# List of top-scoring protein chains for T0242.t2k-w0.5 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 1ixrC 312 3.25e-01 a.4.5.11 76930 c.37.1.20 76931 1ixsB 318 3.28e-01 a.4.5.11 76933 c.37.1.20 76934 1hqcA 324 3.29e-01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1ry2A 663 4.78e-01 e.23.1.1 -12011 1q7lB 88 1.99e+00 1in6A 334 2.63e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1gmiA 136 2.64e+00 b.7.1.1 65309 1in5A 334 3.03e+00 1hqcA a.4.5.11 62599 c.37.1.20 62600 1in7A 334 3.10e+00 1hqcA a.4.5.11 62603 c.37.1.20 62604 1in8A 334 3.17e+00 1hqcA a.4.5.11 62605 c.37.1.20 62606 1in4A 334 3.18e+00 1hqcA a.4.5.11 62597 c.37.1.20 62598 1j7kA 334 3.19e+00 1hqcA a.4.5.11 62695 c.37.1.20 62696 1nlnA 204 3.63e+00 d.3.1.7 -8897 1b89A 449 3.81e+00 1b89A a.118.1.3 19138 6rxn 46 3.88e+00 1rb9 g.41.5.1 45222 1kriA 186 4.49e+00 b.29.1.14 72897 1fts 295 4.83e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 1kqrA 179 5.33e+00 b.29.1.14 72886 1otrB 76 5.64e+00 d.15.1.1 87414 1uelA 95 5.83e+00 d.15.1.1 -9137 1go8P 462 5.93e+00 unknown_sccs 76247 d.92.1.6 76248 1lajA 217 5.98e+00 b.121.4.5 77865 1k7gA 479 6.10e+00 unknown_sccs 77279 d.92.1.6 77280 1go7P 462 6.10e+00 unknown_sccs 76245 d.92.1.6 76246 1k7qA 479 6.11e+00 unknown_sccs 77283 d.92.1.6 77284 1k7iA 479 6.19e+00 unknown_sccs 77281 d.92.1.6 77282 1g2yA 32 6.22e+00 unknown_sccs 17003 1dgmA 363 6.63e+00 1bx4A c.72.1.1 34936 1okiA 210 7.54e+00 b.11.1.1 -3030 b.11.1.1 -3031 1gmwD 143 7.60e+00 b.107.1.1 65353 d.58.38.1 65354 1ud7A 76 7.76e+00 1ubi d.15.1.1 37593 1h1dA 221 7.77e+00 c.66.1.1 83452 1gmuA 143 8.03e+00 b.107.1.1 65335 d.58.38.1 65336 1fxlA 167 8.05e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1qdmA 478 8.57e+00 1smrA a.64.1.2 18141 b.50.1.2 26838 1sjyA 159 8.86e+00 d.113.1.1 -10908 1k2yX 463 9.85e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1cmxB 75 1.04e+01 1ubi d.15.1.1 37595 1p98A 78 1.05e+01 d.15.1.1 -9131 1p3qU 76 1.05e+01 d.15.1.1 87750 1nslA 184 1.11e+01 d.108.1.1 86137 1pbtA 244 1.11e+01 unknown_sccs -6866 1lioA 363 1.18e+01 c.72.1.1 73924 1liiA 363 1.18e+01 c.72.1.1 73921 1p5dX 463 1.26e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1ohmA 44 1.27e+01 unknown_sccs -13298 1ucxA 476 1.27e+01 b.82.1.2 -4852 b.82.1.2 -4853 1ud1A 476 1.28e+01 b.82.1.2 -4858 b.82.1.2 -4859 1fxzA 476 1.28e+01 b.82.1.2 65059 b.82.1.2 65060 1i6vD 1264 1.39e+01 e.29.1.2 61857 1rcuA 195 1.42e+01 unknown_sccs -7279 1kw4A 89 1.48e+01 a.60.1.2 73077 1e6yC 247 1.50e+01 1mroC d.58.31.1 39441 1cc2A 504 1.70e+01 1b8sA c.3.1.2 30337 d.16.1.1 37868 1b8sA 504 1.71e+01 1b8sA c.3.1.2 30335 d.16.1.1 37866 1n4wA 504 1.72e+01 c.3.1.2 -5991 d.16.1.1 -9209 1uqrA 154 1.72e+01 c.23.13.1 -6455 1ijhA 504 1.76e+01 c.3.1.2 66161 d.16.1.1 66162 1cboA 504 1.87e+01 1b8sA c.3.1.2 30336 d.16.1.1 37867 1cc1L 498 1.88e+01 1h2rL e.18.1.1 43301 1s1iU 126 1.90e+01 1c3tA 76 1.91e+01 1ubi d.15.1.1 37594 1iru1 213 1.98e+01 1f3jA 182 2.08e+01 1iakA b.1.1.2 21645 d.19.1.1 38219 9pcy 99 2.11e+01 1plc b.6.1.1 22854 1es0A 190 2.15e+01 1iakA b.1.1.2 21643 d.19.1.1 38217 2iadA 194 2.18e+01 1iakA b.1.1.2 21639 d.19.1.1 38213 1rypA 243 2.36e+01 1pmaA d.153.1.4 41932 1oqyA 368 2.40e+01 a.5.2.1 -347 a.5.2.1 -348 unknown_sccs -1004 d.15.1.1 -9134 1g0uG 252 2.43e+01 d.153.1.4 41952 1f9qA 70 2.46e+01 d.9.1.1 -8939 1ussA 88 2.46e+01 a.4.5.13 -283 1g68A 271 2.63e+01 1btl e.3.1.1 42705 1g6aA 271 2.64e+01 1btl e.3.1.1 42704 1ghtA 105 2.66e+01 2rslA c.53.1.1 60526 1meoA 209 2.73e+01 c.65.1.1 79035 1dppA 507 2.74e+01 1dpe c.94.1.1 35800 1vioA 243 2.77e+01 unknown_sccs -10154 d.66.1.5 -10240 1dpe 507 2.82e+01 1dpe c.94.1.1 35799 1p6gP 82 2.87e+01 i.1.1.1 87834 1g39A 32 2.89e+01 unknown_sccs 17009 1gmvA 143 2.89e+01 b.107.1.1 65343 d.58.38.1 65344 1f9sA 70 2.90e+01 d.9.1.1 -8947 1bjwA 382 2.96e+01 1bjwA c.67.1.1 34349 1bkgA 385 2.98e+01 1bjwA c.67.1.1 34351 1hqmD 1265 2.98e+01 i.8.1.1 45975 1b5pA 385 2.99e+01 c.67.1.1 -8133 1b5oA 385 2.99e+01 c.67.1.1 -8131 1g6hA 257 3.00e+01 1gajA c.37.1.12 60318 5bj3A 385 3.00e+01 c.67.1.1 -8135 5bj4A 385 3.01e+01 c.67.1.1 -8139 1pfmA 68 3.13e+01 1tvxA d.9.1.1 37385 1g9xA 257 3.15e+01 c.37.1.12 76219 1gajA 257 3.17e+01 1gajA c.37.1.12 60416 1egpB 25 3.19e+01 1og7A 43 3.23e+01 unknown_sccs -13299 1mejA 223 3.24e+01 c.65.1.1 79029 1n3yA 198 3.25e+01 c.62.1.1 79976 1abrB 267 3.26e+01 1abrB b.42.2.1 25563 b.42.2.1 25564 1ur1A 378 3.31e+01 c.1.8.3 -5311 1gwiA 411 3.34e+01 a.104.1.1 76364 1k8hA 133 3.36e+01 b.111.1.1 72176 1hyeA 313 3.38e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1mzuA 129 3.49e+01 d.110.3.1 79714 1p6vA 156 3.54e+01 b.111.1.1 -4284 1g8pA 350 3.63e+01 1g8pA c.37.1.20 60376 1n1qA 149 3.65e+01 a.25.1.1 85260 1jwiA 131 3.68e+01 d.169.1.1 67383 3gbp 307 3.83e+01 1gca c.93.1.1 35661 1gca 309 3.86e+01 1gca c.93.1.1 35659 1oxwA 373 3.88e+01 c.19.1.3 87539 1aww 67 3.96e+01 1bbzA b.34.2.1 24529