# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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.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 2coeA 120 4.17e-01 2herA 368 4.43e-01 1ip9A 85 4.81e-01 1ip9A d.15.2.2 62638 1f45B 197 1.02e+00 1f45B a.26.1.1 59642 2h88C 140 1.07e+00 1x3xA 82 1.23e+00 2fbwC 141 1.77e+00 1zoyC 140 2.01e+00 1i7hA 111 2.09e+00 d.15.4.1 71122 1dmhA 311 2.49e+00 1dmhA b.3.6.1 22633 1irdA 141 2.61e+00 a.1.1.2 66286 1babA 143 2.94e+00 1abwA a.1.1.2 15235 2b2nA 344 3.14e+00 1ypqA 135 3.43e+00 1ow4A 129 3.67e+00 a.39.2.1 93628 1cmbA 104 4.77e+00 1cmbA a.43.1.5 17460 1dwnA 127 5.65e+00 1dwnA d.85.1.1 40141 1zq9A 285 6.04e+00 1j7yA 141 6.15e+00 a.1.1.2 66426 2azqA 311 7.33e+00 1xzoA 174 7.88e+00 1d4vA 117 8.29e+00 1d4vA g.24.1.1,g.24.1.1,g.24.1.1 44915,44916,44917 1pzlA 237 9.62e+00 a.123.1.1 104393 1wguA 136 9.86e+00 1gox 370 9.98e+00 1gox c.1.4.1 28607 1cmcA 104 1.08e+01 1cmbA a.43.1.5 17462 1fzrA 138 1.10e+01 1fzrA c.52.1.17 33336 1sc3B 88 1.14e+01 1jx2B 315 1.18e+01 c.37.1.8 67404 2bi7A 384 1.25e+01 1kthA 58 1.27e+01 g.8.1.1 68863 2knt 58 1.30e+01 1bpi g.8.1.1 44537 1t0qC 86 1.31e+01 d.15.12.1 106222 1bmqB 88 1.41e+01 1pauB 1reqA 727 1.43e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1lzjA 292 1.56e+01 c.68.1.9 74352 1kqfC 217 1.60e+01 f.21.1.1 72874 1sd4A 126 1.61e+01 a.4.5.39 105428 1iwhA 141 1.63e+01 a.1.1.2 76882 5reqA 727 1.66e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1zm7A 230 1.71e+01 1kk8B 139 1.78e+01 a.39.1.5 77430 2bsjA 133 1.78e+01 1e1hA 287 1.80e+01 d.92.1.7 83167 1i9bA 217 1.84e+01 1i9bA b.96.1.1 62084 1h8bA 75 1.84e+01 a.39.1.7 60736 1khbA 625 1.86e+01 c.91.1.1,c.109.1.1 68606,68607 2g0qA 173 1.88e+01 1wdcB 156 1.91e+01 1wdcB a.39.1.5 17302 1hx1B 114 1.98e+01 1hx1B a.7.7.1 61350 1m0dA 138 2.06e+01 c.52.1.17 74354 1wwuA 99 2.11e+01 2d0sA 79 2.11e+01 2bw3A 534 2.18e+01 1zowA 313 2.21e+01 1dzlA 505 2.22e+01 1dzlA b.121.6.1 23586 1i19A 561 2.29e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1wudA 89 2.39e+01 1wmuA 141 2.40e+01 a.1.1.2 109416 1t4oA 117 2.50e+01 d.50.1.1 106425 1oe0A 230 2.60e+01 c.37.1.1 92788 2bhoA 130 2.62e+01 1gmuA 143 2.71e+01 b.107.1.1,d.58.38.1 65335,65336 2d5xA 141 2.73e+01 1nkiA 135 2.89e+01 d.32.1.2 91941 1ww8A 439 3.21e+01 1j1uA 306 3.28e+01 c.26.1.1 83980 1wozA 177 3.34e+01 2gcuA 245 3.35e+01 1xw5A 217 3.48e+01 2bshA 125 3.48e+01 2anxA 146 3.52e+01 1n46A 258 3.58e+01 a.123.1.1 85315 1sgpI 51 3.58e+01 2ovo g.68.1.1 44678 1sig 339 3.61e+01 1sig a.177.1.1 19068 1d3gA 367 3.66e+01 1d3gA c.1.4.1 28600 2c4jA 218 3.69e+01 2bidA 197 3.74e+01 2bidA f.1.4.1 43398 1r0rI 51 3.75e+01 g.68.1.1 96736 2ct5A 73 3.86e+01 1oeyA 83 3.89e+01 d.15.2.2 92800 1ux2A 212 3.93e+01 b.96.1.1 100132 1ct9A 553 4.03e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1j2mA 99 4.09e+01 a.165.1.1 84018 1h7cA 108 4.13e+01 a.7.5.1 70914 1gc5A 467 4.14e+01 1gc5A c.72.1.3 60429 1yqbA 100 4.15e+01 1fs0E 138 4.19e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 1d8bA 81 4.19e+01 1d8bA a.60.8.1 18094 1y2oA 250 4.20e+01 2occH 85 4.23e+01 2occH a.51.1.1 17796 1xg1A 67 4.23e+01 1kv0A 66 4.25e+01 g.3.7.1 91040 1ef1C 