# List of top-scoring protein chains for t04-100-30-dssp-ehl2-scores 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.soe.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 1c8cA 64 8.86e-01 1azpA b.34.13.1 59084 2q8oA 136 1.15e+00 1dt9A 437 1.98e+00 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1jmcA 246 2.06e+00 1jmcA b.40.4.3,b.40.4.3 25300,25301 1gsoA 431 2.53e+00 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1zmdA 474 2.93e+00 2p9rA 102 3.36e+00 2f2aB 483 4.04e+00 a.182.1.2,d.128.1.5 132802,132803 1iamA 185 4.42e+00 b.1.1.3,b.1.1.4 21653,21689 1pfo 500 4.45e+00 1pfo 1pfoA 500 4.45e+00 f.9.1.1 43826 2vgdA 218 4.46e+00 1tdhA 364 4.56e+00 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1azpA 66 4.57e+00 1azpA b.34.13.1 37467 2z1cA 75 4.96e+00 1j8rA 196 5.41e+00 1j8rA b.2.3.3 62745 2au7A 175 5.77e+00 1i40A 175 5.96e+00 b.40.5.1 66024 1lm8C 96 6.17e+00 d.42.1.1 74034 1acc 735 6.19e+00 1acc 1accA 735 6.19e+00 f.11.1.1 43828 1gpr 162 6.25e+00 1gpr 1gprA 162 6.25e+00 b.84.3.1 28267 2iwxA 214 6.27e+00 d.122.1.1 137758 2breA 219 6.30e+00 d.122.1.1 128994 1cruA 454 7.97e+00 1c9uA b.68.2.1 27617 2fnjC 96 8.78e+00 d.42.1.1 133820 1nb8A 353 9.44e+00 d.3.1.9 80385 2fxqA 264 9.60e+00 2dfbA 190 1.01e+01 b.29.1.11 131470 1nxzA 246 1.02e+01 b.122.1.2,c.116.1.5 86391,86392 1et9A 204 1.07e+01 1an8 b.40.2.2,d.15.6.1 25204,37793 3b5lB 198 1.10e+01 1suuA 312 1.12e+01 b.68.10.1 99006 2elcA 329 1.14e+01 1vhyA 257 1.17e+01 b.122.1.2,c.116.1.5 100714,100715 1s3rA 535 1.24e+01 1xxpA 306 1.34e+01 c.45.1.2 122423 1pkp 150 1.52e+01 1pkp 1sglA 209 1.60e+01 d.124.1.1 105536 2gllA 171 1.69e+01 1xyiA 66 1.80e+01 3bjuA 521 1.88e+01 2b1mA 246 1.92e+01 2hngA 127 2.04e+01 1zc3B 113 2.17e+01 b.55.1.1 124881 2vc8A 84 2.19e+01 2fp8A 322 2.41e+01 1cfb 205 2.44e+01 1cfb 1cfbA 205 2.44e+01 b.1.2.1,b.1.2.1 21991,21992 2frqA 225 2.47e+01 d.3.1.1 133999 2eixA 243 2.47e+01 1jzgA 128 2.50e+01 b.6.1.1 67855 1ntnA 72 2.51e+01 g.7.1.1 44414 1d7cA 190 2.52e+01 1d7bA b.1.9.1 22309 1d5rA 324 2.55e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 2rb6A 61 2.68e+01 1vpmA 169 2.68e+01 d.38.1.1 113967 1hc9B 74 2.74e+01 g.7.1.1 65787 2gu3A 136 2.78e+01 1nciA 110 2.84e+01 1edhA b.1.6.1 22191 2ra2A 64 2.85e+01 2dc4A 165 2.89e+01 1y7mA 164 2.91e+01 b.160.1.1,d.7.1.1 122696,122697 1vr3A 191 2.91e+01 b.82.1.6 120431 1molA 94 3.05e+01 1molA d.17.1.1 37988 1cs8A 316 3.07e+01 1cs8A d.3.1.1 37065 1o04A 500 3.20e+01 c.82.1.1 86508 3b77A 193 3.26e+01 2biwA 490 3.28e+01 1pl3A 186 3.32e+01 b.1.9.1 88158 2p4oA 306 3.33e+01 3b93A 133 3.42e+01 1fuiA 