# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1p5hA 428 1.59e-01 c.123.1.1 87802 1ipiA 123 1.95e-01 c.52.1.18 66255 1lngA 87 2.01e-01 d.201.1.1 74045 1ixkA 315 2.26e-01 unknown_sccs -8099 1ax4A 467 2.80e-01 1ax4A c.67.1.2 34391 1peeA 180 3.29e-01 1euoA 180 3.48e-01 1np1A b.60.1.1 27163 1gefA 123 4.77e-01 1gefA c.52.1.18 60465 1kvnA 104 4.96e-01 d.201.1.1 73066 1pm1X 180 7.37e-01 1ub0A 258 8.02e-01 c.72.1.2 88394 1iyeA 309 8.47e-01 e.17.1.1 83786 1gps 47 8.81e-01 1gpt g.3.7.5 44176 1tiqA 180 9.58e-01 1i1kA 309 1.10e+00 1daaA e.17.1.1 61533 1pysB 785 1.11e+00 1pysB a.6.1.1 16299 a.6.1.1 16300 b.40.4.4 25311 d.58.13.1 39310 d.104.1.1 40779 d.138.1.1 41455 1b7yB 785 1.20e+00 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1k4jA 230 1.29e+00 d.108.1.3 72057 1lj9A 144 1.46e+00 a.4.5.28 78035 1hh1A 143 1.48e+00 1gefA c.52.1.18 61036 1e2xA 243 1.70e+00 1e2xA a.4.5.6 16113 a.78.1.1 18443 1a3gA 308 1.76e+00 1daaA e.17.1.1 43286 1kzfA 230 2.12e+00 d.108.1.3 73354 1f5sA 211 2.19e+00 1f5sA c.108.1.4 59656 1j97A 211 2.19e+00 1f5sA c.108.1.4 62753 1ka9H 200 2.20e+00 c.23.16.1 77308 1q1hA 110 2.31e+00 unknown_sccs -262 1r44A 202 2.62e+00 1l7mA 211 2.63e+00 c.108.1.4 73664 1dpuA 99 2.67e+00 1dpuA a.4.5.16 16150 1b8aA 438 2.68e+00 1b8aA b.40.4.1 25244 d.104.1.1 40765 1d8bA 81 2.75e+00 1d8bA a.60.8.1 18094 1kkjA 419 2.86e+00 c.67.1.4 72647 1kl1A 419 2.86e+00 c.67.1.4 72663 1tbxA 99 2.97e+00 1p5jA 372 3.03e+00 1f7wA 144 3.03e+00 1f46A d.129.4.1 59679 1lml 478 3.35e+00 1lml d.92.1.3 40295 1pvmA 184 3.44e+00 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1mzbA 136 3.46e+00 unknown_sccs -266 1uj6A 227 3.47e+00 1seiA 130 3.58e+00 1seiA d.140.1.1 41463 1ucrA 78 3.71e+00 unknown_sccs -308 1lba 146 3.83e+00 1lba d.118.1.1 41062 1hw1A 239 3.84e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1oeyA 83 3.90e+00 d.15.2.2 -9162 1icfA 175 4.02e+00 1cs8A d.3.1.1 37067 1jxhA 288 4.09e+00 c.72.1.2 67415 1brwA 433 4.13e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1fh0A 221 4.28e+00 1cs8A d.3.1.1 59832 1eiyB 785 4.33e+00 1pysB a.6.1.1 16305 a.6.1.1 16306 b.40.4.4 25314 d.58.13.1 39313 d.104.1.1 40782 d.138.1.1 41458 3htsB 102 4.39e+00 2hts a.4.5.22 16175 1acf 125 4.54e+00 3nul d.110.1.1 40882 1ks2A 219 4.57e+00 unknown_sccs 72908 d.58.40.1 72909 1gc5A 467 4.80e+00 1gc5A c.72.1.3 60429 1lkzA 219 5.06e+00 unknown_sccs 73991 d.58.40.1 73992 1pp7U 131 5.14e+00 unknown_sccs -304 1f4lA 551 5.33e+00 