90 4.28e+01 1ef1C a.137.5.1 19642 1f2vA 219 4.29e+01 1f2vA c.23.17.1 59627 2ftzA 284 4.29e+01 1sseB 86 4.33e+01 1h5zA 455 4.38e+01 a.104.1.1 90622 1sf8A 126 4.53e+01 d.271.1.1 105472 1w2lA 99 4.67e+01 1hh8A 213 4.70e+01 1e96B a.118.8.1 61042 1pvyA 227 4.70e+01 d.115.1.2 95195 2fuqA 747 4.71e+01 1wddS 128 4.73e+01 1ckv 141 4.74e+01 1ckv d.137.1.1 41452 1n2fA 142 4.76e+01 d.227.1.1 79853 1dgfA 497 4.78e+01 1cf9A e.5.1.1 42782 1lqpA 135 4.79e+01 d.32.1.2 78151 1kx5D 125 4.81e+01 a.22.1.1 77596 1jy2N 53 4.81e+01 h.1.8.1 67440 1rdr 461 4.92e+01 1rdr e.8.1.4 43116 1xw3A 110 4.92e+01 1jy2O 56 5.02e+01 h.1.8.1 67441 1vquA 374 5.08e+01 1uw6A 211 5.11e+01 b.96.1.1 100079 1v7zA 260 5.14e+01 c.125.1.1 100488 2fha 183 5.17e+01 2fha a.25.1.1 16674 1wv2A 265 5.21e+01 1wm5A 208 5.27e+01 1cpq 129 5.30e+01 1cpq a.24.3.2 16556 1cxpA 104 5.37e+01 1d2vA a.93.1.2 18695 1d2vA 104 5.37e+01 1d2vA a.93.1.2 18697 1kn7A 78 5.38e+01 j.12.1.1 84413 2c5kT 95 5.44e+01 1wz7A 111 5.46e+01 2f6mB 109 5.48e+01 1ua4A 455 5.52e+01 c.72.1.3 99128 1v54H 85 5.56e+01 a.51.1.1 100329 1snnA 227 5.59e+01 d.115.1.2 105821 1bo1A 416 5.61e+01 1bo1A d.143.1.2 41591 1cwxA 44 5.63e+01 1cwxA j.54.1.1 46338 1thx 115 5.75e+01 1thx c.47.1.1 32732 1q60A 99 5.80e+01 1uv6A 210 5.82e+01 b.96.1.1 100030 1xm7A 195 5.87e+01 2clbA 188 6.09e+01 1xqbA 247 6.17e+01 1o8vA 134 6.22e+01 b.60.1.2 86680 1ywlA 96 6.25e+01 2ao9A 155 6.33e+01 1fobA 334 6.42e+01 c.1.8.3 83255 1poiA 317 6.46e+01 1poiA c.124.1.2 34153 1udkA 51 6.53e+01 g.3.14.1 99211 1pyoB 105 6.53e+01 1bbhA 131 6.54e+01 1bbhA a.24.3.2 16546 1h59B 54 6.71e+01 g.3.9.1 70881 2f66C 82 6.74e+01 1o7nB 194 6.74e+01 d.17.4.4 81164 2dhqA 146 6.75e+01 2dhqA c.23.13.1 31382 2c31A 568 6.75e+01 1ysrA 150 6.87e+01 1uwmA 106 6.87e+01 1j1qA 261 6.99e+01 d.165.1.1 90768 1v63A 101 6.99e+01 a.21.1.1 108391 1whtB 153 6.99e+01 1whtB 2nacA 393 7.01e+01 2nadA c.2.1.4,c.23.12.1 30088,31348 1y5oA 115 7.03e+01 1t6aA 126 7.11e+01 d.129.8.1 106555 1w36D 608 7.12e+01 1whsB 153 7.16e+01 1whtB 1ppjG 81 7.23e+01 f.23.13.1 104263 1cc1L 498 7.38e+01 1h2rL e.18.1.1 43301 1xn8A 131 7.38e+01 1t9xA 1049 7.48e+01 1n6zA 105 7.64e+01 d.263.1.1 85369 1b5qA 472 7.64e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 2bmaA 470 7.64e+01 1e9mA 106 7.70e+01 1ayfA d.15.4.1 59397 1w9gA 104 7.78e+01 1tp4A 97 7.82e+01 a.189.1.1 107183 1ncs 47 7.82e+01 1ncs g.37.1.1 45040 1j8yF 297 7.86e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1pcxA 810 7.89e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1dgnA 89 8.13e+01 1dgnA a.77.1.3 18436 1k3bB 164 8.15e+01 d.3.1.1 72015 2hbg 147 8.21e+01 2hbg a.1.1.2 15014 1y9bA 90 8.27e+01 1wmbA 260 8.28e+01 1ckiA 317 8.30e+01 1csn d.144.1.7 41660 1k9jA 139 8.34e+01 d.169.1.1 68353 1j8mF 297 8.35e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1ifqA 138 8.35e+01 1ifqA d.110.4.1 62350 1t4fM 110 8.38e+01 1xmrA 243 8.41e+01 1zb9A 143 8.44e+01 1ac5 483 8.58e+01 1ac5 c.69.1.5 34653 1s1hM 132 8.58e+01 i.1.1.1 105165 1vejA 74 8.58e+01 1r6xA 395 8.60e+01 b.122.1.3,c.26.1.5 97167,97168 1eg9B 194 8.60e+01 1ndoB d.17.4.4 38120 1e9xA 455 8.64e+01 1ea1A a.104.1.1 18969 2f6rA 281 8.83e+01 2ge7A 108 8.93e+01