# List of top-scoring protein chains for t2k-100-30-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 1hs6A 611 7.74e-01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1q44A 326 8.24e-01 c.37.1.5 95779 1mk4A 157 1.37e+00 d.108.1.1 84979 1po5A 476 3.05e+00 a.104.1.1 94963 1ryaA 160 3.16e+00 d.113.1.5 105122 6pfkA 319 4.42e+00 3pfk c.89.1.1 35583 1y13A 181 5.28e+00 4pfk 319 5.65e+00 3pfk c.89.1.1 35582 3pfk 319 5.69e+00 3pfk c.89.1.1 35581 1b04A 318 6.08e+00 1b04A d.142.2.2 41579 1vpqA 273 6.97e+00 1seqL 213 7.17e+00 1wekA 217 7.50e+00 2fg9A 178 7.86e+00 1aaqA 99 7.88e+00 1fmb b.50.1.1 26688 1zo2A 129 8.27e+00 2arhA 203 1.02e+01 1xt8A 292 1.10e+01 1hnoA 280 1.11e+01 1hnoA c.14.1.3 61095 1cjwA 166 1.18e+01 1cjwA d.108.1.1 40818 1qhdA 398 1.21e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1hnuA 280 1.23e+01 1hnoA c.14.1.3 61096 1ugmA 125 1.24e+01 d.15.1.3 107827 1cqqA 180 1.25e+01 1cqqA b.47.1.4 26422 1kuxA 207 1.26e+01 d.108.1.1 73021 1cr5A 189 1.27e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1pjhA 280 1.30e+01 c.14.1.3 94761 1dc1A 323 1.56e+01 1dc1A c.52.1.11 33321 1cei 94 1.60e+01 1cei a.28.2.1 16939 1kzkA 99 1.61e+01 b.50.1.1 73371 2aq9A 262 1.72e+01 1lxa 262 1.73e+01 1lxa b.81.1.1 28052 1t5yA 190 1.73e+01 b.122.1.1,d.17.6.3 106495,106496 1w9gA 104 1.79e+01 1difA 99 2.03e+01 1fmb b.50.1.1 26503 1ar0A 127 2.08e+01 1ounA d.17.4.2 38092 2bbhA 269 2.10e+01 1ncwL 219 2.17e+01 b.1.1.1,b.1.1.2 85557,85558 1aidA 99 2.21e+01 1fmb b.50.1.1 26591 1axaA 99 2.29e+01 1hvc b.50.1.1 26633 2glfA 450 2.37e+01 1qk9A 92 2.41e+01 1qk9A d.10.1.3 37485 1qhhD 169 2.52e+01 1pjr 1kbuA 349 2.65e+01 a.60.9.1,d.163.1.1 72284,72285 1w0pA 781 2.73e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 2crbA 97 2.76e+01 1ji2A 585 2.83e+01 b.1.18.2,b.71.1.1,c.1.8.1 71672,71673,71674 1s6cA 183 2.88e+01 a.39.1.5 98594 1pkp 150 2.88e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1gkuB 1054 3.04e+01 c.37.1.16,c.37.1.16,e.10.1.1 65257,65258,65259 1jp3A 253 3.22e+01 1f75A c.101.1.1 63221 1hvc 203 3.28e+01 1hvc b.50.1.1 26614 3crxA 343 3.35e+01 4crxA a.60.9.1,d.163.1.1 18101,42161 1ffkT 154 3.36e+01 1ffkT d.59.1.1 39527 1pfxC 235 3.46e+01 5ptp b.47.1.2 26353 1g6zA 70 3.47e+01 1g6zA b.34.13.2 60321 1jmuB 666 3.48e+01 2ctoA 93 3.49e+01 1aol 228 3.53e+01 1aol b.20.1.1 23840 1vhsA 175 3.54e+01 d.108.1.1 100698 1tgoA 773 3.55e+01 1tgoA c.55.3.5,e.8.1.1 33721,43010 1paqA 189 3.61e+01 a.118.1.14 94413 1unkA 87 3.63e+01 1cei a.28.2.1 16935 2a6tA 271 3.64e+01 2if1 126 3.66e+01 2if1 d.64.1.1 39547 1gy7A 125 3.66e+01 d.17.4.2 70738 1ii7A 333 3.79e+01 1ii7A d.159.1.4 62415 1a94A 99 3.80e+01 1fmb b.50.1.1 26599 1v93A 296 3.83e+01 c.1.23.1 100532 1ryiA 382 3.85e+01 1bvzA 585 3.93e+01 1bvzA b.1.18.2,b.71.1.1,c.1.8.1 21856,27783,28770 1uteA 313 3.99e+01 1uteA d.159.1.1 42078 2faoA 309 4.15e+01 1gpeA 587 4.16e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1askA 127 4.21e+01 1ounA d.17.4.2 38094 1iufA 144 4.31e+01 a.4.1.7,a.4.1.7 