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1pfvA 551 5.44e+00 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1qqtA 551 5.49e+00 1qqtA a.27.1.1 16923 c.26.1.1 31590 g.41.1.1 45175 1ujnA 348 5.68e+00 e.22.1.1 -11998 1o8bA 219 5.86e+00 unknown_sccs 81180 d.58.40.1 81181 1p5dX 463 6.01e+00 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1p8kZ 254 6.09e+00 d.95.2.1 -10648 d.95.2.1 -10649 1i1gA 141 6.26e+00 a.4.5.32 65982 d.58.4.2 65983 1f3fA 155 6.28e+00 1npk d.58.6.1 39101 1m32A 366 6.31e+00 c.67.1.3 78508 1npk 154 6.38e+00 1npk d.58.6.1 39099 1ndk 155 6.43e+00 1npk d.58.6.1 39118 1ekfA 365 6.59e+00 1ekfA e.17.1.1 59445 1qipA 183 6.68e+00 1qipA d.32.1.1 38470 1c7gA 456 6.70e+00 c.67.1.2 -8153 1dkzA 219 6.91e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1l2lA 457 6.97e+00 c.72.1.3 77656 1kx5B 102 7.01e+00 a.22.1.1 77594 1hq3D 103 7.05e+00 1aoiB a.22.1.1 16464 1tzyD 103 7.05e+00 1aoy 78 7.20e+00 1aoy a.4.5.3 16087 1uiuA 502 7.26e+00 c.94.1.1 -8674 1pil 112 7.46e+00 2pii d.58.5.1 39072 1dkxA 219 7.69e+00 1dkzA unknown_sccs -446 unknown_sccs -3061 1f47B 144 8.26e+00 1f46A d.129.4.1 59645 1aoiF 87 8.53e+00 1aoiB a.22.1.1 16471 1skoA 143 8.53e+00 1smtB 122 8.70e+00 1smtA a.4.5.5 16110 1flmA 122 8.81e+00 1axj b.45.1.1 25747 1r1tA 122 8.96e+00 1k2yX 463 9.28e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1v39 322 9.44e+00 3mag c.66.1.25 34206 1vp9 322 9.44e+00 3mag c.66.1.25 34210 3mag 307 9.56e+00 3mag c.66.1.25 34205 1kz7A 353 9.76e+00 a.87.1.1 73333 b.55.1.1 73334 1aoiB 87 9.92e+00 1aoiB a.22.1.1 16470 1axj 122 9.99e+00 1axj b.45.1.1 25749 1gg3A 279 1.01e+01 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615 1hdoA 206 1.03e+01 1he2A c.2.1.2 60965 1he2A 206 1.04e+01 1he2A c.2.1.2 60966 1mjoA 104 1.05e+01 1cmbA unknown_sccs 17466 1dmlB 36 1.06e+01 1dmlB 1ccwA 137 1.12e+01 1be1 c.23.6.1 31238 1oglA 283 1.13e+01 unknown_sccs -1512 1f46A 140 1.14e+01 1f46A d.129.4.1 59643 1id3B 102 1.17e+01 a.22.1.1 66113 1vetA 124 1.17e+01 1vpt 348 1.19e+01 3mag c.66.1.25 34207 1e6mA 128 1.24e+01 3chy c.23.1.1 31039 1l0bA 229 1.27e+01 c.15.1.3 73391 c.15.1.3 73392 1kn6A 90 1.28e+01 d.58.3.3 72770 1v2xA 194 1.35e+01 c.116.1.1 -6704 1uekA 275 1.36e+01 d.14.1.5 88483 d.58.26.5 88484 1dxy 333 1.37e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1vh7A 265 1.38e+01 c.1.2.1 -5159 1bw9A 356 1.39e+01 1bw9A c.2.1.7 30274 c.58.1.1 33922 1tplA 426 1.43e+01 1ax4A c.67.1.2 34387 1uae 419 1.45e+01 1uae d.68.2.2 39574 1f9zA 