591 3.43e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1k8wA 327 3.48e+01 b.122.1.1,d.265.1.2 83094,90388 3buuA 229 3.53e+01 2q1mA 130 3.55e+01 1jl0A 334 3.60e+01 1jenA d.156.1.1 63155 1xvxA 312 3.60e+01 c.94.1.1 116097 1h5yA 253 3.61e+01 c.1.2.1 65638 2e7dA 131 3.64e+01 2nqdB 221 3.66e+01 1yqyA 523 3.69e+01 d.92.1.14,d.166.1.1 123903,123904 2f4pA 147 3.70e+01 b.82.1.9 132933 1ykjA 394 3.72e+01 2bghA 421 3.72e+01 1jenA 267 3.74e+01 1jenA 2ft6A 124 3.80e+01 1f2tA 149 3.85e+01 1f2tA c.37.1.12 32373 1djrD 103 3.86e+01 3chbD b.40.2.1 24865 1pjjA 271 3.89e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1tdzA 272 3.89e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1ytw 306 3.92e+01 1ytw 1lyvA 306 3.92e+01 c.45.1.2 74348 1vb0A 61 3.92e+01 g.7.1.1 113601 1k0iA 394 3.98e+01 c.3.1.2,d.16.1.2 67942,67943 1j7nA 776 4.01e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1hc9A 74 4.03e+01 g.7.1.1 65786 1lt5D 103 4.06e+01 3chbD b.40.2.1 24875 1yfuA 174 4.11e+01 b.82.1.20 123094 1nqcA 217 4.16e+01 d.3.1.1 86024 1gof 639 4.19e+01 1gof 2e2dC 180 4.20e+01 b.40.3.1 131980 1v8hA 107 4.20e+01 b.1.18.19 119870 2apr 325 4.25e+01 2er7E 2aprA 325 4.25e+01 b.50.1.2 26819 1be9A 119 4.26e+01 1pdr b.36.1.1 24774 1ynaA 194 4.32e+01 b.29.1.11 24335 1q7hA 153 4.33e+01 b.122.1.1,d.17.6.2 96042,96043 1x6oA 174 4.38e+01 b.34.5.2,b.40.4.5 109493,109494 2h7jA 220 4.39e+01 d.3.1.1 136216 2bs6A 90 4.41e+01 2gnrA 145 4.42e+01 1o7iA 119 4.43e+01 b.40.4.3 86642 1xfoA 357 4.44e+01 b.49.3.1,c.56.5.4 115265,115266 3cloA 258 4.46e+01 3b9eA 584 4.52e+01 1tf4A 605 4.56e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1fh0A 221 4.71e+01 1cs8A d.3.1.1 59832 1tp5A 119 4.79e+01 b.36.1.1 119305 1fnyA 237 4.91e+01 1led b.29.1.1 59920 1azwA 313 4.92e+01 1qtrA c.69.1.7 34658 1olzA 663 4.99e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1n0uA 842 5.01e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 2bt9A 90 5.02e+01 2rcfA 91 5.05e+01 1fi8A 228 5.07e+01 5ptp b.47.1.2 26374 1nwpA 128 5.17e+01 1nwpA b.6.1.1 23011 3cc6A 281 5.21e+01 1tp6A 128 5.28e+01 d.17.4.12 107184 2qntA 141 5.29e+01 1uylA 236 5.35e+01 d.122.1.1 108147 1bb8 71 5.35e+01 2bb8 1bb8A 71 5.35e+01 d.10.1.1 37478 2inbA 140 5.39e+01 2cb5A 453 5.41e+01 3gcb d.3.1.1 37035 3bb7A 321 5.44e+01 1wpxB 220 5.45e+01 2dnjA 260 5.51e+01 3dni d.151.1.1 41790 2quoA 126 5.54e+01 1y0yA 353 5.64e+01 b.49.3.1,c.56.5.4 122514,122515 1ywhA 313 5.64e+01 3dni 260 5.74e+01 3dni 1theA 260 5.78e+01 1theB d.3.1.1 37056 1yarA 233 5.86e+01 d.153.1.4 122837 1bt3A 345 5.95e+01 1bt3A a.86.1.2 18507 