738 1chmA 401 3.86e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 1g8lA 411 3.92e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1rvgA 305 3.95e+01 c.1.10.2 -5500 1ml9A 302 3.98e+01 b.85.7.1 79282