135 1.48e+01 1qipA d.32.1.1 38484 1qwgA 251 1.48e+01 unknown_sccs -5678 1gpt 47 1.48e+01 1gpt g.3.7.5 44175 1nox 205 1.50e+01 1nox d.90.1.1 40242 1okrA 123 1.52e+01 unknown_sccs -235 1bh5A 183 1.52e+01 1qipA d.32.1.1 38476 2cblA 305 1.56e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1o70A 324 1.58e+01 b.118.1.1 81115 b.118.1.1 81116 1hl8A 449 1.58e+01 unknown_sccs -4690 unknown_sccs -5361 1krs 120 1.59e+01 1krs b.40.4.1 25256 1hl9A 449 1.61e+01 unknown_sccs -4694 unknown_sccs -5365 1mbyA 88 1.66e+01 d.223.1.1 78931 1smtA 122 1.66e+01 1smtA a.4.5.5 16109 1prq 125 1.69e+01 3nul d.110.1.1 40883 1em8B 112 1.75e+01 unknown_sccs -6364 1ejdA 419 1.78e+01 1uae d.68.2.2 39576 1hu4A 288 1.79e+01 1hu4A 1n5dA 288 1.79e+01 c.2.1.2 80030 1h3nA 878 1.83e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1tns 76 1.85e+01 1qpmA a.6.1.7 16228 1f02T 66 1.86e+01 1f02T j.67.1.1 46360 1lqpA 135 1.91e+01 d.32.1.2 78151 1nkiA 135 1.91e+01 d.32.1.2 -9544 1iznB 277 1.94e+01 e.43.1.2 83848 1qwdA 177 1.95e+01 b.60.1.1 -4455 1ru8A 232 1.95e+01 c.26.2.1 -6635 3rubS 123 1.96e+01 1rboC d.73.1.1 39616 1uetA 437 1.97e+01 unknown_sccs -1144 unknown_sccs -9798 unknown_sccs -10058 1rqlA 267 2.00e+01 c.108.1.3 -6814 1bjt 793 2.03e+01 1bjt e.11.1.1 43249 1mat 264 2.04e+01 1c24A d.127.1.1 41152 1fezA 256 2.04e+01 1fezA c.108.1.3 43343 1vj1A 363 2.06e+01 b.35.1.2 -3728 c.2.1.1 -5752 1d8cA 723 2.08e+01 1d8cA c.1.13.1 29325 1kafA 108 2.15e+01 d.199.1.1 68372 1qf5A 431 2.16e+01 1adeA c.37.1.10 32212 1pvc3 238 2.19e+01 1aym3 3chy 128 2.22e+01 3chy c.23.1.1 31038 1sdoA 203 2.27e+01 unknown_sccs -7558 1fa8A 135 2.29e+01 1qipA d.32.1.1 38486 1uc8A 280 2.31e+01 unknown_sccs -6718 unknown_sccs -11230 1b47A 304 2.32e+01 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 2dln 306 2.36e+01 1iow c.30.1.2 31715 d.142.1.1 41483 1c24A 263 2.43e+01 1c24A d.127.1.1 41148 1qahA 136 2.43e+01 d.79.1.1 -10377 4matA 278 2.44e+01 1c24A d.127.1.1 41150 2matA 264 2.46e+01 1c24A d.127.1.1 41146 1kqfB 294 2.47e+01 d.58.1.5 75900 f.23.22.1 75901 1edg 380 2.48e+01 1edg c.1.8.3 28807 1bob 320 2.49e+01 1bob d.108.1.1 40816 1cf2O 337 2.50e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1fnnA 389 2.51e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1hnnA 282 2.54e+01 c.66.1.15 65895 1o63A 219 2.57e+01 c.94.1.1 -8691 1ktaA 365 2.58e+01 e.17.1.1 77533 1kqnA 279 2.60e+01 c.26.1.3 77492 1p7tA 731 2.63e+01 c.1.13.1 -5600 1jvnA 555 2.63e+01 c.1.2.1 67355 c.23.16.1 