2iabA 155 5.95e+01 1sfp 114 6.00e+01 1sfp 1sfpA 114 6.00e+01 b.23.1.1 23895 1br9 194 6.02e+01 1br9 2joeA 139 6.06e+01 1zm8A 259 6.10e+01 1qw9A 502 6.14e+01 b.71.1.2,c.1.8.3 96466,96467 1ddwA 120 6.17e+01 1evhA b.55.1.4 27001 1v1pA 211 6.24e+01 b.40.2.2,d.15.6.1 108268,108269 2gzsA 278 6.36e+01 1hztA 190 6.36e+01 1i9aA d.113.1.2 61459 3bduA 62 6.37e+01 2yu6A 141 6.48e+01 2pd8A 149 6.52e+01 2i1mA 333 6.56e+01 2bsfA 176 6.61e+01 2fr2A 172 6.63e+01 b.60.1.8 133963 2d73A 738 6.65e+01 2a1vA 144 6.65e+01 d.198.3.1 126019 2pdrA 149 6.67e+01 1ua4A 455 6.68e+01 c.72.1.3 99128 1z85A 234 6.69e+01 1rypG 244 6.72e+01 d.153.1.4 41938 2fvgA 340 6.76e+01 b.49.3.1,c.56.5.4 134201,134202 2nqrA 411 6.77e+01 b.85.6.1,b.103.1.1,c.57.1.2 138490,138491,138492 1bkb 136 6.77e+01 1bkb 1bkbA 136 6.77e+01 b.34.5.2,b.40.4.5 24609,25341 1iyjB 817 6.80e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 1s4iA 175 6.83e+01 1vcaA 202 6.84e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1xtlA 175 6.85e+01 1g8lA 411 6.85e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1qfjA 232 6.86e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1sq9A 397 6.91e+01 b.69.4.1 105889 1byqA 228 6.93e+01 1yer d.122.1.1 41100 1z47A 355 6.93e+01 2icgA 160 7.00e+01 2cbiA 594 7.02e+01 a.246.1.1,c.1.8.10,d.92.2.3 130179,130180,130181 1gmyA 261 7.05e+01 d.3.1.1 76236 2ix2B 245 7.05e+01 1pfsA 78 7.05e+01 1pfsA b.40.4.7 25391 1rhyA 202 7.06e+01 d.14.1.9,d.14.1.9 97491,97492 1se8A 301 7.10e+01 b.40.4.3 105448 1d2oA 187 7.16e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1q5fA 156 7.18e+01 d.24.1.1 104536 1w23A 360 7.18e+01 c.67.1.4 114088 1wosA 364 7.21e+01 b.44.2.1,d.250.1.1 109468,109469 2c8eE 211 7.29e+01 1kv9A 668 7.29e+01 a.3.1.6,b.70.1.1 73056,73057 1ll8A 114 7.41e+01 d.110.3.5 78089 1qtrA 317 7.43e+01 1qtrA c.69.1.7 34660 2h61A 92 7.46e+01 a.39.1.2 136169 2fl4A 149 7.47e+01 d.108.1.1 133706 1w9hA 427 7.48e+01 c.55.3.10 120785 1f0nA 285 7.51e+01 1dqyA c.69.1.3 34636 1havA 217 7.55e+01 1havA b.47.1.4 26423 1w15A 153 7.57e+01 b.7.1.2 109041 1d7yA 408 7.67e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1us8A 147 7.71e+01 c.37.1.12 99859 2iciA 227 7.75e+01 1gjwA 637 7.76e+01 b.71.1.1,c.1.8.1 60582,60583 1k3iA 656 7.79e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 2jn0A 61 7.89e+01 1li1A 229 7.90e+01 d.169.1.6,d.169.1.6 73898,73899 2q9vA 90 7.93e+01 1m3iA 471 7.95e+01 f.9.1.1 91178 3cbjA 266 7.97e+01 1jdpA 441 7.98e+01 c.93.1.1 62906 1dkzA 219 7.98e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1yemA 179 7.99e+01 d.63.1.2 116646