71439,71440 1sqwA 188 4.35e+01 5hvpA 99 4.44e+01 1fmb b.50.1.1 26605 1uehA 253 4.51e+01 c.101.1.1 99259 1nh0A 99 4.59e+01 b.50.1.1 91869 1wz7A 111 4.61e+01 1io0A 185 4.61e+01 c.10.1.1 76753 1j54A 186 4.68e+01 c.55.3.5 77077 1l3lA 234 4.81e+01 a.4.6.2,d.110.5.1 73541,73542 1a9mA 99 4.82e+01 1hvc b.50.1.1 26642 1d7cA 190 4.90e+01 1d7bA b.1.9.1 22309 2gviA 204 4.93e+01 2be4A 272 4.97e+01 1d7bA 186 4.99e+01 1d7bA b.1.9.1 22307 1jb2A 127 5.04e+01 d.17.4.2 71624 1ng4A 390 5.05e+01 c.3.1.2,d.16.1.3 85666,85667 1v1rB 342 5.06e+01 c.36.1.7,c.48.1.2 108273,108274 1kit 757 5.09e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 1j0hA 588 5.18e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 2etgA 296 5.22e+01 1zi8A 236 5.24e+01 1i1jA 108 5.35e+01 1i1jA b.34.2.1 61531 1din 236 5.35e+01 1din c.69.1.9 34682 1crxA 322 5.37e+01 4crxA a.60.9.1,d.163.1.1 18097,42157 1chkA 238 5.37e+01 1chkA d.2.1.7 36999 1si2A 149 5.40e+01 b.34.14.1 105569 1ounA 127 5.44e+01 1ounA d.17.4.2 38090 2fswA 107 5.49e+01 1tl9A 339 5.64e+01 1khyA 148 5.67e+01 a.174.1.1 77410 1wzlA 585 5.71e+01 1tygB 87 5.76e+01 d.15.3.2 107455 1d9eA 284 5.76e+01 1d9eA c.1.10.4 29195 1x7yB 342 5.80e+01 1gjwA 637 5.83e+01 b.71.1.1,c.1.8.1 60582,60583 1s57A 153 5.85e+01 1qqcA 773 5.86e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 2sfa 191 5.93e+01 1qq4A b.47.1.1 25815 1l1nA 183 6.01e+01 b.47.1.4 73476 1nr3A 122 6.01e+01 d.236.1.1 86092 2b82A 211 6.02e+01 1n8nA 212 6.09e+01 c.108.1.12 91706 1olsB 342 6.23e+01 c.36.1.7,c.48.1.2 93332,93333 1vid 221 6.23e+01 1vid c.66.1.1 34178 1h1dA 221 6.25e+01 c.66.1.1 83452 1rmwA 212 6.25e+01 1u96A 69 6.31e+01 1dtwB 342 6.33e+01 1qs0B c.36.1.7,c.48.1.2 31828,33102 1o22A 170 6.43e+01 d.238.1.1 86557 1ub1A 133 6.47e+01 d.10.1.3 99140 2sgpE 185 6.56e+01 1qq4A b.47.1.1 25825 1ipwA 175 6.61e+01 2prd b.40.5.1 25427 2fyxA 143 6.71e+01 1tw7A 99 6.76e+01 4crxA 322 6.80e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 2bfdB 345 6.81e+01 1sgpE 185 6.90e+01 1qq4A b.47.1.1 25816 1a59 378 7.00e+01 1aj8A a.103.1.1 18902 1mu5A 471 7.05e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1a3rL 220 7.07e+01 8fabA b.1.1.1,b.1.1.2 19780,20890 1gjuA 637 7.09e+01 b.71.1.1,c.1.8.1 60580,60581 1i2oA 316 7.20e+01 1onrA c.1.10.1 61574 1yozA 116 7.34e+01 1yioA 208 7.37e+01 1xo0A 324 7.43e+01 1mwwA 128 7.52e+01 d.80.1.4 91483 1p9yA 121 7.85e+01 d.241.2.1 94402 1z7uA 112 7.86e+01 1g7vA 284 7.89e+01 1d9eA c.1.10.4 60335 1iu9A 111 7.93e+01 c.78.2.1 90694 1ton 235 7.97e+01 5ptp b.47.1.2 26307 1r8oB 71 8.02e+01 1wolA 122 8.05e+01 1kxrA 339 8.10e+01 d.3.1.3 73175 1hiwA 133 8.11e+01 1hiwA a.61.1.1 18122 1wmsA 177 8.12e+01 c.37.1.8 109414 1ci0A 228 8.28e+01 1ci0A b.45.1.1 25750 1v98A 140 8.38e+01 1o20A 427 8.46e+01 c.82.1.1 86556 1zw8A 64 8.47e+01 15c8L 213 8.53e+01 8fabA b.1.1.1,b.1.1.2 20300,21292 1f5mA 180 8.55e+01 1f5mB d.110.2.1 40895 1i0cA 60 8.65e+01 1aojA b.34.2.1 61485 1gy6A 127 8.79e+01 d.17.4.2 70736 1mdwA 328 8.87e+01 d.3.1.3 84934 2gwhA 298 8.98e+01