67356 1q06A 135 2.67e+01 a.6.1.3 -375 1kt8A 365 2.74e+01 e.17.1.1 77531 1mwyA 73 2.76e+01 d.58.17.1 79616 1pq1A 196 2.77e+01 f.1.4.1 -12055 2acr 315 2.78e+01 1frb c.1.7.1 28674 1khyA 148 2.79e+01 a.174.1.1 77410 1bj4A 470 2.80e+01 1bj4A c.67.1.4 34479 1a4iB 301 2.82e+01 1a4iA c.2.1.7 30279 c.58.1.2 33927 1us0A 316 2.82e+01 c.1.7.1 -5233 1p3wA 404 2.84e+01 c.67.1.3 87752 1nx8A 273 2.84e+01 b.82.2.8 86374 1gx1A 160 2.85e+01 d.79.5.1 70675 1oniA 137 2.86e+01 d.79.1.1 87144 1v33A 366 2.87e+01 unknown_sccs -11384 1thtA 305 2.88e+01 1thtA c.69.1.13 34711 1pl4A 198 2.90e+01 a.2.11.1 -132 d.44.1.1 -9733 1n0nA 199 2.93e+01 a.2.11.1 79750 d.44.1.1 79751 1ap6A 198 2.93e+01 1avmA a.2.11.1 15746 d.44.1.1 38705 1im5A 180 2.99e+01 unknown_sccs 66211 1c1dA 355 2.99e+01 1bw9A c.2.1.7 30270 c.58.1.1 33918 1ooeA 236 2.99e+01 c.2.1.2 87196 1ujkA 147 3.00e+01 a.118.9.2 -1623 1diiC 80 3.02e+01 1diiC a.3.1.1 15925 1r0vA 305 3.03e+01 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1jwgA 147 3.09e+01 a.118.9.2 71911 1ads 315 3.10e+01 1frb c.1.7.1 28671 1d4oA 184 3.16e+01 1d4oA c.31.1.4 31748 1ig0A 319 3.17e+01 1ig0A b.82.6.1 62354 c.100.1.1 62355 1cf7A 76 3.19e+01 1cf7B a.4.5.17 16151 1tm0A 350 3.20e+01 1odeA 122 3.28e+01 d.79.1.2 86846 1eulA 994 3.35e+01 1eulA 1iow 306 3.36e+01 1iow c.30.1.2 31713 d.142.1.1 41481 1jy8A 159 3.42e+01 d.79.5.1 67452 1t0bA 252 3.44e+01 1thfD 253 3.47e+01 1thfD c.1.2.1 28535 1k8hA 133 3.48e+01 b.111.1.1 72176 1cs8A 316 3.50e+01 1cs8A d.3.1.1 37065 1rkqA 282 3.50e+01 c.108.1.10 -6847 1fy7A 278 3.51e+01 1fy7A d.108.1.1 40817 1f8gA 384 3.54e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 1pmmA 466 3.57e+01 c.67.1.6 -8159 1su4A 994 3.58e+01 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1an7A 136 3.59e+01 1seiA d.140.1.1 41465 1us5A 314 3.64e+01 c.94.1.1 -8686 1kao 167 3.67e+01 1ctqA c.37.1.8 32014 1p4dA 330 3.73e+01 unknown_sccs -10522 1abmA 198 3.75e+01 1avmA 1oy1A 228 3.78e+01 c.23.16.2 87548 1mjhA 162 3.79e+01 1mjhA c.26.2.4 31639 1l7dA 384 3.79e+01 c.2.1.4 77774 c.23.12.2 77775 1hxs3 237 3.84e+01 1diaA 306 3.84e+01 1a4iA c.2.1.7 30280 c.58.1.2 33928 1jwwA 80 3.87e+01 d.58.17.1 71919 1isiA 265 3.90e+01 e.4.1.1 71394 1dseA 292 3.92e+01 1ryc a.93.1.1 59130 1l0lA 446 3.93e+01 d.185.1.1 84482 d.185.1.1 84483 1a4iA 301 3.93e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 2bby 69 3.94e+01 2bby a.4.5.15 16148 1fh9A 312 3.96e+01 1taxA c.1.8.3 28913 1iukA 140 3.97e+01 c.2.1.8 83712